Genomics Cohort Training—2024-2025
Summer 2024
Students took a summer bridging course DSCC 162: Data Structures in Python with Andrea Cogliatti as preparation for their fall matriculation into the program.
Fall 2024
Students participated in 13 credits of coursework. During the first semester the students took the following courses:
- DSCC 462: Computational Introduction to Statistics, Professor Anson Kahng
- DSCC 461: Introduction to Databases, Professor Eustrat Zhupa
- DSCC 440: Data Mining, Professor Monika Polak
- IND 501: SMD Research Ethics, Professor Paul Kammermeier
A pre-program survey was done by Cathy Cerosaletti to assess the cohort’s understanding and experiences and competency with research, ethics, equity and inclusion, genomics and career development skills.
Students began to connect with mentors.
Winter 2025
A sequence of three extra-curricular, hands-on workshops aimed at building core competencies in genomic data analysis were offered by the in conjunction with the Goergen Institute for Data Science GIDS-REM fellowship program, the and the Environgmental Health Sciences.These workshops covered nine core competencies were required for GIDS-REM fellows were open to any researchers in the ÌìÃÀÊÓƵ and Medical Center communities.
An introductory session on Monday, January 13 from 10 a.m.-3:30 p.m. by Professor Brendan Mort and staff of CIRC at the Vista Collaboratory in Carlson Library was required for those who needed Blue Hive access or basic knowledge of Linux clusters, running Jobs and Slurm, Modules, Software, and Jupyter.
The workshops were four hours each and led by John Ashton and staff of GRC:
- Tuesday, January 14: Bulk transcriptomics data processing & analysis
- Wednesday, January 15: Pathway & network analyses
- Thursday, January 16: Single-cell transcriptomics data processing & analysis. This workshop introduces single cell RNAseq and ATACseq data generation and analysis.
Spring 2025
Students returned to studies with 12 credits of coursework to take:
- DSCC 465: Introduction to Statistical Machine Learning, Professor Cantay Caliskan
- BST 434: Genomic Data Analysis, Professor Matthew McCall
- BIOL 453: Computational Biology, Professor Justin Fay
Mentor Meetings were used to start discussions about summer internship placements.
Summer 2025
Students engaged full-time in their lab’s research assignments. Professor Fay initiated the Summer Seminar series—a weekly venue to learn and engage in applied problems in genomics. The series included short presentations from students, trainees and faculty on current research problems with an emphasis on pragmatic solutions. Presentations were followed by a discussion to enhance practical understanding and assessment of genomics approaches, methods and computational analyses. The seminar series was run as part of the Goergen Institute for Data Science MS program in applied genomics and open to students and faculty interested in application of genomics and genome technologies to problems in biology.
The seminar series also included a professional development component for students in the GIDS-REM training program. For this component students learn and assess presentation strategies and research communication skills to enhance their career goals in either academics or industry.
Seminar schedule (TBA)
Fall 2025
Students enrolled in:
- DSCC 483: Practicum Project, Professors Ajay Anand and Cantay Caliskan
- DSCC 457: Applied Genomics, Professor Amanda Larracuente
Presentations of summer research given during Meliora Weekend and the Fall Graduate Research Symposium.
Conference Travel
The cohort is considering attending one of the following conferences:
Practicum Project
Fall presentations will be posted as they become available.