Bioinformatics Research Scientist-Gene Regulation
Company: St. Jude Children's Research Hospital
Posted on: September 14, 2020
Make an immediate impact. We offer relocation assistance as well
as various opportunities for career growth and development.St. Jude
Childrens Research Hospital is seeking multiple Bioinformatics
Research Scientists to study the role of genome and other nuclear
organization in pediatric cancers. Recognized for state-of-the-art
computational infrastructure, well-established analytical
pipelines, and deep genomic analysis expertise, St. Jude offers a
work environment where you will directly impact the care of
pediatric cancer patients. As a Bioinformatics Research Scientist,
your responsibilities include analyzing data generated from a
variety of second- and third-generation sequencing applications
that interrogate a broad range of human gene regulatory
The Abraham lab studies gene expression-regulation mechanisms in
healthy and diseased mammalian cells. We are recruiting
computational biologists to collaboratively develop computational
tools and frameworks to analyze high-throughput sequencing (-omics)
data. 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.
Specifically, we seek to understand how these regulatory elements
establish gene expression programs in healthy cells, and how
enhancers are altered by mutation, abused by mistargeting, and
targetable with drugs in diseased cells. We focus on characterizing
the core regulatory circuitries driving disease-relevant cells, and
on understanding how mutations in the non-coding DNA of such cells
can drive disease, including cancers, through gene
The successful candidate will become a fundamental component of a
multidisciplinary, inter-institutional team assembled to study how
genome structures meaningfully differ between normal and pediatric
Ideal candidates will have experience building, tailoring, and
deploying analysis pipelines using widely available genomic
analysis toolkits (e.g. bedtools, samtools), as well as experience
managing large numbers of datasets. The successful candidate will
be tasked with collaborative research within and beyond the lab, so
strong communication and interpersonal skills are essential.
Additional experience in fundamental understanding of gene
expression mechanisms (e.g. transcription factors, enhancers,
genome structure, and transcriptional condensates), and experience
building succinct, clear figures using R are preferred.
The department of Computational Biology provides access to high
performance computing clusters, cloud computing environment,
innovative visualization tools, highly automated analytical
pipelines and mentorship from faculty scientists with experience in
data analysis, data management and delivery of high-quality results
for competitive projects. We encourage first author, high profile
publications to share this element of discovery. Take the first
step to join our team by applying now!
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-Andr-- 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.
Dowen JM, Fan ZP, Hnisz D, Ren G, Abraham BJ, Zhang LN, Weintraub
AS, Schujiers J, Lee TI, Zhao K, Young RA. Control of cell identity
genes occurs in insulated neighborhoods in mammalian chromosomes.
Cell. 2014 Oct 9;159(2):374-387. doi: 10.1016/j.cell.2014.09.030.
PubMed PMID: 25303531; PubMed Central PMCID: PMC4197132.
- Ph.D. in Molecular Biology, Biochemistry, Computer Science,
Statistics, Mathematics, Bioinformatics or related field
- Ph.D which must include research related to bioinformatics
(such as analysis of sequence data, microarrays, SNPs, image data,
proteomics data, or biological pathways; development of algorithms,
statistical methods, or scientific software); OR If Ph.D with no
bioinformatics research, then two (2) years of pre-or postdoctoral
experience in Computational Biology or Bioinformatics research is
- Experience with programming languages such as Perl, C, or Java
St. Jude is an Equal Opportunity EmployerNo Search Firms:St. Jude
Children's Research Hospital does not accept unsolicited assistance
from search firms for employment opportunities. Please do not call
or email. All resumes submitted by search firms to any employee or
other representative at St. Jude via email, the internet or in any
form and/or method without a valid written search agreement in
place and approved by HR will result in no fee being paid in the
event the candidate is hired by St. Jude.
Keywords: St. Jude Children's Research Hospital, Raleigh , Bioinformatics Research Scientist-Gene Regulation, Other , Raleigh, North Carolina
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