The Bioinformatics and Biostatistics Journal Club is designed to promote learning and intellectual development within DCEG. This Journal Club offers a platform for us to stay current with recent research, explore new findings, and participate in thought-provoking discussions alongside our colleagues.
We invite you to contribute to this dynamic environment by recommending a paper that has captured your interest. Please submit your suggestions at the journal club GitHub repo discussion forum. Your participation is key to maintaining the richness of our discussions and the breadth of our learning. In addition to paper suggestions, we are always looking for volunteers who are willing to lead our discussions or present on topics of interest.
DCEG Bioinformatics and Biostatistics Journal Club Schedule
Meeting 23-05-10
- Title: Using Population Descriptors in Genetics and Genomics Research
- Authors: National Academies of Sciences, Engineering, and Medicine
- Link: https://nap.nationalacademies.org/catalog/26902/using-population-descriptors-in-genetics-and-genomics-research-a-new
- Presenter: Peter Kraft
Meeting 23-08-09
- Title: What Is ChatGPT Doing … and Why Does It Work?
- Author: Stephen Wolfram
- Link: https://writings.stephenwolfram.com/2023/02/what-is-chatgpt-doing-and-why-does-it-work/
- Presenter: Jeya Balasubramanian
Meeting 23-09-27
- Title: Gene Set Summarization using Large Language Models
- Authors: Joachimiak, M. P., Harry Caufield, J., Harris, N. L., Kim, H., & Mungall, C. J.
- Link: http://arxiv.org/abs/2305.13338
- Presenter: Sijia Huo
Meeting 24-02-21
- Title: The Helicobacter pylori Genome Project: insights into H. pylori population structure from analysis of a worldwide collection of complete genomes.
- Authors: Thorell, K., Muñoz-Ramírez, Z. Y., Wang, D., Sandoval-Motta, S., Boscolo Agostini, R., Ghirotto, S., Torres, R. C., HpGP Research Network, Falush, D., Camargo, M. C., & Rabkin, C. S.
- Link: https://doi.org/10.1038/s41467-023-43562-y
- Presenter: Difei Wang
Meeting 24-03-13
- Title: Transcriptomic profiling of lung adenocarcinoma from never-smokers reveals molecular subtypes with clinical implications
- Presenter: Wei Zhao
Meeting 24-04-10
- Title: Large-scale snRNA-seq dataset revealed cell subtype-specific effects of genetic variation in the Alzheimer’s disease brain
- Authors: Fujita, M., Gao, Z., Zeng, L., McCabe, C., White, C. C., Ng, B., Green, G. S., Rozenblatt-Rosen, O., Phillips, D., Amir-Zilberstein, L., Lee, H., Pearse, R. V., 2nd, Khan, A., Vardarajan, B. N., Kiryluk, K., Ye, C. J., Klein, H.-U., Wang, G., Regev, A., … De Jager, P. L.
- Link: https://www.nature.com/articles/s41588-024-01685-y
- Presenter: Bolun Li
Meeting 24-05-08
- Title: Establishing a single-cell eQTL dataset of lung tissues from Asian women never-smokers to elucidate cell-type specific genetic regulation
- Presenter: Thong Luong
Meeting 24-06-12
- Title: A new method of adjusting for correlated dose errors, or where there may be substantial curvature in dose response, and comparison with other methods of dose error correction
- Presenter: Mark Little
Meeting 24-09-11
- Title: F-MAGMA: leveraging epigenomic data for enhanced target gene identification in GWAS
- Presenter: Charles Breeze
Meeting 24-10-09
- Title: CPRD: Real-world Data Source for Epidemiologic Research
- Presenter: Shahinaz Gadalla
Meeting 24-11-13
- Title: Building FAIR Bioinformatics Workflows: A Case Study Using De Novo Mutations Variant Calling in Snakemake
- Presenter: Wei Zhu
Meeting 25-01-08
- Title: The Geisinger DiscovEHR cohort: 233,185 people with exome sequencing and longitudinal EHR data
- Presenter: Douglas Stewart
Meeting 25-02-12
- Title: Utilizing Commercial Real-World Data: Truveta
- Presenter: Gino Cioffi
Meeting 25-03-12
- Title: Caris Precision Oncology Alliance™ (POA) and CODEai™ clinico-genomics research database overview and demonstration
- Presenters: Drs. Farah Abdulla, Jamie Holloway, Jesse Lee, and David Crosby
Meeting 25-04-09
- Title: Towards a FAIRer Real World Data Commons: real-time processing of individual level patient discharge reports collected by NY’s SPARCS program
- Presenter: Dr. Jonas De Almeida
Meeting 25-05-14
- Title: The Department of Defense Serum Repository and Other Military Research Infrastructure
- Presenter: Dr. Mark Purdue
Meeting 25-06-11
- Title: FAIR and Reproducible Science in the age of AI: guiding principles
- Presenter: Dr. Simon Adar
Meeting 25-07-09
- Title: Advancing Cancer Research Through Scalable, Real-World Evidence: Truveta’s Longitudinal Data Ecosystem
- Presenter: Truveta Inc.