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Data Analysis and Discovery Subgroup

NIH Liaisons:  Michele Ferrante (NIMH), Elizabeth Powell (NIAAA)

Subgroup Leads: TBD

Email addresses: See table of Subgroup members below

CURRENT AS OF DEC 22, 2020:

Email List: send email to: u19datasci-dadp at lists.columbia.edu

Email both bs2679@columbia.edu and ys3328@columbia.edu to request to subscribe or unsubscribe people from the list.

Only list subscribers--which include the people in the table below with Michele Ferrante, Grace Peng and Susan Wright and Elizabeth Powell from the NIH--can send email to the list, and there is no moderation.

 

March 3rd, 2022: Data Analysis and Discovery subgroup Zoom mtg: Pan-neuro discussion

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Ariel's slides: https://docs.google.com/presentation/d/16nLk8PurdDJDucQssSExmX4-fzm6eek…

Chris's slides: bit.ly/2i2c-2022-panneuro

November 23, 2020: Data Analysis and Discovery subgroup Zoom mtg: Datajoint discussion

Members of the MoC3, DOPE, Osmonauts, and SCC projects, along with Datajoint staff, held a meeting to informally discuss how Datajoint is being used as part of our data science strategies for workflow and dataflow capture and sharing, and other topics.

We discussed details like the options to use a relational database or the S3 protocol for data storage locally as an alternative to using AWS services that also use the S3 protocol. We also talked generally about the MoC3 project's relatively comprehensive efforts to put ownership and management of whole lab pipelines tracked by Datajoint into the hands of lab members, versus a more targeted approach of using Datajoint to primarily share final U19 data products with others.

 

August 18, 2020: Data Analysis and Discovery subgroup Zoom mtg

We welcomed and heard from the data science point people for the three newest U19 awards.

After a round of introductions, Raj Bose presented on the MoC3 U19 project as an example of a short summary of a U19 project approach:

Summary: Yaki Stern, the MoC3 Data Engineer who joined the team in July 2019, performed a review of existing data management tools centered around the U19 science community and our U19 project moved forward at the end of 2019 to use the Datajoint software provided by Vathes LLC in conjunction with an on-premises relational database on the backend for now and GitHub as a software repository. Yaki and Zuckerman Institute Research Computing team members are working with Datajoint staff on training and close coordination on a weekly basis with MoC3 lab members carrying out the U19 science to design basic workflows or pipelines to be captured and described using MATLAB and python tie-ins to Datajoint. The idea is for each lab to reach a level of comfort and independence to define and manage their own pipelines going forward with the Research Computing team managing the Datajoint system infrastructure. Once experimental and data analysis pipelines are captured in the MoC3 database, the data products and software details can be queried, translated into different formats and shared according to FAIR principles.

Next the following presented briefly on their data science/data management challenges, ideas and plans:

Osmonauts: Rick Gerkin (ASU)

SCC: Tanya Sharpee and Graziana Gatto (Salk)

DOPE: Akshay Jaggi (Harvard Med)

After a discussion with people expressing providing input about the logistics of the Sun May 31 U19 PI meeting and virtual booth materials as part of the 2020 BRAIN Initiative Investigators Meeting Virtual Booth Materials (May 31-Jun 2, 2020), Shan Shen from Vathes presented on Datajoint and the brainCOGs project.

 

2020 BRAIN Initiative Investigators Meeting: Virtual Booth Materials (May 31-Jun 2, 2020):

https://www.imagwiki.nibib.nih.gov/sites/default/files/U19%20NIH%20Data…

 

February 25, 2020 Data Analysis and Discovery subgroup "showcase" Zoom mtg

Agenda:

1. Showcase presentations where each group gave a short 4-5 slides presentation reviewing the tools that supports their research (data storage, data sharing, software sharing, software version control, computation, workflow/analysis managing and monitoring etc.)  
2. Round up of the the tools that were presented (moderated by Yaki Stern)
3. BRAIN Investigators Meeting  - planning

Showcase presentations:

1. Ripple (Soltesz)

4. MSCZ (Engert)

5. Flyloops (Dickenson)

8. MouseV1 (Miller): Raj gave this verbal summary, mentioning that Globus, with an endpoint on the Zuckerman Institute local storage system, continues to be investigated as the appropriate approach for sharing data internally between distributed academic participants

(no member of the ABC (Kleinfeld) U19 team is currently part of our subgroup)

Thank you all for the active participation,

Raj and Yaki

MoC3 (Costa) and MouseV1 (Miller) U19s

 

January 21, 2020 Data Analysis and Discovery subgroup Zoom mtg

 

 

April 13, 2019 BRAIN PI meeting

 

 

 

 

February 1, 2019 Data Catalog Meeting

 

 

Member List (as of 8/17/20)

U19 Name (Contact PI)	Name	Email
brainCOGS (Brody)	Adam Charles	adamsc@princeton.edu
brainCOGS (Brody)	Jonathan Pillow	pillow@princeton.edu
brainCOGS (Brody)	Dimitri Yatsenko	dimitri@vathes.com
brainCOGS (Brody)	Shan Shen	shanshen@vathes.com
DOPE (Sabatini)	Akshay Jaggi	Akshay_Jaggi@hms.harvard.edu
FlyLoops (Dickinson)	Michael Dickinson	flyman@caltech.edu
FlyLoops (Dickinson)	Richard Murray	murray@cds.caltech.edu
Learning2Learn (Buffalo)	Ariel Rokem	arokem@gmail.com
MoC3 (Costa), MouseV1 (Miller)	Liam Paninski	liam@stat.columbia.edu
MoC3 (Costa)	Elizabeth M. C. Hillman	eh2245@columbia.edu
MoC3 (Costa)	Darcy Peterka	dp2403@columbia.edu
MoC3 (Costa)	Yaakov Stern	ys3228@columbia.edu
MSCZ (Engert)	Joshua Vogelstein	jovo@jhu.edu
Osmonauts (Rinberg)	Rick Gerkin	Richard.Gerkin@asu.edu
OXT (Tsien)	Christian Ebbesen	Christian.Ebbesen@nyulangone.org
OXT (Tsien)	Sam McKenzie	sam.a.mckenzie@gmail.com
OXT (Tsien)	Alisa Surkis	Alisa.Surkis@nyulangone.org
OXT (Tsien)	Peter Peterson	petersen.peter@gmail.com
Ripple (Soltesz)	Ben Dichter	ben.dichter@stanford.edu
Ripple (Soltesz)	Ivan Raikov	iraikov@stanford.edu
SCC (Goulding)	Tatyana Sharpee	sharpee@salk.edu
SCC (Goulding)	Graziana Gatto	ggatto@salk.edu
SCC (Goulding)	Eiman Azim	eazim@salk.edu
Sensation (Maunsell)	Wolfgang Losert	wlosert@umd.edu
Sensation (Maunsell)	Madeline Diep	mdiep@fc-md.umd.edu
Sensation (Maunsell)	Adam Porter	aporter@fc-md.umd.edu
NIH Liaison	Michele Ferrante (NIMH)	michele.ferrante@nih.gov
NIH	Grace Peng	penggr@mail.nih.gov
NIH	Elizabeth Powell	elizabeth.powell3@nih.gov
NIH	Susan Wright	susan.wright@nih.gov