July 20, 2016

Rachel Marty has been awarded an NSF GROW fellowship to conduct research in cancer immunology at the University of Lausanne in Switzerland. The project entails computationally categorizing immune regions of the genome, such as HLA and KIR, and deciphering their roles in cancer. The NSF GROW (Graduate Resarch Opportunities Worldwide) Fellowship provides opportunities for students to engage in international research collaborations abroad. Rachel Marty received a B.S. in Computer Science with a specialization in Bioinformatics at UCSD and is currently in the Ph.D. program in Bioinformatics and Systems Biology at UCSD.

May 25, 2016

Olga Botvinnik, a Ph.D. student in the Bioinformatics and Systems Biology graduate program, is featured in a story about women in the open source software community.

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June 19, 2015

The National Science Foundation has awarded Graduate Research Fellowships to Ph.D. student Rachel Marty in the graduate Bioinformatics and Systems Biology program and to Max Shen in the undergraduate Bioinformatics program.

November 26, 2014

Trey Ideker has been selected as a Fellow of the American Association for the Advancement of Science.

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July 7, 2014

Olga Botvinnik, a Ph.D. student in the Bioinformatics and Systems Biology graduate program, has been awarded the 2014 John Hunter Fellowship. The focus of her Fellowship will be to create open source analysis software for the single-cell and biology communities, and to pioneer data, code sharing, and computational reproducibility within the single-cell and RNA biology communities.

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April 1, 2014

The National Science Foundation has awarded Graduate Research Fellowships to Ph.D. students Leen Jamal and Jeffrey Yuan in the graduate Bioinformatics and Systems Biology program, and to students Robin Betz and Christopher Probert in the undergraduate Bioinformatics program.

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Student Publications

Van Nostrand EL, Pratt GA, Shishkin AA, Gelboin-Burkhart C, Fang MY, Sundararaman B, et al. Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP). Nat Methods. 2016;13(6):508-14.
Sauls JT, Li D, Jun S. Adder and a coarse-grained approach to cell size homeostasis in bacteria. Curr Opin Cell Biol. 2016;38:38-44.
Brandler WM, Antaki D, Gujral M, Noor A, Rosanio G, Chapman TR, et al. Frequency and Complexity of De Novo Structural Mutation in Autism. Am J Hum Genet. 2016;98(4):667-79.
Rentas S, Holzapfel NT, Belew MS, Pratt GA, Voisin V, Wilhelm BT, et al. Musashi-2 attenuates AHR signalling to expand human haematopoietic stem cells. Nature. 2016;532(7600):508-11.
Utrilla J, O'Brien EJ, Chen K, McCloskey D, Cheung J, Wang H, et al. Global Rebalancing of Cellular Resources by Pleiotropic Point Mutations Illustrates a Multi-scale Mechanism of Adaptive Evolution. Cell Syst. 2016;2(4):260-71.
Gross AM, Jaeger PA, Kreisberg JF, Licon K, Jepsen KL, Khosroheidari M, et al. Methylome-wide Analysis of Chronic HIV Infection Reveals Five-Year Increase in Biological Age and Epigenetic Targeting of HLA. Mol Cell. 2016;62(2):157-68.
Conway AE, Van Nostrand EL, Pratt GA, Aigner S, Wilbert ML, Sundararaman B, et al. Enhanced CLIP Uncovers IMP Protein-RNA Targets in Human Pluripotent Stem Cells Important for Cell Adhesion and Survival. Cell Rep. 2016;15(3):666-79.
Baker CW, Miller CR, Thaweethai T, Yuan J, Baker MH, Joyce P, et al. Genetically Determined Variation in Lysis Time Variance in the Bacteriophage φX174. G3 (Bethesda). 2016;6(4):939-55.