Omics Workshop 2024
This is the official page of the Intro to Omics workshop, a faculty-led, student-organized workshop meant to introduce concepts in computing, statistics, and bioinformatics for omics data analysis.
Recordings Link
Pre-requisite materials for Omics workshop
We strongly suggest you familiarize yourself with terminal usage (unix), basic introductory R, and basic introductory Python before attending the Omics workshop sessions.
Here are some short Youtube videos:
Longer free tutorials are widely available online.
DATES, TIMES, AND LOCATIONS FOR OMICS WORKSHOP SESSIONS
Sessions 1 and 2 will feature zoom (hybrid) lectures on computing and statistics for Omics.
Sessions 3-7 will feature lectures and interactive code examples (“Vignettes”) on specific areas within omics. Lectures on omics will be given by faculty while each vignette was designed by the indicated trainee with inputs from faculty and trainees.
Sessions will run once a week, each Tuesday at 12PM starting from Tuesday Feb 13 - Tuesday March 26th. Each session will be about 1.5 hours. Food will be served. Sessions will be recorded and recordings and code vignettes will be made available at the end of the workshop.
Code Vignettes: Note that the website for the code examples (called “vignettes”) is now live. Please see the code vignette website for all instructions on code vignette for both interactive coding follow-along as well as read-only options.
1. Dr. Brian Hammond, Ph.D. → HPC usage
Tuesday, February 13, 12:00–2:00 PM; Lower Ed Center (Hybrid/Zoom)
2. Dr. Melissa Fazzari, M.S., Ph.D. → Stats for Omics crash course
Tuesday, February 20, 12:00–2:00 PM; Lower Ed Center (Hybrid/Zoom)
3. Dr. Kith Pradhan, Ph.D. and Xiang Yu Zheng → bulk RNA-seq/ATAC-seq analysis
Tuesday, February 27, 12:00–2:00 PM; Belfer Riklis Auditorium
4. Dr. Srilakshmi M. Raj, Ph.D. and David Yang → Ancestry analysis
Tuesday, March 5, 12:00–2:00 PM; Belfer Riklis Auditorium
5. Dr. Lindsay M. LaFave, Ph.D. and Anthony Griffen → scATAC-seq analysis
Tuesday, March 12, 12:00–2:00 PM; Belfer Riklis Auditorium
6. Dr. Deyou Zheng, Ph.D. and Alexander Ferrena, Ph.D. → scRNA-seq analysis
Tuesday, March 19, 12:00–2:00 PM; Belfer Riklis Auditorium
7. Dr. Simone Sidoli, Ph.D. and Juan Sepulveda → Proteomics analysis
Tuesday, March 26, 12:00–2:00 PM; Belfer Riklis Auditorium
Additional Materials
Einstein HPC usage
- Einstein HPC usage guide - Einstein login required
Statistics and R
- BERD House, Einstein’s Biotech Epidemiology Research Design (BERD) core vignettes and open house sessions, assembled by Dr. Melissa Fazzari
Acknowledgements
Thank you to all faculty session leaders and trainee vignette designers - this would not have been possible without you!
Special thanks to all Omics Club board members for organizing! The Omics club board includes: Xiang Yu Zheng, Ilana Karp, Marli Rodriguez, Michael Camerino, Isaac Krasnopolsky, Kevyn Jackson, Gracelyn Richmond, Maja Haerle, Beata Malachowska, and Alexander Ferrena.
Special thanks to Dr. John Greally and Dr. Deyou Zheng for their time and efforts in helping pull this together!
Special thanks to the Einstein Student Governing Board (SGB) as well as the Einstein Genetics Department and chair Dr. Jan Vijg for supporting this workshop and allowing us to serve food during each session!