https://www.ccn.ucla.edu/wiki/api.php?action=feedcontributions&feedformat=atom&user=JDell%27Italia 2026-05-06T08:40:36Z User contributions MediaWiki 1.43.6 https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2908 2015-03-19T16:36:21Z

<p>JDell&#039;Italia: /* SQUIDs and MRI Contrast Agents. Speaker: Massoud Akhtari */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> :* Lecture Slides:[[media:SQUIDs_Slides.pdf | SQUIDs Lecture Slides]] <br /> ''Superconducting QUantum Interference Devices''<br /> :* What is superconductivity<br /> :* What are SQUIDs<br /> :* Basic physics of SQUIDs<br /> :* Basic principles of measuring small magnetic fields <br /> :* Applications<br /> ''Suggested Further Readings''<br /> :*[[media:W5 Baillet et al (2001).pdf | SQUIDs additional reading]]<br /> <br /> ''Principles and roles of contrast agents on MRI''<br /> :* What are contrast agents<br /> :* What are the physical principles of MRI contrast agents<br /> :* Different classes of MRI contrast agents: Passive vs active<br /> :* examples of various contrast agents<br /> :* Physiological and safety requirements of contrast agents<br /> :* Targeted contrast agents<br /> ''Suggested Further Readings''<br /> :*[[media:MNP_physchem.pdf | MMP readings]]<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*[[media:SaddikUltrasound2015.pdf‎ | Ultrasound Slides]]<br /> <br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*[[media:Otis_optogenetics_lecture_2_11_15_SM.pdf | Optogenetics slides]]<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> :*[[media:PET_2015_SM.pdf | Dr. Dahlbom's PET handout]]<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:NITP_PET_2-23-15_SM.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> Class canceled due to scheduling problems.<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:NITP-talk-2015-03-04-distribution_SM.pdf | Wu Lecture slides 2015]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> === - Multimodal imaging. ''Speaker:'' Mark Cohen - ===<br /> ''Required Readings''<br /> :* [[media:MultiModalNITP2014_SM.pdf | Cohen Lecture slides 2014]]<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2907 2015-03-19T16:35:09Z

<p>JDell&#039;Italia: /* SQUIDs and MRI Contrast Agents. Speaker: Massoud Akhtari */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> :* Lecture Slides:[[media:SQUIDs_Slides.pdf]] <br /> ''Superconducting QUantum Interference Devices''<br /> :* What is superconductivity<br /> :* What are SQUIDs<br /> :* Basic physics of SQUIDs<br /> :* Basic principles of measuring small magnetic fields <br /> :* Applications<br /> ''Suggested Further Readings''<br /> :*[[File: W5 Baillet et al (2001).pdf]]<br /> <br /> ''Principles and roles of contrast agents on MRI''<br /> :* What are contrast agents<br /> :* What are the physical principles of MRI contrast agents<br /> :* Different classes of MRI contrast agents: Passive vs active<br /> :* examples of various contrast agents<br /> :* Physiological and safety requirements of contrast agents<br /> :* Targeted contrast agents<br /> ''Suggested Further Readings''<br /> :*[[File: MNP_physchem.pdf]]<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*[[media:SaddikUltrasound2015.pdf‎ | Ultrasound Slides]]<br /> <br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*[[media:Otis_optogenetics_lecture_2_11_15_SM.pdf | Optogenetics slides]]<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> :*[[media:PET_2015_SM.pdf | Dr. Dahlbom's PET handout]]<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:NITP_PET_2-23-15_SM.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> Class canceled due to scheduling problems.<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:NITP-talk-2015-03-04-distribution_SM.pdf | Wu Lecture slides 2015]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> === - Multimodal imaging. ''Speaker:'' Mark Cohen - ===<br /> ''Required Readings''<br /> :* [[media:MultiModalNITP2014_SM.pdf | Cohen Lecture slides 2014]]<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2906 2015-03-19T16:34:52Z

<p>JDell&#039;Italia: /* SQUIDs and MRI Contrast Agents. Speaker: Massoud Akhtari */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> :* Lecture Slides:[[file:SQUIDs_Slides.pdf]] <br /> ''Superconducting QUantum Interference Devices''<br /> :* What is superconductivity<br /> :* What are SQUIDs<br /> :* Basic physics of SQUIDs<br /> :* Basic principles of measuring small magnetic fields <br /> :* Applications<br /> ''Suggested Further Readings''<br /> :*[[File: W5 Baillet et al (2001).pdf]]<br /> <br /> ''Principles and roles of contrast agents on MRI''<br /> :* What are contrast agents<br /> :* What are the physical principles of MRI contrast agents<br /> :* Different classes of MRI contrast agents: Passive vs active<br /> :* examples of various contrast agents<br /> :* Physiological and safety requirements of contrast agents<br /> :* Targeted contrast agents<br /> ''Suggested Further Readings''<br /> :*[[File: MNP_physchem.pdf]]<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*[[media:SaddikUltrasound2015.pdf‎ | Ultrasound Slides]]<br /> <br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*[[media:Otis_optogenetics_lecture_2_11_15_SM.pdf | Optogenetics slides]]<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> :*[[media:PET_2015_SM.pdf | Dr. Dahlbom's PET handout]]<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:NITP_PET_2-23-15_SM.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> Class canceled due to scheduling problems.<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:NITP-talk-2015-03-04-distribution_SM.pdf | Wu Lecture slides 2015]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> === - Multimodal imaging. ''Speaker:'' Mark Cohen - ===<br /> ''Required Readings''<br /> :* [[media:MultiModalNITP2014_SM.pdf | Cohen Lecture slides 2014]]<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2905 2015-03-19T16:33:33Z

<p>JDell&#039;Italia: /* SQUIDs and MRI Contrast Agents. Speaker: Massoud Akhtari */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> :* Lecture Slides:[[File: SQUIDs_Slides.pdf]] <br /> ''Superconducting QUantum Interference Devices''<br /> :* What is superconductivity<br /> :* What are SQUIDs<br /> :* Basic physics of SQUIDs<br /> :* Basic principles of measuring small magnetic fields <br /> :* Applications<br /> ''Suggested Further Readings''<br /> :*[[File: W5 Baillet et al (2001).pdf]]<br /> <br /> ''Principles and roles of contrast agents on MRI''<br /> :* What are contrast agents<br /> :* What are the physical principles of MRI contrast agents<br /> :* Different classes of MRI contrast agents: Passive vs active<br /> :* examples of various contrast agents<br /> :* Physiological and safety requirements of contrast agents<br /> :* Targeted contrast agents<br /> ''Suggested Further Readings''<br /> :*[[File: MNP_physchem.pdf]]<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*[[media:SaddikUltrasound2015.pdf‎ | Ultrasound Slides]]<br /> <br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*[[media:Otis_optogenetics_lecture_2_11_15_SM.pdf | Optogenetics slides]]<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> :*[[media:PET_2015_SM.pdf | Dr. Dahlbom's PET handout]]<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:NITP_PET_2-23-15_SM.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> Class canceled due to scheduling problems.<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:NITP-talk-2015-03-04-distribution_SM.pdf | Wu Lecture slides 2015]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> === - Multimodal imaging. ''Speaker:'' Mark Cohen - ===<br /> ''Required Readings''<br /> :* [[media:MultiModalNITP2014_SM.pdf | Cohen Lecture slides 2014]]<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2904 2015-03-19T16:32:53Z

<p>JDell&#039;Italia: /* SQUIDs and MRI Contrast Agents. Speaker: Massoud Akhtari */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> :* Lecture Slides:[[File:SQUIDs_Slides.pdf]] <br /> ''Superconducting QUantum Interference Devices''<br /> :* What is superconductivity<br /> :* What are SQUIDs<br /> :* Basic physics of SQUIDs<br /> :* Basic principles of measuring small magnetic fields <br /> :* Applications<br /> ''Suggested Further Readings''<br /> :*[[File:W5 Baillet et al (2001).pdf]]<br /> <br /> ''Principles and roles of contrast agents on MRI''<br /> :* What are contrast agents<br /> :* What are the physical principles of MRI contrast agents<br /> :* Different classes of MRI contrast agents: Passive vs active<br /> :* examples of various contrast agents<br /> :* Physiological and safety requirements of contrast agents<br /> :* Targeted contrast agents<br /> ''Suggested Further Readings''<br /> :*[[File:MNP_physchem.pdf]]<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*[[media:SaddikUltrasound2015.pdf‎ | Ultrasound Slides]]<br /> <br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*[[media:Otis_optogenetics_lecture_2_11_15_SM.pdf | Optogenetics slides]]<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> :*[[media:PET_2015_SM.pdf | Dr. Dahlbom's PET handout]]<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:NITP_PET_2-23-15_SM.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> Class canceled due to scheduling problems.<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:NITP-talk-2015-03-04-distribution_SM.pdf | Wu Lecture slides 2015]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> === - Multimodal imaging. ''Speaker:'' Mark Cohen - ===<br /> ''Required Readings''<br /> :* [[media:MultiModalNITP2014_SM.pdf | Cohen Lecture slides 2014]]<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=File:SQUIDs_Slides.pdf&diff=2903 2015-03-19T16:31:12Z

<p>JDell&#039;Italia: </p> <hr /> <div></div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2883 2015-01-29T18:04:21Z

<p>JDell&#039;Italia: /* SQUIDs and MRI Contrast Agents. Speaker: Massoud Akhtari */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> ''Superconducting QUantum Interference Devices''<br /> :* What is superconductivity<br /> :* What are SQUIDs<br /> :* Basic physics of SQUIDs<br /> :* Basic principles of measuring small magnetic fields <br /> :* Applications<br /> ''Suggested Further Readings''<br /> :*[[File:W5 Baillet et al (2001).pdf]]<br /> <br /> ''Principles and roles of contrast agents on MRI''<br /> :* What are contrast agents<br /> :* What are the physical principles of MRI contrast agents<br /> :* Different classes of MRI contrast agents: Passive vs active<br /> :* examples of various contrast agents<br /> :* Physiological and safety requirements of contrast agents<br /> :* Targeted contrast agents<br /> ''Suggested Further Readings''<br /> :*[[File:MNP_physchem.pdf]]<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*<br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:London_NITP_PET_2-26-14_sm.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:Wu-TMS-2014-02-24-sm.pdf | Wu Lecture slides]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> ''Required Readings''<br /> :*<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2882 2015-01-29T18:03:58Z

<p>JDell&#039;Italia: /* SQUIDs and MRI Contrast Agents. Speaker: Massoud Akhtari */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> ''Superconducting QUantum Interference Devices''<br /> :* What is superconductivity<br /> :* What are SQUIDs<br /> :* Basic physics of SQUIDs<br /> :* Basic principles of measuring small magnetic fields <br /> :* Applications<br /> ''Suggested Further Readings''<br /> :*[[File:W5 Baillet et al (2001).pdf]]<br /> <br /> ''Principles and roles of contrast agents on MRI.''<br /> :* What are contrast agents<br /> :* What are the physical principles of MRI contrast agents<br /> :* Different classes of MRI contrast agents: Passive vs active<br /> :* examples of various contrast agents<br /> :* Physiological and safety requirements of contrast agents<br /> :* Targeted contrast agents<br /> ''Suggested Further Readings''<br /> :*[[File:MNP_physchem.pdf]]<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*<br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:London_NITP_PET_2-26-14_sm.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:Wu-TMS-2014-02-24-sm.pdf | Wu Lecture slides]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> ''Required Readings''<br /> :*<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2881 2015-01-29T18:01:41Z

<p>JDell&#039;Italia: /* SQUIDs and MRI Contrast Agents. Speaker: Massoud Akhtari */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> ''Superconducting QUantum Interference Devices''<br /> :* What is superconductivity<br /> :* What are SQUIDs<br /> :* Basic physics of SQUIDs<br /> :* Basic principles of measuring small magnetic fields <br /> :* Applications<br /> ''Suggested Further Readings''<br /> :*[[File:MNP_physchem.pdf]]<br /> :*[[File:W5 Baillet et al (2001).pdf]]<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*<br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:London_NITP_PET_2-26-14_sm.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:Wu-TMS-2014-02-24-sm.pdf | Wu Lecture slides]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> ''Required Readings''<br /> :*<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=File:W5_Baillet_et_al_(2001).pdf&diff=2880 2015-01-29T17:55:55Z

<p>JDell&#039;Italia: </p> <hr /> <div></div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2879 2015-01-29T17:55:31Z

<p>JDell&#039;Italia: /* SQUIDs and MRI Contrast Agents. Speaker: Massoud Akhtari */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*[[File:MNP_physchem.pdf]]<br /> :*[[File:W5 Baillet et al (2001).pdf]]<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*<br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:London_NITP_PET_2-26-14_sm.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:Wu-TMS-2014-02-24-sm.pdf | Wu Lecture slides]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> ''Required Readings''<br /> :*<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2878 2015-01-29T17:54:49Z

<p>JDell&#039;Italia: /* SQUIDs and MRI Contrast Agents. Speaker: Massoud Akhtari */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*[[File:MNP_physchem.pdf]]<br /> :*<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*<br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:London_NITP_PET_2-26-14_sm.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:Wu-TMS-2014-02-24-sm.pdf | Wu Lecture slides]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> ''Required Readings''<br /> :*<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2877 2015-01-29T17:52:58Z

<p>JDell&#039;Italia: /* Wednesday 1/28/15 */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*[[File:MNP_physchem.pdf Physicochemical characterization]]<br /> :*<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*<br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:London_NITP_PET_2-26-14_sm.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:Wu-TMS-2014-02-24-sm.pdf | Wu Lecture slides]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> ''Required Readings''<br /> :*<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=File:MNP_physchem.pdf&diff=2876 2015-01-29T17:52:24Z

<p>JDell&#039;Italia: JDell&#039;Italia uploaded a new version of &amp;quot;File:MNP physchem.pdf&amp;quot;</p> <hr /> <div></div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2875 2015-01-29T17:51:45Z

<p>JDell&#039;Italia: /* Wednesday 1/28/15 */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*[[File:MNP physchem.pdf Physicochemical characterization]]<br /> :*<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*<br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:London_NITP_PET_2-26-14_sm.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:Wu-TMS-2014-02-24-sm.pdf | Wu Lecture slides]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> ''Required Readings''<br /> :*<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=File:MNP_physchem.pdf&diff=2874 2015-01-29T17:49:42Z

<p>JDell&#039;Italia: </p> <hr /> <div></div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2854 2015-01-28T19:21:57Z

<p>JDell&#039;Italia: /* Wednesday 1/28/15 */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> :*<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*<br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:London_NITP_PET_2-26-14_sm.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:Wu-TMS-2014-02-24-sm.pdf | Wu Lecture slides]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> ''Required Readings''<br /> :*<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia https://www.ccn.ucla.edu/wiki/index.php?title=Principles_of_Neuroimaging_B_-_2015&diff=2853 2015-01-28T19:18:00Z

<p>JDell&#039;Italia: /* Wednesday 2/4/15 - Trans-blood and TeraHertz Imaging Speaker: Warren Grundfest */</p> <hr /> <div>=Principles of Neuroimaging B, Winter, 2015 - Class Schedule and Syllabus=<br /> <br /> :'''[[Principles_of_Neuroimaging_-_2014-15 | Main course page for Principles of Neuroimaging (2014-15)]]'''<br /> <br /> :'''[[Principles_of_Neuroimaging_A_-_2014 | M284A Principles of Neuroimaging A]]'''<br /> <br /> *[[Notes for Instructors]]<br /> <br /> =Week 1 - MRI and fMRI=<br /> ==''Monday 1/5/15''==<br /> ===- MRI II ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> Magnetic Resonance Imaging (MRI) is probably the most influential and most flexible current means of imaging the human brain. It features a vast number of separable contrast mechanisms, and a near ideal combination of non-invasiveness, safety, resolution and metric accuracy. However, it is extraordinarily expensive and has limited temporal resolution, especially for functional studies<br /> <br /> OUTLINE<br /> ''Required Readings''<br /> :*[[media:MRIforPNIB2014_sm.pdf‎ | MRI Slides]]<br /> :*[http://www.cis.rit.edu/htbooks/mri/ These notes] by Joseph Hornak are highly professional and complete coverage of MRI.<br /> :*[http://www.imaios.com/en/e-Courses/e-MRI eMRI] is another excellent online MRI learning resource<br /> :*[http://www.brainmapping.org/NITP/PNA/Readings/Hahn1950.pdf Erwin Hahn - Spin Echoes: ''Essential reading for the MRI community'']<br /> [[Image:HahnFig1.png]]<br /> ''above'': Figure 1 from Hahn, 1950<br /> <br /> ''Suggested Further Reading''<br /> [[image:PSatSeq.jpg|right]]<br /> <br /> ==''Wednesday 1/7/15''==<br /> ===- fMRI and Motion''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> =Week 2 - Artifacts, Image Quality, Diffusion=<br /> ==''Monday 1/1215'' ==<br /> === - Artifacts ''Speaker'': [http://www.brainmapping.org/MarkCohen Cohen]===<br /> <br /> ==''Wednesday 1/14/15''==<br /> ===- Diffusion Physics ''Speaker'': [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=18 Ben Ellingson]===<br /> ''Required Readings''<br /> Slides should be up soon.<br /> :*[https://www.dropbox.com/s/0feqz7tlojbfgzl/1_DiffusionMRI_Methods_2015.key.pdf?dl=0 Handouts for class on 1/14/15] ''&lt;- New 1/26-2015''<br /> :*[[media:1_DiffusionMRI_Methods_v1.pdf | Ben Ellingson Diffusion Slides]] uploaded 3/14/14<br /> ''Suggested Further Reading''<br /> :*[[media:DTIHageman.pdf | Hageman DTI Slides]]<br /> :*[[media:NICourse_DTILecture4Post_11-01-26.pdf | Hageman DTI Notes 2/26/12]]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/15037456?dopt=Citation Diffusion tensor imaging of cerebral white matter: a pictorial review of physics, fiber tract anatomy, and tumor imaging patterns AJNR Am J Neuroradiol. 2004 Mar;25(3):356-69]<br /> <br /> :Sadly, the library does not have a subscription for the journals below (Mark has copies on reserve in his office):<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/8661285?dopt=Citation Microstructural and physiological features of tissues elucidated by quantitative-diffusion-tensor MRI. J Magn Reson B. 1996 Jun;111(3):209-19]<br /> :*[http://www.ncbi.nlm.nih.gov/pubmed/16950152?dopt=Citation Principles of diffusion tensor imaging and its applications to basic neuroscience research. Neuron. 2006 Sep 7;51(5):527-39]<br /> <br /> =Week 3 - Holiday and a canceled class=<br /> ==''Monday 1/19/15''==<br /> ===Martin Luther King Day===<br /> :*[http://www.imdb.com/title/tt1020072/ Selma - a great choice]<br /> <br /> ==''Wednesday 1/21/15''==<br /> ===Class canceled due to other academic commitments. Sorry===<br /> <br /> =Week 4 - Optics, SQUIDs MRI Contrast=<br /> ==''Monday 1/26/15''==<br /> ===Optics I. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> [[Image:Reflection.jpg|right]]<br /> The overall goal of this lecture is to establish that:<br /> ''- Physical constants have tangible meanings''<br /> ''- Plane waves form a physically unrealizable but extremely good approximation to real systems''<br /> ''- Boundaries bend light''<br /> ''- Physical constants, plane wave mechanics, and boundaries can be used to describe the operation of a lens''<br /> ''- The PSF gives a good indication of the overall performance of an imaging system''<br /> ''- All of these concepts have analogues in other areas of engineering (ie circuits, mechanical vibrations, etc.)''''<br /> <br /> '''Outline:'''<br /> :* Constitutive parameters (ε, μ, η, n, etc.)<br /> :* Plane wave basics<br /> :* Plane waves at boundaries<br /> :* Lenses<br /> :* Advanced imaging properties of lenses<br /> :* Point spread function.<br /> <br /> ''Required Readings''<br /> Zach has very kindly agreed to post his [http://www.brainmapping.org/NITP/PNA/Readings/OpticsTaylor3-10-10.pdf Optics lecture notes].<br /> ''Suggested Further Reading''<br /> <br /> ==''Wednesday 1/28/15''==<br /> ===SQUIDs and MRI Contrast Agents. ''Speaker'': [https://people.healthsciences.ucla.edu/institution/personnel?personnel_id=75147 Massoud Akhtari]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 5. Optics and New Optical Methods=<br /> ==''Monday 2/2/15''==<br /> === - Optics II. ''Speaker'': [mailto:zdeis@seas.ucla.edu Zachary Taylor]===<br /> ''Required Readings''<br /> :* Continued from prior week<br /> <br /> ==''Wednesday 2/4/15'' - Trans-blood and TeraHertz Imaging ''Speaker'': [http://www.bioeng.ucla.edu/people/faculty/Faculty/warren-s.-grundfest-m.d Warren Grundfest]==<br /> ''Required Readings''<br /> :*<br /> ''Optional Readings''<br /> :*<br /> <br /> =Week 6 Ultrasound and Optogenetics=<br /> ==''Monday 2/9/15''==<br /> ===Ultrasound. ''Speaker'': [https://www.linkedin.com/pub/george-saddik/2b/558/49 George Saddik]===<br /> ''Required Readings''<br /> :*<br /> ==''Wednesday 2/11/15''==<br /> ===Optogenetics. ''Speaker'': [http://www.otislab.org/people.html Tom Otis]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 7 PET=<br /> ==''Monday 2/16/15''==<br /> ===President's Day Vacation - No Class===<br /> <br /> ==''Wednesday 2/18/15''==<br /> ===Positron Emission Tomography. ''Speaker'': [http://faculty.pharmacology.ucla.edu/institution/personnel?personnel_id=45558 Magnus Dahlboun]===<br /> Handouts distributed in class.<br /> <br /> =Week 8 PET and Spectroscopy=<br /> ==''Monday 2/23/15''==<br /> ===PET applications. ''Speaker'': [http://www.semel.ucla.edu/profile/edythe-london Edythe London]===<br /> <br /> :*[[Media:London_NITP_PET_2-26-14_sm.pdf | Dr. Edythe London PET Slides]]<br /> <br /> ==''Wednesday 2/25/15''==<br /> === - Spectroscopy ''Speaker'': [https://people.healthsciences.ucla.edu/research/institution/personnel?personnel_id=74852 Joe O'Neill]===<br /> ''Required Readings''<br /> :*<br /> <br /> =Week 9 Transcranial Magnetostimulation and Brain Stimulation=<br /> ==''Monday 3/2/15''==<br /> ===TMS. ''Speaker'': [http://faculty.bri.ucla.edu/institution/personnel?personnel_id=121107 Allan Wu]===<br /> 'Required Readings''<br /> :* [[media:Wu-TMS-2014-02-24-sm.pdf | Wu Lecture slides]]<br /> :* [[media:TMSSafetyAndEthics-Rossi.pdf | TMS Safety and Ethics - Rossi, 2009]]<br /> :* [http://www.sciencedirect.com/science?_ob=ArticleURL&amp;_udi=B6T0J-50CV801-1&amp;_user=4423&amp;_coverDate=01%2F31%2F2011&amp;_rdoc=1&amp;_fmt=high&amp;_orig=search&amp;_origin=search&amp;_sort=d&amp;_docanchor=&amp;view=c&amp;_acct=C000059605&amp;_version=1&amp;_urlVersion=0&amp;_userid=4423&amp;md5=f9fa3c7d63942dfb3c74e047a1f848bc&amp;searchtype=a | M Sandrini, C Umilta and E Rusconi, “''The use of transcranial magnetic stimulation in cognitive neuroscience: a new synthesis of methodological issues.''” '''Neurosci Biobehav Rev''', '''35'''(3): p. 516-536. 2011]<br /> <br /> ''Suggested Further Reading''<br /> Once upon a time we demonstrated that this sort of magnetic stimulation can take place in the MRI machines:<br /> :*[http://onlinelibrary.wiley.com/doi/10.1002/mrm.1910140226/pdf MS Cohen, RM Weisskoff, RR Rzedzian and HL Kantor, “Sensory stimulation by time-varying magnetic fields.” Magnetic Resonance in Medicine, 14(2): p. 409-414. 1990]<br /> <br /> ==''Wednesday 3/4/15''==<br /> ===tbd===<br /> <br /> =Week 10=<br /> ==''Monday 3/9/15''==<br /> ''Required Readings''<br /> :*<br /> <br /> ==''Wednesday 3/11/15''==<br /> === - Brain Stimulation. ''Speaker:'' [http://www.uclahealth.org/body.cfm?xyzpdqabc=0&amp;id=479&amp;action=detail&amp;ref=9872 Alexander Bystritsky] ===<br /> ''Required Readings''<br /> :*<br /> <br /> &lt;!--<br /> ===Spectroscopy. ''Speaker:'' [http://radiology.ucla.edu/body.cfm?id=48&amp;action=detail&amp;ref=65 Albert Thomas]===<br /> Handouts distributed in class<br /> <br /> =Week 10 - Compressed sensing and finals=<br /> ==''Monday 3/10/15''==<br /> ===Compressed Sensing. ''Speaker:'' [http://www.math.ucla.edu/~yanm/ Ming Yan]===<br /> :*[[IntroductionToCS.pdf | Ming Yan's slides on compressive sensing]]<br /> <br /> To access the slides from the course web site listed on his handout, The username is &quot;caame654&quot;, and password is &quot;dense&quot;.<br /> <br /> ''Suggested Further Reading''<br /> :*READING<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=4472240 ''&quot;An Introduction to Compressive Sampling&quot;'' EJ Candes, MB Watkin, IEEE Signal Processing Magazine, March, 2008] &lt;-- Mark's favorite. This is a good overview of the field.<br /> ::[http://onlinelibrary.wiley.com/store/10.1002/mrm.21391/asset/21391_ftp.pdf?v=1&amp;t=hsp7jehy&amp;s=27fb10a08b071dd33590829f6d3101481109fae8&amp;systemMessage=Wiley+Online+Library+will+be+disrupted+Saturday%2C+15+March+from+10%3A00-12%3A00+GMT+%2806%3A00-08%3A00+EDT%29+for+essential+maintenance ''&quot;Sparse MRI: The Application of Compressed Sensing for Rapid MR Imaging&quot;'' M. Lustig, D. Donoho, J.M. Pauly, Magn. Reson. Med 58:1182–1195, 2007] Lustig demonstrates each step in the process with examples using MRI.<br /> ::[http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&amp;arnumber=1614066 ''&quot;Compressed Sensing&quot;'', D. Donoho, IEEE Trans. Inform. Theory 52:1289, 2006] One of the more accessible formal discussions of CS<br /> ::[http://dsp.rice.edu/cs Rice University Compressed Sensing Resources]. A repository of scholarly work on CS.<br /> --&gt;</div>

JDell'Italia