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Computational Biology & Genomics Core

IRP Core: Computational Biology & Genomics Core

Supriyo De, MD, PhD, Chief

The Computational Biology & Genomics Core (CBGC) is involved in interdisciplinary research and institute-wide training by collaborating mainly with the laboratories in the NIA IRP, NIH.

CBGC Logo

The goals of the core are to (1) carry out genomic, epigenomic, functional genomic (CRISPR screens), transcriptomic, single-cell data analysis and data sharing using NIH data-sharing guidelines; (2) coordinate the activities of data scientists at NIA IRP by maintaining a Biomedical Data Science Network (BDSN); (3) acquire and maintain novel high-throughput instruments and high-performance computer systems to achieve the mission of the NIA; (4) have a fully functional, aging-centered core research program which fosters collaborations mainly within NIA IRP, NIH.

The Computational Biology & Genomics Core (CBGC) provides advice on experimental design and sample preparation, quality control of samples, data analysis, data sharing, and training. Apart from the primary focus on genomic and transcriptomic research, CBGC is highly interested in applying Artificial Intelligence (AI) for image analysis and novel genomic data analysis algorithms. The core utilizes gene expression microarrays, Illumina and Oxford Nanopore sequencers and 10x Genomics single-cell sample preparation instruments to meet the needs of NIA IRP researchers. Moreover, CBGC maintains several high-performance computer systems and is involved in designing and maintaining NIA IRP cloud computing for use by all interested NIA IRP researchers.

CBGC is involved in fostering wide variety of collaborative research and providing training on diverse data science topics beyond the core research areas by maintaining the Biomedical Data Science Network (BDSN) comprising of all the data scientists in the NIA IRP. The BDSN website (internal to NIA IRP, sign-in required) provides description of the expertise available at NIA IRP, Baltimore and their contact information.  

Core Research Areas

  • Role of microbiome in Aging and age-related diseases (e.g., Alzheimer’s Disease)
  • Detection of DNA and RNA base modifications
  • Applications of Artificial Intelligence in data analysis
  • Functional Genomics (CRISPR) Screens

Team

Chris Coletta, MS, Computer Scientist

Elin Lehrmann, PhD, Scientist

Gabriel Lam, PhD, Staff Scientist

Jinshui Fan, PhD, Biologist

Krystyna Mazan-Mamczarz, PhD, Scientist

Kyle Cochran, BS, Postbaccalaureate Fellow

Nirad Banskota, MS, Computer Scientist

Qiong Meng, PhD, Postdoctoral Fellow

Supriyo De, MD, PhD, Chief

Yongqing Zhang, PhD, Computer Scientist

 

Publications

Publications by Supriyo De

Selected Recent Publications:

    2020

 2019