Senior Research Scientist

Bioinformatics/Drug Discovery position at the VCU Massey Cancer Center

Senior Research Scientist position in Bioinformatics/Drug Discovery in the cancer area is available in the laboratory of Dr. Said Sebti in the Massey Cancer Center at the Virginia Commonwealth University in Richmond, Virginia.  The candidate must have a proven track record in bioinformatics as it relates to genome/proteome-scale research including differential gene/protein expression, protein phosphorylation, pathway analysis to support Dr. Sebti’s drug discovery projects. The candidate will also participate in performing experiments to understand the mechanism of action of anti-cancer drugs. The research focus of Dr. Sebti’s laboratory is to understand at the basic science level how normal cells become malignant and to translate such fundamental knowledge to the clinic. Specifically, the candidates will be involved in exciting and highly integrated inter-disciplinary research projects concerning understanding aberrant oncogenic KRas signal transduction pathways in cancer and designing novel anti-cancer drugs based on this knowledge.

The candidate will be responsible for:  Experimental design and analysis of genome/proteome-scale research including differential gene/protein expression, protein phosphorylation, pathway analysis; analysis and interpretation of high-dimensional data, including genomic, transcriptomic, and proteomic datasets; using R and/or Python, Linux and cloud computing systems to develop robust statistical methods and algorithms and drive data mining efforts; RNA-seq data analysis to generate gene clusters using a combination of dimensionality reduction analysis (t-distributed stochastic neighbor embedding (t-SNE) and Fuzzy C-means; Gene Set Enrichment Analysis (GSEA) use to identify initial gene clusters whose expression can be corelated to phenotypes; query the up-regulated and down-regulated clusters using Enrichr to build consensus pathways identified using ENCODE, GO, KEGG, and other pathway analysis tools to generate signal transduction pathways associated with phenotypes; Proteomics and phospho-proteomics data analysis with MaxQuant, normalization and statistical evaluation prior to NetworKIN and GeneGO/Metacore pathway analysis; Phospho-proteomics data normalization with IRON; Assessing data quality using principal component analysis (PCA); using MSigDB to perform pathway/signature enrichment with Fisher's exact tests on lists of differentially expressed phosphosite and using NetworkIN to identify potential kinases involved; performing molecular biology, biochemistry, cell biology and pharmacology experiments to understand the mechanism of action of anti-cancer drugs; design and perform experiments, manage research projects, and analyze and interpret data, make conclusions and plan forward; maintain detailed documentation through electronic and notebook means and writing progress reports and manuscripts for peer-reviewed publications; work independently as well as efficiently within the research group as a team player. 

EDUCATION: PhD degree in Bioinformatics, Computational biology or a closely related field with 2+ years’ significant research experience in the fields of bioinformatics, computational biology, systems biology, proteomics and/or genomics.  Desirable but not required: Experience in cancer molecular biology, biochemistry, cell biology, pharmacology, in vivo anti-tumor efficacy in animal models and/or drug discovery.

Candidate must have a demonstrated commitment to diversity or a commitment to do so as a staff member at VCU.

Online applications will be accepted at https://www.vcujobs.com/postings/94613.

VCU Massey Cancer Center is one of only 69 National Cancer Institute-designated institutions in the country that leads and shapes America’s cancer research efforts. Working with all kinds of cancers, Massey conducts basic science, translational, clinical and prevention and control cancer research, provides state-of-the-art treatments, and promotes cancer education and training. Since 1974, Massey has served as an internationally recognized center of excellence. It offers one of the largest selections of cancer clinical trials in Virginia and serves patients at multiple sites throughout the state. Its 1,000-plus researchers, clinicians and staff members are dedicated to improving the quality of human life by developing and delivering effective means to prevent, control and ultimately cure cancer.  Massey successfully renewed its Cancer Center Support Grant (CCSG) in 2016.

Virginia Commonwealth University (VCU) is a major, urban public research university with national and international rankings in sponsored research. Located in downtown Richmond, Virginia, VCU enrolls more than 31,000 students in 226 degree and certificate programs in the arts, sciences and humanities. Sixty-seven of the programs are unique in Virginia, many of them crossing the disciplines of VCU’s 13 schools and one college. MCV Hospitals and the health sciences schools including the Schools of Medicine, Dentistry, Nursing, Pharmacy and Allied Health Professions comprise VCU Medical Center, one of the nation’s leading academic medical centers. Today, VCU serves an integral role in the economic health of the city of Richmond and the region by educating the current and future workforce, advancing research, and enhancing patient care. VCU, its health system and other related entities have cash and investments of approximately $3.0 billion, which includes $840 million in endowment funds.

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