A postdoctoral research associate position is immediately available in the lab of Dr. Brian Abraham in the Department of Computational Biology, https://www.stjude.org/abraham. The Abraham lab studies gene expression-regulation mechanisms in healthy and diseased mammalian cells. We are recruiting computationally talented individuals or biologically talented individuals seeking to transition into computational/bioinformatics research. We build analytical software pipelines to find answers to biological questions about gene regulation in big datasets, usually from applied sequencing experiments like ChIP-Seq, RNA-Seq, and Hi-ChIP. Our interests center on enhancers and super-enhancers, how these regulatory elements establish gene expression programs in healthy cells, and how enhancers are altered, abused, and targetable in diseased cells. Particular focus is on characterizing the core regulatory circuitry driving understudied human cancers, and on understanding how mutations in the non-coding DNA of tumor cells can drive their survival and proliferation through gene misregulation.
Ideal candidates would have experience building analysis pipelines in Unix using widely available genomic analysis toolkits (e.g. bedtools, samtools), fundamental understanding of gene expression mechanisms (e.g. transcription factors, enhancers, genome structure, and transcriptional condensates), and have experience building succinct, clear figure using R.
Abraham BJ, Hnisz D, Weintraub AS, Kwiatkowski N, Li CH, Li Z, Weichert-Leahey N, Rahman S, Liu Y, Etchin J, Li B, Shen S, Lee TI, Zhang J, Look AT, Mansour MR, Young RA. Small genomic insertions form enhancers that misregulate oncogenes. Nat Commun. 2017 Feb 9;8:14385. doi: 10.1038/ncomms14385. PubMed PMID: 28181482; PubMed Central PMCID: PMC5309821.
Hnisz D, Abraham BJ, Lee TI, Lau A, Saint-André V, Sigova AA, Hoke HA, Young RA. Super-enhancers in the control of cell identity and disease. Cell. 2013 Nov 7;155(4):934-47. doi: 10.1016/j.cell.2013.09.053. Epub 2013 Oct 10. PubMed PMID: 24119843; PubMed Central PMCID: PMC3841062.
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