Abbas is a PhD data scientist, computational biologist, and educator. Abbas has strong experience doing data science end-to-end. He is excited about automation and building packaged, automated software to make models accessible to clients. He has domain experience in several industries and topics including molecular/cell biology, pharmaceutical sciences, genomics, bioinformatics, business, and technology. Abbas is highly skilled with the R programming language and given talks at Bioconductor and useR on his open source contributions.
PhD in Pharmaceutical Sciences, 2019
The Ohio State University
MS in Cancer Biology (Interdisciplinary), 2015
University at Buffalo, Roswell Park Cancer Institute
MSc in Integrated Systems Biology, 2015
University of Luxembourg
BS in Biology, 2012
Senior data scientist on the Outsights Data Science team. I lead a team of analysts that provides scientific and analytic support to Tempus’ pharma partners.
Designed, built, and deployed artificial intelligence (AI) and machine learning (ML) projects to optimize business processes.
Our lab conducted a genome wide association study (GWAS) on leukemia patients who were treated with a bone marrow transplant. With bone marrow transplants, there are recipients and donors. We were interested in the independent and joint effects of recipient and donor genetic variation and how/if they were statistically associated with survival outcomes (death, relapse, etc.).
Conducted a small data science project focusing electrical grid outages.
Understanding the transcriptomic control of Androgen Receptor (AR) and LSD1 in prostate cancer to explore their potential as drug targets for a metastatic prostate cancer treatment.
Skeletal muscle fibers in mice are affected by diet. We were interested to see if fiber types would change by the diet
Wang J, Clay-Gilmour AI, Karaesmen E, Rizvi AA, Zhu Q, Yan L, Preus L, Liu S, Wang Y, Griffiths E, Stram DO, Pooler L, Sheng X, Haiman C, Van Den Berg D, Webb A, Brock G, Spellman S, Pasquini M, McCarthy P, Allan J, Stölzel F, Onel K, Hahn TE, Sucheston-Campbell LE. Genome-wide association analyses identify variants in IRF4 associated with Acute Myeloid Leukemia and Myelodysplastic Syndrome susceptibility. bioRxiv 773952 (2019). doi:10.1101/773952
Tang H, Hahn TE, Karaesmen E, Rizvi AA, Wang J, Paczesny S, Wang T, Preus L, Zhu Q, Haiman CA, Stram D, Pooler L, Sheng X, Van Den Berg D, Brock G, Webb A, Pasquini MC, McCarthy PL, Spellman SR, Sucheston-Campbell LE. Validation of genetic associations with acute GVHD and non-relapse mortality in DISCOVeRY-BMT. Blood Advances doi: 10.1182/bloodadvances.2019000052.
Karaesmen E, Hahn TE, Dile A, Rizvi AA, Wang J, Wang T, Haagenson M, Preus L, Zhu Q, Liu Q, Yan L, Liu S, Haiman CA, Stram D, Pooler L, Sheng X, Van Den Berg D, Brock G, Webb A, McCarthy PL, Pasquini MC, Spellman SR, Lee SJ, Paczesny S, Sucheston-Campbell LE Multiple functional variants in IL1RL1 region are pre-transplant markers for risk of GVHD and infection deaths. Blood Advances doi: 10.1182/bloodadvances.2019000075
Rizvi AA, Karaesmen E, Morgan M, Preus L, Wang J, Sovic M, Hahn T, Sucheston-Campbell LE. gwasurvivr: an R package for genome-wide survival analysis. Bioinformatics. 2018 Nov 5. PMID: 30395168. doi:10.1093/bioinformatics/bty920
Karaesmen E, Rizvi AA, Preus L, McCarthy PL, Pasquini MC, Onel K, Zhu X, Spellman S, Haiman CA, Stram DO, Pooler L, Sheng X, Zhu Q, Yan L, Liu Q, Hu Q, Webb A, Brock G, Clay-Gilmour AI, Battaglia S, Tritchler D, Liu S, Hahn TE, Sucheston-Campbell LE. Replication and validation of genetic polymorphisms associated with survival after allogeneic blood or marrow transplant. Blood 2017 Sep 28;130(13):1585-1596. PMID: 28811306. doi:10.1182/blood-2017-05-784637
Sucheston-Campbell LE, Clay-Gilmour AI, Barlow WE, Budd GT, Stram DO, Haiman CA, Sheng X, Yan L, Zirpoli G, Yao S, Jiang C, Owzar K, Hershman D, Albain KS, Hayes DF, Moore HC, Hobday TJ, Stewart JA, Rizvi AA, Isaacs C, Salim M, Gralow JR, Hortobagyi GN, Livingston RB, Kroetz DL, Ambrosone CB (2017) Genome-Wide Meta-Analyses Identifies Novel Taxane-Induced Peripheral Neuropathy Associated Loci. Pharmacogenetics and Genomics. pgen-2017
Clay-Gilmour AI, Hahn T, Preus LM, Onel K, Skol A, Hungate E, Zhu Q, Haiman CA, Stram DO, Pooler L, Sheng X, Yan L, Liu Q, Hu Q, Liu S, Battaglia S, Zhu X, Block AW, Sait SN, Karaesmen E, Rizvi AA, Weisdorf DJ, Ambrosone CB, Tritchler D, Ellinghaus E, Ellinghaus D, Stanulla M, Clavel J, Orsi L, Spellman S, Pasquini, MC, McCarthy PL, Sucheston-Campbell LE. Genetic association with B-cell acute lymphoblastic leukemia in allogeneic transplant patients differs by age and sex. Blood Advances. 2017 Sep 8;1(20):1717-1728. PMID: 28811306. doi:10.1182/bloodadvances.2017006023
DeNies MS, Johnson J, Maliphol AB, Bruno M, Rizvi AA, Rustici K, Medler S. Diet-induced obesity alters skeletal muscle fiber types of male but not female mice. (2014) Physiological Reports.
Rizvi AA, Artificial Intelligence Projects in Industry, 2020. Columbus State University, Columbus, OH, USA.
Rizvi AA, Building a career in data science.. 2020. Columbus State University, Columbus, OH, USA.
Rizvi AA, Gordon P, Nikitin S, Sasso K. photon: electron meets shiny. useR!2019. Lightning Talk. Toulouse, France.
Rizvi AA, Gordon P, Nikitin S, Sasso K. photon: electron meets shiny. Bioconductor Conference 2019. Lightning Talk. New York, New York, USA.
Rizvi AA, Karaesmen E, Morgan M, Preus L, Wang J, Sovic M, Hahn T, Sucheston-Campbell Lara. gwasurvivr: an R package for genome wide survival data. Bioconductor Conference 2018. Toronto, ON, Canada.
Rizvi AA, Karaesmen E Preus L, McCarthy PL, Pasquini MC, Onel K, Zhu X, Spellman S, Haiman CA, Stram DO, Pooler L, Sheng X, Zhu Q, Yan L, Liu Q, Hu Q, Webb A, Brock G, Clay-Gilmour AI, Battaglia S, Tritchler D, Liu S, Hahn T, Sucheston-Campbell LE. Genetic Associations with Day +100 Transplant Related Mortality after HLA-matched Unrelated Donor Blood and Marrow Transplantation. (2018 Feb) BMT Tandem Meetings, Salt Lake City, UT.
Rizvi AA, Karaesmen E, Preus L, McCarthy PL, Pasquini MC, Onel K, Zhu X, Spellman S, Haiman CA, Stram DO, Pooler L, Sheng X, Zhu Q, Yan L, Liu Q, Hu Q, Webb A, Brock G, Clay-Gilmour AI, Battaglia S, Tritchler D, Liu S, Hahn T, Sucheston-Campbell LE. Visualizing genomic results for team science: an example from the DISCOVeRY-BMT study.(2016 Oct) Inaugural The Ohio State University Pharmaceutics Retreat, Columbus, OH.
Pending RStudio Tidyverse Instructor Certification - Course taken in July 2020
C2ER Council of Economic R Training - June 2020
Six introductory R courses organized with Ezgi Karaesmen and Katie Sasso Schafer.
Introduction to R Programming Workshops - 2018 - Present