Big Data Neuroscience Workshop 2019: Organized by the Advanced Computational Neuroscience Network (ACNN)

September 19 - 20, 2019
University of Michigan
Ann Arbor, MI

Live Stream

Overview

What An Interactive Workshop for Big Data Analytics in Neuroscience
Where Weiser Hall Conference Room (10th level)
500 Church Street
Ann Arbor Michigan, 48104 USA
Dates Thursday, September 19, 2019 - Friday, September 20, 2019
Accommodation See the Lodging and Travel section
Abstract Submission Abstract Submission Information – Due July 31, 2019
Notifications will be made by Aug 15
Travel Scholarships Student Travel Award Application – Deadline August 15, 2019
Notifications will be made on a rolling basis

Travel awards will include hotel accommodation and up to $200 in travel reimbursement.

About

Organizers: A team of transdisciplinary investigators from the Advanced Computational Neuroscience Network (ACNN), including:

Objectives: The ACNN 2019 workshop will continue our work on the development of common practices and standardization to make it easier for neuroscience researchers to annotate and process data; to share data, tools and protocols, and to work with distributed high-performance computing environments. The workshop will bring together members of the Midwest, national, and the global neuroscience research community to promote data reuse, aggregation, result validation and new discoveries in neuroscience.

Program

Big Data Neurosciences Workshop 2019

http://www.neurosciencenetwork.org/ACNN_Workshop_2019.html

Organized by the Advanced Computational Neuroscience Network and supported by the National Science Foundation

Thursday 09/19/19
8:30 - 9:00 a.m. Weiser Hall Registration and Light breakfast
9:00 - 9:30 a.m. Weiser Hall Welcome and introductory remarks - ACNN Principals and Professor H.V. Jagadish, Director of MIDAS
9:30 - 10:15 a.m. Weiser Hall Opening Keynote - Russ Poldrack
Building around standards: The role of BIDS in neuroimaging data sharing
10:15 - 10:30 a.m. Weiser Hall Coffee & Networking
10:30 - 11:30 a.m. Weiser Hall Panel Discussion - Open Science - John Marcotte
The open science panel will discuss the importance of reproducibility and replicabililty. Topics will include sharing data, results and program code. The panel will address the challenges of big data that are increasingly common in neuroscience research.
Panelists: Pamela Davis-Kean, Aina Puce, Jack Van-Horn
11:30 - 1:00 p.m. Pizza House Lunch and networking
1:00 - 1:45 p.m. Weiser Hall Keynote - Tristan Glatard
Big Data Infrastructures for Neuroinformatics: Performance, Reproducibility, Interoperability
1:45 - 2:45 p.m. Weiser Hall Lightning Talks
2:45 - 3:15 p.m. Weiser Hall Coffee & Networking (30 min after lightning talks)
3:15 - 4:15 p.m. Weiser Hall Panel Discussion – Neuroscience Initiative at the University of Michigan – Cindy Lustig
The Michigan Neuroimaging Initiative is a "grassroots", multi-disciplinary effort to enhance interaction among investigators, provide key services and support for their research, and build and improve the training and computing infrastructure for neuroimaging research. We'll talk about how the different components came together, what we've been able to accomplish, past and ongoing challenges, and what we hope to continue building into the future.
Panelists: Chandra Sripada, Bennet Fauber
4:15 - 5:00 pm Weiser Hall Keynote - Jessica Turner
Neuroinformatics and imaging genetics: ENIGMA & COINSTAC
5:00 - 5:15 p.m. Weiser Hall Concluding remarks
5:15 - 6:00 p.m. Weiser Hall Networking Reception and Poster Session
Day 2 Friday 09/20/19
8:15 - 8:45 a.m. Weiser Hall Light breakfast
8:45 - 9:15 a.m. Weiser Hall Keynote - Jack Van Horn
Data Science: An Introduction to the Computational Tools and Techniques for Large-scale Biomedical Research
9:15 - 10:15 a.m. Weiser Hall Pipeline examples
  • SOCR – Ivo Dinov, University of Michigan
  • ACNN Pipeline – Vineet Raichur, University of Michigan
  • CompSci – Dhabaleswar Panda, Ohio State University
  • NIC tool – Satya Sahoo, Case Western Reserve University
  • Brain Life – Franco Pestilli, Indiana University
10:15 - 11:15 a.m. Weiser Hall Panel Discussion – Translational Neuroscience - Rich Gonzalez
Panelists: University of Michigan, Government, Industry
Drew Bennett (office of tech transfer), Kurt Thoroughman (NSF Program Director), Derek Edwards (CEO, BehaviorCloud)
11:15 - 11:45 a.m. Weiser Hall Coffee & Networking
11:45 - 12:15 Weiser Hall Closing Keynote - ACNN team

Keynote Speakers

Russ Poldrack

Frontiers in Brain Imaging
Title:

Building around standards: The role of BIDS in neuroimaging data sharing

Description:

There is increased interest in data sharing, but shared data on their own are not useful unless they follow standard structures that allow them to be easily interpreted and reused. I will discuss the development of the Brain Imaging Data Structure (BIDS), a community effort to describe neuroimaging datasets. I will show how the availability of this standard has enhanced the ability to automatically share and process neuroimaging datasets, focusing on the OpenNeuro and BIDS Apps projects.

Tristan Glatard

Title:

Big Data Infrastructures for Neuroinformatics: Performance, Reproducibility, Interoperability

Description:

Big Data engines such as Apache Spark, Hadoop or Dask, are now widely adopted in various industry domains, but they remain seldom used in neurosciences while large data volumes are commonly processed. The first part of this talk will explain the reasons for this situation. More precisely, it will review (1) what are the main properties of Big Data engines and how they differ from traditional neuroimaging engines such as Nipype, and (2) in which situations Big Data engines provide a performance advantage to neuroimaging applications. In a second part, the talk will highlight the consequences of using Big Data infrastructures on the reproducibility of neuroimaging results, taking examples from structural and functional MRI analysis. In particular, it will show the effect of minor data and infrastructural perturbations on analysis results. Finally, the presentation will conclude by demonstrating a few technological solutions to allow Big Data platforms to interoperate, in particular the Boutiques framework for pipeline interoperability.

Jessica Turner

Title:

Neuroinformatics and imaging genetics: ENIGMA & COINSTAC

Description:

Large-scale neuroimaging studies and analysis can be implemented in a number of ways, from a planned multi-site effort in data collection to opportunistic analyses of legacy data. The Enhancing Neuroimaging Genetics through Meta Analysis (ENIGMA) consortium is currently in its 10th year of facilitating large-scale data sharing and analysis techniques to produce analyses of thousands of participants' data, through a combination of surprisingly simple techniques. I will provide an overview of how ENIGMA functions and its methods; as an open consortium, it is relatively easy to get involved. ENIGMA runs into limits in what data shared for aggregated analyses, particularly for genetics; the Collaborative Informatics and Neuroimaging Suite Toolkit for Anonymous Computation (COINSTAC) has been developed as a platform to allow decentralized analyses in a context of privacy protection for sensitive data. I will present some of the examples of COINSTAC's capabilities and how it interacts with ENIGMA and other ad hoc collaborations.

Jack Van Horn

Department of Psychology and School of Data Science, University of Virginia
Title:

Data Science: An Introduction to the Computational Tools and Techniques for Large-scale Biomedical Research

Description:

It has been noted that data science and large-scale analyses have ushered in a wholly new research paradigm. With the onslaught of rich biomedical data types related to the brain form, function, and connectivity, as well as to aspect such as neurological disease and drug abuse, these methods form the basis for several lines of modern neuroscientific examination. In this presentation, I will review the motivations behind data science, several computational tools, and feature examples of where and how it has utility for the ‘big data’ examination of the human brain. Important in this is the education and training of the next generation of biomedical data scientists.

Lightning Talks

Title: Characterizing and Understanding Time-varying Functional Connectivity States via Network Science and Deep Neural Networks
Speaker: Marlena Duda

Title: Making network neuroscience more findable, accessible, interoperable, and reusable via brainlife.io
Speaker: Soichi Hayashi

Title: Phase coupling and amplitude coupling are two distinct but spatially and temporally associated mechanisms of connectivity; An intracranial EEG study
Speaker: Parham Mostame

Title: Data Quality And Safety Of Simultaneous EEG-fMRI Using Multi-band fMRI Sequences
Speaker:Sepideh Sadaghiani

Title: Spatial Updating and Domain Expertise: the case of dancers
Speaker:Maria Photiou

Title: Building Generalizable cognitive models using ECoG data: An improvised technique for group-level analysis
Speaker:Karthik Ganeson

Title: Longitudinal effects of dimensional exposure to violence exposure and social deprivation on adolescent white matter tracts.
Speaker:Leigh Goetschius

Title: Smoking Behavior and Cumulative Genetic Risk for Smoking on Cognitive Status among Older Americans
Speaker:Mingzhou Fu

Title: Predicting ICH Patient Outcome from Brain CT Scans Using an Ensemble Deep Learning Framework
Speaker:Balaji Iyer

Title: Decentralized analysis of brain imaging data: A status update on COINSTAC
Speaker:Harshvardhan Gazula

Title: Data Quality And Safety Of Simultaneous EEG-fMRI Using Multi-band fMRI Sequences
Speaker:Maximillian Egan

Posters

Poster dimensions – 48x72 (Horizontal Layout)

Posters will be on display throughout the conference with a reception and poster session at the end of the first day of the conference, Thursday, September 19, 2019

List of Accepted Posters

  • Poster 1: Spatial-temporal perturbations in ADAR editing as prognostic and diagnostic biomarkers in neurological disorders
    by Noel-Marie Plonski, Caroline Nitirahardjo, Ain Shajihan and Helen Piontkivska
  • Poster 2: Phase coupling and amplitude coupling are two distinct but spatially and temporally associated mechanisms of connectivity; An intracranial EEG study
    by Parham Mostame, Abbas Babajani-Feremi and Sepideh Sadaghiani
  • Poster 3: Predicting ICH Patient Outcome from Brain CT Scans Using an Ensemble Deep Learning Framework
    by Balaji Iyer, Smruti Deoghare, Samuel Hacker, Vivek Khandwala, David Wang, Daniel Woo, Achala Vagal and Surya Prasath
  • Poster 4: Mosaicking and Blending in Large-scale Neuroimaging for Robust Dendrite Detection
    by V. B. Surya Prasath and Bruce Aronow
  • Poster 5: Spatial Updating and Domain Expertise: the case of dancers
    by Maria Photiou and Marios Avraamides
  • Poster 6: Making network neuroscience more findable, accessible, interoperable, and reusable via brainlife
    by Brent McPherson, Daniel Bullock, Brad Caron, Lindsey Kitchell, Soichi Hayashi, Josh Faskowitz, Olaf Sporns, Richard Betzel, Paolo Avesani and Franco Pestilli
  • Poster 7: Data Quality And Safety Of Simultaneous EEG-fMRI Using Multi-band fMRI Sequences
    by Maximillian Egan, Ryan Larsen, Brad Sutton and Sepideh Sadaghiani
  • Poster 8: Characterizing and Understanding Time-varying Functional Connectivity States via Network Science and Deep Neural Networks
    by Marlena Duda, Danai Koutra and Chandra Sripada
  • Poster 9: Longitudinal effects of dimensional exposure to violence exposure and social deprivation on adolescent white matter tracts
    by Leigh Goetschius, Tyler Hein, Colter Mitchell, Nestor Lopez-Duran, Vonnie McLoyd, Sara McLanahan, Jeanne Brooks-Gunn, Luke Hyde and Christopher Monk
  • Poster 10: Smoking Behavior and Cumulative Genetic Risk for Smoking on Cognitive Status among Older Americans
    by Mingzhou Fu, Harita Vadari, Erin Ware and Kelly Bakulski
  • Poster 11: Decentralized analysis of brain imaging data: A status update on COINSTAC
    by Harshvardhan Gazula, Bradley Baker, Eswar Damaraju, Sergey Plis, Sandeep Panta, Rogers Silva and Vince Calhoun
  • Poster 12: Building Generalizable cognitive models using ECoG data: An improvised technique for group-level analysis
    by Karthik Ganeson, Adriene Beltz and David Brang

Travel Scholarship

Travel Scholarship Awardees:

Name Department University
1. Jessica Butts Biostatistics University of Minnesota
2. Qiuyi Wu Department of Biostatistics and Computational Biology University of Rochester
3. Noel-Marie Plonksi School of Biomedical Sciences Kent State University
4. Debarshi Datta Psychology Florida Atlantic Univeristy
5. Taylor Susa Psychological Science Northern Michigan University
6. Wan-Chi Hsin Statistics Boston University
7. Clare Grall Department of Communication Michigan State University
8. Samreen sher Khan Mathematics University Of Texas at Dallas
9. Maria Photiou Department of Psychology University of Cyprus
10. Sharmistha Guha Statistics University of California Santa Cruz
11. Arun Venkataraman Physics University of Rochester
12. Sophia Vinci-Booher Psychological & Brain Sciences Indiana University
13. Subhajit Chakrabarty Computer Science University of Massachusetts Lowell
14. Kyle Murray Physics University of Rochester
15. Josh Faskowitz Psychological and Brain Sciences Indiana University
16. Adel Ardalan Zuckerman Institute Columbia University
17. Shivam Rastogi Computer science Indiana University
18. parham psychology Illinois at Urbana-Champaign
19. faten alamri Statistical Sciences & Operations Research Virginia Commonwealth University
20. Eddie Stage Neurology Indiana University School of Medicine
21. Yuhua Yu Psychology Northwestern University
22. Will Consagra Department of Biostatistics and Computational Biology University of Rochester
23. Britain Taylor SICE Indiana University
24. Daniele Notarmuzi School of Informatics, Computing and Engineering Indiana university
25. Kade Jentink Psychology Colorado State University
26. Pratim Guha Niyogi Statistics and Probability Michigan State University
27. Martin Robert Cole Biostatistics and Computational Biology The University of Rochester
28. Apoorva Bharthur Medical Neuroscience Indiana University
29. Sam Hacker Agricultural and Medical Biotechnology University of Kentucky
30. Yujie Hui Computer Science and Engineering The Ohio State University
31. Christina Dimitriadou School of Psychology University of Birmingham
32. Balaji Iyer Computer Science University of Cincinnati
33. Brent Psychological and Brain Sciences Indiana University
34. Michael Granovetter Psychology, Center for the Neural Basis of Cognition, and Medicine Carnegie Mellon University and University of Pittsburgh
35. Shira Cohen-Zimerman Cognitive Neuroscience Shirley Ryan AbilityLab (Northwestern University)
36. Anne Margarette Maallo Psychology Carnegie Mellon University
37. Kawthar Abdulkabir Student; Data Science Major University of Michigan Dearborn
38. Jorge Martinez Physics University of Notre Dame
39. Josiah Leong Psychological and Brain Sciences Indiana University Bloomington
40. Farnaz Zamani Esfahlani Psychological and Brain Sciences Indiana University
41. Augustin Hennings Institute for Neuroscience University of Texas at Aust
42. Alexei Taylor Psychology Drexel University
43. Harshvardhan Gazula Center for Translational Research in Neuroimaging and Data Science Georgia State University
44. Smruti Deoghare Biomedical Informatics University of Cincinnati
45. Qiong Wu Department of Mathematics University of Maryland
46. Maximillian Egan Psychology University of Illinois at Urbana-Champaign
47. Sara Motlaghian Mathematics and Statistics Georgia State University
48. Eliezyer de Oliveira Dominick P. Purpura Department of Neuroscience Albert Einstein College of Medicine
49. Jo Youngheun Psychological and Brain Sciences Indiana University - Bloomington

Sharable Resources

A web form is available to submit items for inclusion in the sharable resources. Examples (not an exclusive list) of appropriate resources that may be suggested includes:

  • Highly scalable APIs
  • Relevant publications
  • Cloud-services
  • Computational Resources
  • Algorithms, methods, techniques
  • Education and Training Opportunities

Lodging and Travel

We’re looking forward to welcoming you to the Big Data Neuroscience 2019 conference located at the University of Michigan.

Hotel Booking

The Graduate
615 East Huron Street, Ann Arbor, Michigan, 48104
Tel: 734-769-2200
info@graduateannarbor.com

Getting There:

Detroit Metro Airport (DTW) is about 30 minutes from Ann Arbor.
Ground transportation:
  • Taxi: From DTW to Ann Arbor, the cost is approximately $85.
  • Lyft: Taking a Lyft from DTW will cost $50 on average.
  • Bus: The Michigan Flyer makes multiple trips per day between Ann Arbor and DTW fares are $12 one way and $22 round trip, you can reserve a spot here.

Parking:

Parking in around the University of Michigan is notoriously challenging, so instead of parking on campus you may prefer to take a Lyft/Uber from your hotel to the conference site at Weiser Hall.
If you are staying at the Graduate Hotel, the conference site is walkable

Registration

In order to plan for your arrival, we encourage you to register early.

Approximate Registration Fees

Faculty $60.00
Academic Staff $60.00
Industry Staff $60.00
Post Doc $40.00
Graduate Student $25.00
Undergraduate $25.00

Registration Fees include

  • All workshop materials
  • Attendance at sessions
  • Continental breakfast (Thursday, September 19 and Friday, September 20)
  • Lunch (Thursday, September 19)
  • Morning and afternoon beverage breaks

Registration Check-in

Time: beginning at 7:30 a.m. on Thursday, September 19
Location: Weiser Hall
500 Church Street, 10th Floor Conference Space
Ann Arbor, MI 48104

Cancellation of Registration

A refund, less a $10.00 administrative charge, will be accepted if received by midnight Thursday, August 1st. Refund requests must be received in writing by no later than August 1, 2019. Cancellation requests should be sent by email to conferences@umich.edu. Cancellation requests cannot be made by phone.

Questions?

If you have questions about how to register or how to cancel your registration, contact the Conference Registrar, Jeannette Jackson.