Difference between revisions of "Club MEG"

From MEG Core
Jump to navigation Jump to search
m
 
(105 intermediate revisions by 2 users not shown)
Line 6: Line 6:


== Upcoming Talks/Discussions ==
== Upcoming Talks/Discussions ==
* '''02/11/2022 at 1:00pm''' Club MEG: (Journal Club) Connectivity Journal Article (TBD) - Megan Parker
* '''10/07/2022 at 1:00pm''' Club MEG: (Journal Club) - Sarah Grewal
**[https://pubs.rsna.org/doi/10.1148/radiol.212453 (Journal Article) On-Scalp Optically Pumped Magnetometers versus Cryogenic Magnetoencephalography for Diagnostic Evaluation of Epilepsy in School-aged Children]
* '''02/25/2022 at 1:00pm''' ML SIG: (Presentation) Decoding Pipeline <ref> https://www.sciencedirect.com/science/article/pii/S2211124721005398?via%3Dihub Consolidation of human skill linked to waking hippocampo-neocortical replay Ethan R.Buch, Leonardo Claudino, Romain Quentin, Marlene Bönstrup, Leonardo Cohen</ref><ref>https://github.com/hcps-ninds/Replay ANALYSIS CODE: Consolidation of human skill linked to waking hippocampo-neocortical replay </ref> - Leonardo Claudino
* '''03/10/2022 at 1:00pm''' Club MEG: (Presentation) Using Information Theory for MEG Studies - Stephen Robinson
* '''10/14/2022 at 1:00pm''' Club MEG: MNE-ARI (All Resolutions Imaging) Theoretical Overview and Demo - John Veillette - (University of Chicago)
**https://github.com/john-veillette/mne-ari
* '''03/25/2022 at 1:00pm''' ML SIG: (Journal Club) - Mina Kheirkhah Rahimabadi
* '''(TBD - 10/21/2022)''' Club MEG: MNE_BIDS/MNE_BIDS_PIPELINE/Biowulf MEG Bids Modules - Jeff Stout
* '''04/08/2022 at 1:00pm''' Club MEG: (Journal Club) [https://doi.org/10.1038/s42003-021-01785-z Temporal hierarchy of intrinsic neural timescales converges with spatial core-periphery organization] - Allison Nugent
* '''04/22/2022 at 1:00pm''' Club MEG: (Journal Club) [https://www.sciencedirect.com/science/article/pii/S2211124721005398?via%3Dihub Consolidation of human skill linked to waking hippocampo-neocortical replay] - Ethan Buch
* '''10/28/2022 at 1:00pm''' Club MEG: (Journal Club) - Sharif Kronemer
* TBD '''05/??/2022''' MEG Hackathon
* '''11/18/2022 at 1:00pm''' Club MEG: (Journal Club) - Anna Namyst
* '''05/13/2022 at 1:00pm''' Club MEG: (Presentation) - Jess Gilbert
* '''01/20/2023 at 1:00pm''' Club MEG: Lucrezia Liuzzi
* '''02/17/2023 at 1:00pm''' Club MEG: Gustavo Sudre
* '''05/27/2022 at 1:00pm''' ML SIG: (Journal Club) [https://www.sciencedirect.com/science/article/pii/S1053811921006777 MEGnet: Automatic ICA-based artifact removal for MEG using spatiotemporal convolutional neural networks] - Jeff Stout
* '''Date TBD''' Club MEG: Abbas Babajani-Feremi - (University of Florida)
* '''06/10/2022 at 1:00pm''' Club MEG: (Presentation) Communication Between the Amygdala and Cortex in the Context of Face Processing - Kunjan Rana
* '''07/15/2022 at 1:00pm''' Club MEG: (Presentation) - Shruti Japee
* '''07/29/2022 at 1:00pm''' ML SIG: (Journal Club) - Tom Holroyd
* '''08/12/2022 at 1:00pm''' Club MEG: (Journal Club) - Sarah Grewal
* '''09/16/2022 at 1:00pm''' Club MEG: (Journal Club) - Lindsay Oberman
* '''10/13/2022 at 1:00pm''' Club MEG: (Journal Club) - Anna Namyst


== Recent Talks/Discussions ==
== Recent Talks/Discussions ==
* '''09/30/2022''' Tom Holroyd - Demonstration of SAM beamforming using Sequential Regression (SER) covariance updating for real-time analysis
* '''11/12/2021''' Amaia Benitez, "From ECoG to Magnetocorticography: Optically Pumped Magnetometers for Non-Invasive, High Resolution Imaging"
* '''09/16/2022''' Lindsay Oberman - Autism background, MEG autism biomarkers, interventional approach, and preliminary study results
**Slides: [[Media:ClubMeg ABA OPMs 111221.pdf|OPM and MCog Research Introduction]]
** [https://pubmed.ncbi.nlm.nih.gov/25745372/ Prospective MEG biomarkers in ASD: pre-clinical evidence and clinical promise of electrophysiological signatures]
**Recording: [https://megcore.nih.gov/MEG/ClubMEG_111221_AmaiaBenitez_OPMs&MCog.mp4 OPMs & MCog (mp4)]
* '''09/15/2022''' Discuss Biomag 2022 Presentations

* '''09/09/2022''' Anna Namyst and Jeff Stout - Eye Tracking
*'''10/22/2021''' Stephen Robinson, "Fundamentals of Beamformers"
** https://jov.arvojournals.org/article.aspx?articleid=2772164
**Slides: [[Media:StephenRobinson SAM Beamforming Talk 10222021.pdf|SAM Beamforming Fundamentals]]
** https://www.biorxiv.org/content/10.1101/2021.07.09.451139v1.full.pdf
**Recording: [https://megcore.nih.gov/MEG/ClubMEG_Robinson_Beamforming_10222021.mp4 SAM Beamforming Fundamentals (mp4)]
** Powerpoint to be uploaded soon --

* '''08/19/2022''' Kunjan Rana - Communication Between the Amygdala and Cortex in the Context of Face Processing
* '''08/05/2022''' Shruti Japee - Temporal Dynamics of Facial Expression Processing
**[https://megcore.nih.gov/MEG/ShrutiJapee_ClubMEG_FacialExpressionDecoding_08052022.mp4 Recording Download (mp4)]
* '''05/20/2022''' Priyanka Shah (Medical College of Wisconsin) - Resting Connectivity Changes in Temporal Lobe Epilepsy
**[https://megcore.nih.gov/MEG/PriyankaShah-Basak_ClubMEG_05202022.mp4 Recording Download (mp4)]
* '''05/13/2022''' Jess Gilbert - MEG Studies of Treatment-Resistant Depression and Ketamine Response
**[https://megcore.nih.gov/MEG/JessGilbert_ClubMEG_05132022.mp4 Recording Download (mp4)]
* '''04/29/2022''' Ethan Buch [https://www.sciencedirect.com/science/article/pii/S2211124721005398?via%3Dihub Consolidation of human skill linked to waking hippocampo-neocortical replay]
** [https://megcore.nih.gov/MEG/EthanBuch_HumanSkill_ClubMEG_04292022.mp4 Recording Download (mp4)]
* '''04/08/2022''' Allison Nugent [https://doi.org/10.1038/s42003-021-01785-z Temporal hierarchy of intrinsic neural timescales converges with spatial core-periphery organization]
** [https://megcore.nih.gov/MEG/AllisonNugent_ClubMEGJournal_04082022.mp4 Recording Download (mp4)]
* '''03/10/2022''' Stephen Robinson - Using Information Theory for MEG Studies
** [https://megcore.nih.gov/MEG/Robinson_InformationTheoryMEG_ClubMEG_03102022.mp4 Recording Download (mp4)]
* '''02/11/2022''' Megan Parker - [https://www.sciencedirect.com/science/article/pii/S000689931301500X?via%3Dihub Neural regulatory mechanism of desire for food: revealed by magnetoencephalography (article)]
* '''11/12/2021''' Amaia Benitez, From ECoG to Magnetocorticography: Optically Pumped Magnetometers for Non-Invasive, High Resolution Imaging
** [https://megcore.nih.gov/MEG/ClubMEG_111221_AmaiaBenitez_OPMs&MCog.mp4 Recording Download (mp4)]
**Slides: [[File:Pdf.png|PDF]] [[Media:ClubMeg ABA OPMs 111221.pdf|OPM and MCog Research Introduction]]
*'''10/22/2021''' Stephen Robinson, Fundamentals of Beamformers (mp4)
** [https://megcore.nih.gov/MEG/ClubMEG_Robinson_Beamforming_10222021.mp4 Recording Download (mp4)]
**Slides: [[File:Pdf.png|PDF]] [[Media:StephenRobinson SAM Beamforming Talk 10222021.pdf|SAM Beamforming Fundamentals]]
*'''10/23/2020''' Angela Wang and Tom Holroyd, Neurofeedback Discussion.
*'''10/23/2020''' Angela Wang and Tom Holroyd, Neurofeedback Discussion.
**Slides: [[Media:Neurofeedback_Review.pdf|Neurofeedback Review]]; [[Media:RT-MEG.pdf|Real-time Beamforming]].
**Slides: [[File:Pdf.png|PDF]] [[Media:Neurofeedback_Review.pdf|Neurofeedback Review]]; [[Media:RT-MEG.pdf|Real-time Beamforming]].


== Previous Tutorials and Training ==
== Previous Tutorials and Training ==
*Connectivity Coding Zoom Call [[Meg_information_based_connectivity_coding_session]] - '''08/12/2022'''
*Andrea Brovelli & Etienne Combrisson, FRITES Theoretical Overview and Demo (Connectivity Calculation and Stats) - 07/13/2022 - (Institut de Neurosciences de la Timone)
**[https://megcore.nih.gov/MEG/FRITES_Tutorial_07132022.mp4 Recording Download (mp4)]
**[https://brainets.github.io/frites/ Website and Github Page] [https://github.com/brainets/CookingFrites Example Training Notebooks]
**[https://doi.org/10.1016/j.neuroimage.2022.119347 Paper: Group-level inference of information-based measures for the analyses of cognitive brain networks from neurophysiological data]
*[https://megcore.nih.gov/index.php?title=MEG_Hackathon_2022 MEG Hackathon ] 05/06/2022
*Eric Earl, Github Presentation and Discussion, 04/27/2022
**[https://docs.google.com/presentation/d/15l6Pb6pUICPSsJi3shWLiAJNlCkngHi0fzht7FKeyqM/edit?usp=sharing Presentation Slides] [https://slides.com/ericearl/gh-repo Advanced Github Features]
** [https://megcore.nih.gov/MEG/EricEarl_ClubMEG_GitHubTutorial_04272022.mp4 Recording Download (mp4)]
**Additional Links:
***[https://osf.io/xt6pk/ ReadTheDocs]
***[https://osf.io/qcyhu/ BioDataClub OSF]
*Jeff Stout, Intro to Git, 04/12/2022 -
**[https://megcore.nih.gov/MEG/JeffStout_GitTutorial_04122022.mp4 Recording Download]
**[https://megcore.nih.gov/MEG/JeffStout_GitTutorial_04122022_commands.txt Git Tutorial Commands ]
**Additional Links:
***[https://nbviewer.org/github/pelson/lessons_for_a_scientific_programmer/blob/master/2014-euroscipy/00_intro.ipynb Scientific Programming Guidelines - Including Git]
*Jeff Stout, Intro Python, 03/29/2022 - [https://megcore.nih.gov/MEG/JeffStout_PythonCoursePart2_03292022.mp4| Dictionaries/Functions/Scripts/Modules/commandline interface -- Recording Download (mp4)]
*Fred Carver & Jeff Stout, [[Tutorial stats 011422| Tutorial Link]] (01/21/22) -- MEG Group Data Analysis in AFNI and MNE Python
*Fred Carver & Jeff Stout, [[Tutorial stats 011422| Tutorial Link]] (01/21/22) -- MEG Group Data Analysis in AFNI and MNE Python
**Recording Download: [https://megcore.nih.gov/MEG/ClubMEG_Carver&Stout_MNE&AFNI-GroupAnalysisTutorial_012122.mp4 MEG Group Data Analysis Tutorial (mp4)]
**[https://megcore.nih.gov/MEG/ClubMEG_Carver&Stout_MNE&AFNI-GroupAnalysisTutorial_012122.mp4 Recording Download (mp4)]
*Jeff Stout, [[MNE Python Tutorial 2021]] -- Introduction to MEG processing with MNE Python
*Jeff Stout, [[MNE Python Tutorial 2021]] -- Introduction to MEG processing with MNE Python
*NIMH MEG Core Staff, [[NIH MEG Short Course 2018]] -- Useful training materials.
*NIMH MEG Core Staff, [[NIH MEG Short Course 2018]] -- Useful training materials.
Line 42: Line 75:
== Special Interest Groups ==
== Special Interest Groups ==


'''Machine Learning Special Interest Group''': [https://megcore.nih.gov/index.php?title=Machine_Learning_SIG ML SIG] <br>
[https://megcore.nih.gov/index.php?title=Machine_Learning_SIG '''Machine Learning Special Interest Group'''] (ML SIG) - 4th Friday of every month 1-2pm. Contact Jeff Stout for more information on joining or presenting.</br>
'''''Prior ML SIG topics:'''''
*Meeting monthly on the 4th Friday of every month 1-2pm. <br> Contact Jeff Stout for more information if you are interested in joining.</br>
* '''05/27/2022''' Jeff Stout - [https://www.sciencedirect.com/science/article/pii/S1053811921006777 MEGnet: Automatic ICA-based artifact removal for MEG using spatiotemporal convolutional neural networks]
*'''''Prior ML SIG topics:'''''
**[https://megcore.nih.gov/MEG/JeffStout_MEGnetOverview_ML-SIG_05292022.mp4 Recording Download (mp4)]
**'''01/28/2022''' Lina Teichmann - Bayes Factors for Time-series Decoding
*'''04/15/2022''' Leonardo Claudino - Decoding Pipeline <ref> https://www.sciencedirect.com/science/article/pii/S2211124721005398?via%3Dihub Consolidation of human skill linked to waking hippocampo-neocortical replay Ethan R. Buch, Leonardo Claudino, Romain Quentin, Marlene Bönstrup, Leonardo Cohen</ref><ref>https://github.com/hcps-ninds/Replay ANALYSIS CODE: Consolidation of human skill linked to waking hippocampo-neocortical replay </ref>
***[[File:Pdf.png|PDF]][https://megcore.nih.gov/MEG/Teichmann_BayesFactors_ClubMEG_01282022.pdf Presentation Slides]
** [https://megcore.nih.gov/MEG/LeoClaudino_DecodingPipeline_MEG-ML-SIG_04152022.mp4 Recording Download (mp4)]

*'''03/25/2022''' Mina Kheirkhah Rahimabadi - Classification of brain responses to emotional image stimuli measured with MEG
**'''12/03/2021''' Initial meeting for Machine Learning in MEG SIG - Journal Club discussion: [https://pubmed.ncbi.nlm.nih.gov/28782682/ Deconstructing multivariate decoding for the study of brain function]
*'''03/04/2022''' Dave Dash - Decoding speech with MEG <ref>Dash D, Ferrari P, Wang J. Decoding Imagined and Spoken Phrases From Non-invasive Neural (MEG) Signals. Front Neurosci. 2020;14:290. Published 2020 Apr 7. doi:10.3389/fnins.2020.00290</ref> <ref>Dash D, Wisler A, Ferrari P, Davenport EM, Maldjian J, Wang J. MEG Sensor Selection for Neural Speech Decoding. IEEE Access. 2020;8:182320-182337. doi:10.1109/access.2020.3028831</ref> <ref>Dash D, Ferrari P, Dutta S, Wang J. NeuroVAD: Real-Time Voice Activity Detection from Non-Invasive Neuromagnetic Signals. Sensors (Basel). 2020;20(8):2248. Published 2020 Apr 16. doi:10.3390/s20082248</ref>
**[https://megcore.nih.gov/MEG/DebadattaDash_MEG-SpeechDecoding_ClubMEG_03042022.mp4 Recording Download (mp4)]
*'''01/28/2022''' Lina Teichmann - Bayes Factors for Time-series Decoding
**[https://megcore.nih.gov/MEG/Teichmann_MEGMachineLearningSIG_BayesFactorsTimeSeriesDecoding_01282022.mp4 Teichmann 01/28/22 Recording Download (mp4)]
** Slides: [[File:Pdf.png|PDF]] [https://megcore.nih.gov/MEG/Teichmann_BayesFactors_ClubMEG_01282022.pdf Bayes Factors for Time-Series Decoding]
** [https://www.biorxiv.org/content/10.1101/2021.06.23.449663v3.abstract Journal Article] and [https://github.com/LinaTeichmann1/BFF_repo Associated Code]
*'''12/03/2021''' Initial meeting for Machine Learning in MEG SIG - Journal Club discussion: [https://pubmed.ncbi.nlm.nih.gov/28782682/ Deconstructing multivariate decoding for the study of brain function]


==References==
==References==

Latest revision as of 14:18, 6 October 2022

Club MEG is our version of a journal club. We welcome NIH MEG researchers to lead discussions on any MEG topic, including interesting papers, experiment ideas, analysis techniques, or finding from your research.

Interested in presenting a topic? Email Fred Carver at carverf@nih.gov or Jeff Stout at stoutjd@nih.gov if you would like to present.

Notifications of upcoming talks are sent to the MEG_ANNOUNCE listserv.

Upcoming Talks/Discussions

Recent Talks/Discussions

Previous Tutorials and Training

Special Interest Groups

Machine Learning Special Interest Group (ML SIG) - 4th Friday of every month 1-2pm. Contact Jeff Stout for more information on joining or presenting.
Prior ML SIG topics:

References

  1. https://www.sciencedirect.com/science/article/pii/S2211124721005398?via%3Dihub Consolidation of human skill linked to waking hippocampo-neocortical replay Ethan R. Buch, Leonardo Claudino, Romain Quentin, Marlene Bönstrup, Leonardo Cohen
  2. https://github.com/hcps-ninds/Replay ANALYSIS CODE: Consolidation of human skill linked to waking hippocampo-neocortical replay
  3. Dash D, Ferrari P, Wang J. Decoding Imagined and Spoken Phrases From Non-invasive Neural (MEG) Signals. Front Neurosci. 2020;14:290. Published 2020 Apr 7. doi:10.3389/fnins.2020.00290
  4. Dash D, Wisler A, Ferrari P, Davenport EM, Maldjian J, Wang J. MEG Sensor Selection for Neural Speech Decoding. IEEE Access. 2020;8:182320-182337. doi:10.1109/access.2020.3028831
  5. Dash D, Ferrari P, Dutta S, Wang J. NeuroVAD: Real-Time Voice Activity Detection from Non-Invasive Neuromagnetic Signals. Sensors (Basel). 2020;20(8):2248. Published 2020 Apr 16. doi:10.3390/s20082248