David Jenkins

Ph.D. Candidate, Bioinformatics, BUSM
Johnson Lab

Education

Sc.B. Computational Biology, Brown University, Providence, RI, 2011

Contact Information

Email: dfj@bu.edu

github.com/dfjenkins3

Research Interests

Pathway Activity Analysis in Cancer RNA-Seq Data

My project involves creating and applying computational tools that analyze cancer data at a pathway activation level. The genetic background of cancer is complex and can involve multiple signaling pathways. By identifying active oncogenic pathways, and the interactions between them, we are gaining a better understanding of the genetics of cancer, and are exploring ways to match cancer patients with the most effective drugs for them.

Publications

Brady, Samuel W., Jasmine A. McQuerry, Yi Qiao, Stephen R. Piccolo, Gajendra Shrestha, David F. Jenkins, Ryan M. Layer, et al. 2017. “Combating Subclonal Evolution of Resistant Cancer Phenotypes.” Nature Communications 8 (1): 883. 10.1038/s41467-017-01174-3

Goldberg, Lisa R., Stacey L. Kirkpatrick, Neema Yazdani, Kimberly P. Luttik, Olga A. Lacki, R. Keith Babbs, David F. Jenkins, W. Evan Johnson, and Camron D. Bryant. 2017. “Casein Kinase 1-Epsilon Deletion Increases Mu Opioid Receptor-Dependent Behaviors and Binge Eating.” Genes, Brain, and Behavior, June. 10.1111/gbb.12397

Rahman, Mumtahena†, Shelley M. MacNeil†, David F. Jenkins†, Gajendra Shrestha, Sydney R. Wyatt, Jasmine A. McQuerry, Stephen R. Piccolo, Laura M. Heiser, Joe W. Gray, W. Evan Johnson and Andrea H. Bild. 2017. “Activity of Distinct Growth Factor Receptor Network Components in Breast Tumors Uncovers Two Biologically Relevant Subtypes.” Genome Medicine 9 (1): 40. 10.1186/s13073-017-0429-x

† Contributed equally

Ahdesmäki, Miika J., Brad A. Chapman, Pablo Cingolani, Oliver Hofmann, Aleksandr Sidoruk, Zhongwu Lai, Gennadii Zakharov, Mikhail Rodichenko, Mikhail Alperovich, David Jenkins, T. Hedley Carr, Daniel Stetson, Brian Dougherty, J. Carl Barrett, and Justin H. Johnson. 2017. “Prioritisation of Structural Variant Calls in Cancer Genomes.” PeerJ 5 (April): e3166. 10.7717/peerj.3166

Kirkpatrick, Stacey L., Lisa R. Goldberg, Neema Yazdani, R. Keith Babbs, Jiayi Wu, Eric R. Reed, David F. Jenkins, Amanda F. Bolgioni, Kelsey I. Landaverde, Kimberly P. Luttik, Karen S. Mitchell, Vivek Kumar, W. Evan Johnson, Megan K. Mulligan, Pietro Cottone, and Camron D. Bryant. 2017. “Cytoplasmic FMR1-Interacting Protein 2 Is a Major Genetic Factor Underlying Binge Eating.” Biological Psychiatry 81 (9): 757–69. 10.1016/j.biopsych.2016.10.021

Shrestha, Gajendra, Shelley M. MacNeil, Jasmine A. McQuerry, David F. Jenkins, Sunil Sharma, and Andrea H. Bild. 2016. “The Value of Genomics in Dissecting the RAS-Network and in Guiding Therapeutics for RAS-Driven Cancers.” Seminars in Cell & Developmental Biology 58 (October): 108–17. 10.1016/j.semcdb.2016.06.012