Course Modules: Computational Neuroimaging

From Neural Responses to fMRI Signals

From Neural Responses to fMRI Signals From Neural Responses to fMRI Signals

Context Module Sub Header

Chapter 6 1

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Attachment

Meeting1_Introduction.pptx Meeting1_Introduction.pptx 2

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Attachment

Huettel. NeuronOrigin(olderVersion).pdf Huettel. NeuronOrigin(olderVersion).pdf 3

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Attachment

Required Reading: LogothetisWandellAnnRevPhysiol2004.pdf Required Reading: LogothetisWandellAnnRevPhysiol2004.pdf 4

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Discussion Topic

Week 1: Reading & Discussion: What is the Neural Origin of BOLD signals? Week 1: Reading & Discussion: What is the Neural Origin of BOLD signals? 5 5

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Attachment

Extended Reading: NirCurrBio2007.pdf Extended Reading: NirCurrBio2007.pdf 6

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Spatial and Temporal Resolution of BOLD Responses

Spatial and Temporal Resolution of BOLD Responses Spatial and Temporal Resolution of BOLD Responses

Context Module Sub Header

Chapter 7: pp 238 - 255 1

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Attachment

Meeting2_fmri-resolution&acquisition.pptx Meeting2_fmri-resolution&acquisition.pptx 2

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Attachment

Huettel.SpatialTemporal(olderVersion).pdf Huettel.SpatialTemporal(olderVersion).pdf 3

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Discussion Topic

Week 2: Reading & Discussion: What is the spatial and temporal resolution of fMRI? Week 2: Reading & Discussion: What is the spatial and temporal resolution of fMRI? 5 4

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Assignment

Matlab Tutorial 1: Signal and Noise in fMRI Matlab Tutorial 1: Signal and Noise in fMRI 8.33 5

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Signal and Noise in fMRI: quantification and preprocessing

Signal and Noise in fMRI: quantification and preprocessing Signal and Noise in fMRI: quantification and preprocessing

Context Module Sub Header

Chapter 8 1

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Attachment

Meeting3_Signal2NoiseinfMRI.pptx Meeting3_Signal2NoiseinfMRI.pptx 2

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Attachment

Huettel.SignalandNoise(olderVersion).pdf Huettel.SignalandNoise(olderVersion).pdf 3

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Discussion Topic

Week 3: Reading & Discussion: Signal, Noise and Preprocessing in fMRI Week 3: Reading & Discussion: Signal, Noise and Preprocessing in fMRI 5 4

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Assignment

Matlab Tutorial 2: Linear Systems Matlab Tutorial 2: Linear Systems 8.34 5

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Attachment

Extended Reading: KurgerGloverphysionoise.pdf Extended Reading: KurgerGloverphysionoise.pdf 6

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Attachment

Extended Reading: Murphy_et_al_Neuroimage_2007.pdf Extended Reading: Murphy_et_al_Neuroimage_2007.pdf 7

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Linear Systems Approach and the General Linear Model (GLM)

Linear Systems Approach and the General Linear Model (GLM) Linear Systems Approach and the General Linear Model (GLM)

Context Module Sub Header

Chapter 7: pages 255-265 1

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Attachment

Meeting4.2_GLM.pptx Meeting4.2_GLM.pptx 2

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Attachment

Required reading: boynton-jneurosci96.pdf Required reading: boynton-jneurosci96.pdf 3

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Discussion Topic

Week 4: Reading & Discussion: Linearity of the fMRI Signal Week 4: Reading & Discussion: Linearity of the fMRI Signal 5 4

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Assignment

Matlab Tutorial 3: GLMs Matlab Tutorial 3: GLMs 8.33 5

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Statistics for fMRI Data Analyses

Statistics for fMRI Data Analyses Statistics for fMRI Data Analyses

Context Module Sub Header

Chapter 10: up to page 394 1

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Attachment

Meeting5_GLM_and_stats_fMRI.pptx Meeting5_GLM_and_stats_fMRI.pptx 2

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Attachment

12Huettel.tmp.pdf 12Huettel.tmp.pdf 3

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Discussion Topic

Week 5 Reading & Discussion: Statistics of fMRI Week 5 Reading & Discussion: Statistics of fMRI 5 4

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Attachment

Required reading: Worsley.pdf Required reading: Worsley.pdf 5

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External Url

Required reading: Puzzlingly High Correlations in fMRI Studies of Emotion, Personality, and Social Cognition Required reading: Puzzlingly High Correlations in fMRI Studies of Emotion, Personality, and Social Cognition 6

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Assignment

Data analyses 1: Preprocessing; Running a GLM contrast; ROI visualization; mean time course Data analyses 1: Preprocessing; Running a GLM contrast; ROI visualization; mean time course 8.33 7

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Attachment

mrVistaTutorial.pdf mrVistaTutorial.pdf 8

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Attachment

Extended Reading: Genovese_FDR.pdf Extended Reading: Genovese_FDR.pdf 9

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Multivoxel Pattern Analyses and Decoding

Multivoxel Pattern Analyses and Decoding Multivoxel Pattern Analyses and Decoding

Context Module Sub Header

Chapter 11: pp. 450 - 458 1

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Attachment

Meeting6.1_MVPA.pptx Meeting6.1_MVPA.pptx 2

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Attachment

Meeting6.2_Decoding.pptx Meeting6.2_Decoding.pptx 3

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Discussion Topic

Week 6: Reading & Discussion: Multi Voxel Pattern Analyses Week 6: Reading & Discussion: Multi Voxel Pattern Analyses 5 4

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Attachment

Required Reading: Haxby2001.pdf Required Reading: Haxby2001.pdf 5

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External Url

Required reading: Representational similarity analysis – connecting the branches of systems neuroscience Required reading: Representational similarity analysis – connecting the branches of systems neuroscience 6

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Attachment

Extended Reading: Kamitani&Tong_NN2005.pdf Extended Reading: Kamitani&Tong_NN2005.pdf 7

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Attachment

Extended Reading: FreemanJNS2011.pdf Extended Reading: FreemanJNS2011.pdf 8

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External Url

ֵExtended reading: Beyond mind-reading: multi-voxel pattern analysis of fMRI data ֵExtended reading: Beyond mind-reading: multi-voxel pattern analysis of fMRI data 9

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Encoding Approaches for fMRI Data

Encoding Approaches for fMRI Data Encoding Approaches for fMRI Data

Discussion Topic

Week 7: Reading & Discussion: Encoding Approaches Week 7: Reading & Discussion: Encoding Approaches 5 1

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Attachment

Meeting7_EncodingApproaches.pptx Meeting7_EncodingApproaches.pptx 2

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Attachment

Required Reading: NeselarisNI2011.pdf Required Reading: NeselarisNI2011.pdf 3

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Attachment

Required Reading: 2 channel temporal encoding model: Stigliani-PNAS-2017.pdf Required Reading: 2 channel temporal encoding model: Stigliani-PNAS-2017.pdf 4

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Assignment

Data analyses 2: MVPA & RSMs Data analyses 2: MVPA & RSMs 8.34 5

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Attachment

Temporal Encoding Models for fMRI.pdf Temporal Encoding Models for fMRI.pdf 6

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Attachment

Extended Reading: KayNature2008.pdf Extended Reading: KayNature2008.pdf 7

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Attachment

Extended Reading: Differential Sustained and Transient Temporal Processing Across Visual Streams.pdf Extended Reading: Differential Sustained and Transient Temporal Processing Across Visual Streams.pdf 8

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External Url

Extended Reading: Compressive Temporal Summation in Visual Cortex Extended Reading: Compressive Temporal Summation in Visual Cortex 9

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Group Analyses and Experimental Designs

Group Analyses and Experimental Designs Group Analyses and Experimental Designs

External Url

Required reading: Cortical surface-based analysis: I. Segmentation and surface reconstruction Required reading: Cortical surface-based analysis: I. Segmentation and surface reconstruction 1

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Attachment

Required Reading: The Quest for the FFA and Where it Led Required Reading: The Quest for the FFA and Where it Led 2

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Meeting 8 group analyses.pptx Meeting 8 group analyses.pptx 3

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Attachment

Extended Reading: KanwisherFFA1997.pdf Extended Reading: KanwisherFFA1997.pdf 5

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Extended Reading: FischlHBM1999.pdf Extended Reading: FischlHBM1999.pdf 6

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Attachment

Extended Reading: FrostGoebelNI2011.pdf Extended Reading: FrostGoebelNI2011.pdf 7

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Attachment

Extended Reading: MNI-ICBM152_NI2011.pdf Extended Reading: MNI-ICBM152_NI2011.pdf 8

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Extended Reading: Haxby Hyperalignment2011.pdf Extended Reading: Haxby Hyperalignment2011.pdf 9

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FMRI-adaptation

FMRI-adaptation FMRI-adaptation

Discussion Topic

Week 8: Reading & Discussion: fMRI-adaptation Week 8: Reading & Discussion: fMRI-adaptation 5 1

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Attachment

Required Reading: Grill-SpectorTICS06.pdf Required Reading: Grill-SpectorTICS06.pdf 2

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Attachment

fMRI-Adaptation.pptx fMRI-Adaptation.pptx 3

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Attachment

Extended Reading: GrillSpectorNeuron99.pdf Extended Reading: GrillSpectorNeuron99.pdf 4

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Attachment

Extended reading: Sayres_JNP2006.pdf Extended reading: Sayres_JNP2006.pdf 5

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Attachment

Extended Reading: Weiner_etal_JNP2010.pdf Extended Reading: Weiner_etal_JNP2010.pdf 6

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DataAnalysis

DataAnalysis DataAnalysis

Attachment

MVPA_tutorial: MVPA.zip MVPA_tutorial: MVPA.zip 2

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ROITutorial.zip ROITutorial.zip 3

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Attachment

OS_4_1.zip OS_4_1.zip 4

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Attachment

classification.zip classification.zip 5

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