Genomics Bioinformatics
Genomics Bioinformatics (GBIRG)
Mission
The Genomics Bioinformatics Research Group (GBIRG) aims to:
- Investigate questions of interest to all genomics focused bioinformatics and bio-IT cores, by creating surveys of bioinformatics and bio-IT core management and funding models, conducting studies of computational biology analysis tools and data management methods issues, and identifying best practices.
- Explore collaborative bioinformatics and bio-IT support for ABRF genomics focused research group studies.
Questions or interest in joining an ABRF research group?
Current Membership
- Charlie Whittaker - (Chair) - KI at MIT
- Lara Ianov - (Co-Chair) - University of Alabama at Birmingham
- Thayumanasamy Somasundaram - (Executive Board Liaison) - Florida State University
- Hong An - University of Missouri
- Yang Bai - Stanford University
- Ramiro Barrantes-Reynolds - University of Vermont
- Diveena Becker - Whitehead Institute
- George Bell - Whitehead Institute
- Jaysheel Bhavsar - University of Delaware
- Julie Dragon - University of Vermont
- Suzanne Fei - Oregon Health & Science University
- Daisy Fu - Van Andel Institute
- Jasleen Gandhi - Vanderbilt University
- Chris Gates - University of Michigan
- Scott Givan - Van Andel Institute
- Sumeet Gupta - Whitehead Institute
- Shannan Ho Sui - Harvard University
- Alper Kucukural - UMass Amherst
- Nadia Lanman - Purdue University
- Stuart Levine - MIT
- Alexander Lemenze - Rutgers
- Jessie Li – UC Davis
- Maddy MacDonald - University of Delaware
- Lorena Pantano - Harvard University
- Shawn Polson - University of Delaware
- Jon Preall - Cold Spring Harbor Laboratory
- Princess Ramirez - University of Vermont
- Jyothi Thimmapuram - Purdue University
- Owen Wilkins - Dartmouth
Membership History
| Member Name | Organization | Details |
|---|---|---|
| Lorena Pantano | Harvard University | Co-Chair: 2024 - 2025 |
| Shawn Polson | University of Delaware | Chair: 2022 - 2024 |
| Julie Dragon | University of Vermont | Chair: 2018 - 2022 |
| Christopher Mason | Weill Cornell Medical College | Chair: 2012 - 2018 |
| Nadereh Jafari | Northwestern Universtiy | Chair: 2012 - 2014 |
| Jane Srivastava | Gladstone Institute UCSF | Executive Board Liaison: 2024-2025 |
| Sara Bowen | Barrow Neurological Institute | Executive Board Liaison: 2023-2024 |
| Marie Adams | Van Andel Institute | Executive Board Liaison: 2018-2023 |
| Claire Fraser | Barrow Neurological Institute | Member: 2023-2025 |
Studies
- Deployment and Utilization of Nextflow/nf-core Workflows in GBIRG Core Facilities (2024-2025)
- Study will be presented in a GBIRG-organized session at ABRF 2025
- Multi-year study (2022-2024) DSRG/GBIRG Collaborative Study on Single Cell Preservation Methods for RNA-Seq
- Study detailed in 2023 ABRF Annual Meeting talk by Charlie Whittaker
- Study detailed in 2024 ABRF Annual Meeting talk by Charlie Whittaker
- Manuscript in preparation
- Multi-year study (2019-2022) Functional Annotation Routines Used by ABRF Bioinformatics Core Facilities - Observations, Comparisons and Considerations
- Multi-year study (2019-2022) Functional Annotation Routines Used by ABRF Bioinformatics Core Facilities - Observations, Comparisons and Considerations
- Study detailed in 2021 ABRF Annual Meeting talk by Charlie Whittaker
- Whittaker CA, Kucukural A, Gates C, et al. Functional Annotation Routines Used by ABRF Bioinformatics Core Facilities - Observations, Comparisons, and Considerations. Journal of Biomolecular Techniques. 2023;34(1). doi:10.7171/3fc1f5fe.0b74b9db
- 2019 study: Bioinformatics Core Survey to Assess Challenges Facing Data Analysis Facilities
- Described in 2020 ABRF Annual Meeting Talk by Julie Dragon
- Dragon JA, Gates C, Sui SH, Hutchinson JN, Karuturi RKM, Kucukural A, Polson S, Riva A, Settles ML, Thimmapuram J, Levine SS. Bioinformatics Core Survey Highlights the Challenges Facing Data Analysis Facilities. J Biomol Tech. 2020 Jul;31(2):66-73. doi: 10.7171/jbt.20-3102-005. PMID: 32382253; PMCID: PMC7192196.
Questions or interest in joining an ABRF research group?