Reuben Sarwal

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Bioinformatics Programmer

UCSF; Bakar Computational Health Sciences Institute

Feb 2023 - Current (3 years 9 months)

Analysis of clinical and sequencing data (RNA-seq, CyTOF) as part of a clinical trial seeking to broadly profile the immune systems of children and adults living in a malaria endemic area over multiple points in time, and build state-of-the-art computational models of natural immunity to malaria. Co-lead on the statistical analysis design of submitted data as part of The Immunology Database and Analysis Portal (ImmPort) project, supported by the National Institutes of Health (NIH), National Institute of Allergy and Infectious Diseases (NIAID), and the Division of Allergy, Immunology, and Transplantation (DAIT), and co-lead on the subsequent analysis of the publicly available data (ELISA, flow cytometry, gene expression). Curation of data an

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Bioinformatics Scientist Consultant

Epinoma

Jun 2021 - Feb 2022 (9 months)

Development of probabilistic machine learning models for colon cancer detection. Analysis of publicly available genome-wide epigenetic datasets for biomarker discovery. Database management and clinical trial design.

Translational Medicine Research Assistant

Melio

Jul 2020 - Jun 2021 (1 year)

Company development and organizational analysis. IP development and Freedom to Operate (FTO) analysis. Submission to SBIR, BARDA, and other biomedical-related grants and accelerator programs. Algorithm development and data science project management regarding characterization of different pathogenic species.

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Research Assistant

University of California, Berkeley; Sociology

Sep 2018 - May 2019 (9 months)

Organization of study participant's questionnaire responses for quantitative analysis for Professor Daniel Schneider using NLP tools in R (quanteda, tidytext, stringr). Conceptualization of variables necessary for job description analysis and development of a pipeline in R/STATA to scrub text files and pull relevant data for future analysis of job descriptions from varying companies.

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Data Scientist

Nephrosant Inc.

Apr 2018 - Jul 2022 (4 years 4 months)

Analysis of protein, metabolic, and genomic data for biomarker discovery in different kidney-related diseases (nephrolithiasis, chronic kidney disease, transplant rejection, cytomegalovirus, and Sars-CoV-2). Co-led the development of a machine learning-based model for estimation of kidney function in CKD. Assisted with the optimization and validation of machine learning models for the diagnosis of kidney transplant rejection in clinical patient samples. Submission of 8 peer-reviewed publications and supported presentations for the team at national conferences (Precision Medicine World Congress, American Society of Nephrology, American Society of Transplantation).

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Bioinformatics Scientist

University of California, San Francisco; Psychiatry

Jun 2017 - Sep 2022 (5 years 4 months)

Analysis of patient's CpG methylation, gene-expression (mRNA microarray), genotype (Single-nucleotide polymorphism), proteomics and RNA-seq data in R (bioconductor, seurat, shiny, ggplot, plotly), and lead the analysis for the integration of methylation data with genotype data in PLINK/R in order to uncover significant CpG-SNP associations in PTSD. Investigation of the role of pro-BDNF in PTSD by performing ELISA-based assays. Content analysis of different mobile-based mood therapy applications and their ability to treat depression.

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Reuben Sarwal

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Behavioral traits