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☆☆☆☆☆

Hire Dr. Mousheng X.

United States

USD 200 /hr

Ph.D. Bioinformatician | 20+y Exp | RNAseq, GWAS, Mendelian Randomization, Colocalization, Pipeline Automation, AI/ML

Profile Summary

I am a Ph.D. Bioinformatician with over 20 years of experience dedicated to decoding complex biological systems through numbers and symbols. My expertise lies at the intersection of high-resolution transcriptomics and large-scale causal discovery. Whether you are navigating the foundational "what" of biology—Differential Gene Expression (DGE)—or seeking the "why" through Causal Inference, I provide the scalable, production-ready pipelines necessary to turn raw data into actionable insights. Core Expertise Transcriptomics & DGE: Expert-level analysis of RNA-seq, scRNA-seq, and ChIP-seq data. I specialize in identifying marker genes, molecular mechanisms of drug tolerance, and cell-type-specific responses. Causal Inference & Target Validation: Advanced implementation of Mendelian Randomization (MR) and Colocalization (pQTL, eQTL, GWAS) to move beyond correlation and identify high-confidence therapeutic targets. Large-Scale Genomic Analysis: Proven track record managing some of the world’s largest cohorts, including the 650,000-sample Million Veteran Program (MVP). Pipeline Automation & Engineering: Significant experience building reproducible, cloud-based workflows (WDL, Nextflow, Docker) that achieve massive scale. I recently led an initiative that resulted in a 100x speed improvement in data validation pipelines. Selected Project Impact Causal Knowledge Architect (D2M): Designed a multi-omics system integrating diverse genomic signals to prioritize oncology targets, facilitating successful fundraising and strategic R&D pivots. Infrastructure Lead (Booz Allen Hamilton): Directed the QA/QC and ancestry painting for massive-scale GWAS datasets, ensuring absolute data integrity for a distributed network of global researchers. Deep-Tech Innovation (Sophyics): Established a biophysics laboratory from the ground up and proposed novel genomic data compression strategies to address the industry's massive multi-omics storage demands. With nearly 20 peer-reviewed publications in top-tier journals like Science and Nature, I bridge the gap between complex biostatistical modeling and clear, strategic communication. I am committed to providing "low-friction" paths for data movement and high-fidelity results for every client.

Subject Matter Expertise

• ☆ Biostatistics
• ☆ Python
• ☆ SQL
• ☆ Excel
• ☆ Java
• ☆ Tensorflow
• ☆ R
• ☆ Scikit-learn
• ☆ Oracle
• ☆ Drug Discovery
• ☆ High Throughput Screening (HTS)
• ☆ Drug Target Identification
• ☆ Hit-to-Lead & Lead Optimization
• ☆ Phenotypic Assays
• ☆ High Content Screening/Imaging
• ☆ Drug Development
• ☆ Bioanalytical Testing
• ☆ Pharmacogenomics
• ☆ Drug Efficacy Testing
• ☆ Medical Genetics
• ☆ Immunogenetics
• ☆ Human Biology
• ☆ Precision Medicine
• ☆ Immunotherapy
• ☆ Gene Therapy
• ☆ Software Development
• ☆ Software QA & Testing
• ☆ Mobile Application Development
• ☆ Desktop Application Development
• ☆ Web Application Development
• ☆ Cloud Application Development
• ☆ DevOps
• ☆ UI/UX Design
• ☆ Hypothesis
• ☆ Peer Review
• ☆ Survey Design & Methodology
• ☆ Meta-Research
• ☆ Fact Checking
• ☆ Herbal Products
• ☆ Supplements
• ☆ Fundraising

Services

• Data & AI
• Product Development

Data & AI Predictive Modeling, Statistical Analysis, Image Processing, Image Analysis, Algorithm Design-Non ML, Algorithm Design-ML, Data Visualization, Big Data Analytics

Product Development Quality Assurance & Control (QA/QC), Prototyping

Work Experience

Head of Bioscience

Sophyics Pte. Ltd.

January 2024 - February 2026

Head of Bioinformatics

D2M Biotherapeutics

July 2021 - November 2024

Sr. Data Analyst, Sr. Statistical Geneticist

Booz Allen Hamilton

March 2018 - July 2021

Bioinformatics Analyst II

Dana-Farber Cancer Institute, Harvard Medical School

May 2016 - March 2018

Sr. Software Engineer

GENE LOGIC INC.

September 2001 - November 2013

Postdoctoral Research fellow

Harvard T.H. Chan School of Public Health

September 2009 - May 2011

Computational scientist

Celltech R & D, Inc.

August 1998 - September 2001

Software Developer II

Informix Inc.

February 1998 - August 1998

Education

Ph.D. in Bioinformatics

Boston University

September 2004 - May 2009

PhD (Bioinformatics)

Boston University

September 2004 - May 2009

MS in EECS

Kansas University

January 1996 - May 1998

MS in Biochemistry and Molecular Biology

Kansas University Medical Center

June 1993 - May 1996

BS in Genetics

Wuhan University - China

September 1984 - June 1988

Certifications

• Introduction to Neural Networks and PyTorch

  IBM

  https://www.credly.com/users/registrations/sso?social=google&token=GvsxD92qmKJpTtt8_hBDcRYbZUfbMMKN7kIpc6-oSfVQaYLkY2Q1NHHFOYL-b9p90U-R0zwwLyhamp5k4hfbog==

  October 2024 - Present

• Statistics Modeler

  Ohio State University

  May 1993 - Present

Publications

JOURNAL ARTICLE

Cuellar-Partida G, Tung JY, Eriksson N, Albrecht E, Aliev F, Andreassen OA, Barroso I, Beckmann JS, Boks MP, Boomsma DI, et al. (2020). Genome-wide association study identifies 48 common genetic variants associated with handedness . Nature human behaviour.

Li F, Ng WL, Luster TA, Hu H, Sviderskiy VO, Dowling CM, Hollinshead KER, Zouitine P, Zhang H, Huang Q, et al. (2020). Epigenetic CRISPR Screens Identify <i>Npm1</i> as a Therapeutic Vulnerability in Non-Small Cell Lung Cancer . Cancer research.

Zhao X, Ren Y, Lawlor M, Shah BD, Park PMC, Lwin T, Wang X, Liu K, Wang M, Gao J, et al. (2019). BCL2 Amplicon Loss and Transcriptional Remodeling Drives ABT-199 Resistance in B Cell Lymphoma Models . Cancer cell.

Zeng M, Kwiatkowski NP, Zhang T, Nabet B, Xu M, Liang Y, Quan C, Wang J, Hao M, Palakurthi S, et al. (2018). Targeting MYC dependency in ovarian cancer through inhibition of CDK7 and CDK12/13 . eLife.

Gechijian LN, Buckley DL, Lawlor MA, Reyes JM, Paulk J, Ott CJ, Winter GE, Erb MA, Scott TG, Xu M, et al. (2018). Functional TRIM24 degrader via conjugation of ineffectual bromodomain and VHL ligands . Nature chemical biology.

Ye S, Lawlor MA, Rivera-Reyes A, Egolf S, Chor S, Pak K, Ciotti GE, Lee AC, Marino GE, Shah J, et al. (2018). YAP1-Mediated Suppression of USP31 Enhances NFκB Activity to Promote Sarcomagenesis . Cancer research.

Erwin GS, Grieshop MP, Ali A, Qi J, Lawlor M, Kumar D, Ahmad I, McNally A, Teider N, Worringer K, et al. (2017). Synthetic transcription elongation factors license transcription across repressive chromatin . Science (New York, N.Y.).

Peng Q, Huang S, Chen X, Yuan Y, Yu Y, Tao L, Zhang Z, Xu M (2015). Validation of warfarin pharmacogenetic algorithms in 586 Han Chinese patients . Pharmacogenomics.

Wu C, Kraft P, Stolzenberg-Solomon R, Steplowski E, Brotzman M, Xu M, Mudgal P, Amundadottir L, Arslan AA, Bueno-de-Mesquita HB, et al. (2012). Genome-wide association study of survival in patients with pancreatic adenocarcinoma . Gut.

Gates MA, Xu M, Chen WY, Kraft P, Hankinson SE, Wolpin BM (2012). ABO blood group and breast cancer incidence and survival . International journal of cancer.

Zhang M, Liang L, Xu M, Qureshi AA, Han J (2011). Pathway analysis for genome-wide association study of basal cell carcinoma of the skin . PloS one.

Xu M, Tantisira KG, Wu A, Litonjua AA, Chu JH, Himes BE, Damask A, Weiss ST (2011). Genome Wide Association Study to predict severe asthma exacerbations in children using random forests classifiers . BMC medical genetics.

Nan H, Xu M, Kraft P, Qureshi AA, Chen C, Guo Q, Hu FB, Curhan G, Amos CI, Wang LE, et al. (2011). Genome-wide association study identifies novel alleles associated with risk of cutaneous basal cell carcinoma and squamous cell carcinoma . Human molecular genetics.

Nan H, Xu M, Zhang J, Zhang M, Kraft P, Qureshi AA, Chen C, Guo Q, Hu FB, Rimm EB, et al. (2011). Genome-wide association study identifies nidogen 1 (NID1) as a susceptibility locus to cutaneous nevi and melanoma risk . Human molecular genetics.

Wolpin BM, Kraft P, Xu M, Steplowski E, Olsson ML, Arslan AA, Bueno-de-Mesquita HB, Gross M, Helzlsouer K, Jacobs EJ, et al. (2010). Variant ABO blood group alleles, secretor status, and risk of pancreatic cancer: results from the pancreatic cancer cohort consortium . Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology.

Murphy A, Chu JH, Xu M, Carey VJ, Lazarus R, Liu A, Szefler SJ, Strunk R, Demuth K, Castro M, et al. (2010). Mapping of numerous disease-associated expression polymorphisms in primary peripheral blood CD4+ lymphocytes . Human molecular genetics.

Nadeau K, Montermini L, Mandeville I, Xu M, Weiss ST, Sweezey NB, Kaplan F (2010). Modulation of Lgl1 by steroid, retinoic acid, and vitamin D models complex transcriptional regulation during alveolarization . Pediatric research.

Degnan JH, Lasky-Su J, Raby BA, Xu M, Molony C, Schadt EE, Lange C (2008). Genomics and genome-wide association studies: an integrative approach to expression QTL mapping . Genomics.

ENCODE Project Consortium, Birney E, Stamatoyannopoulos JA, Dutta A, Guig&#243; R, Gingeras TR, Margulies EH, Weng Z, Snyder M, Dermitzakis ET, et al. (2007). Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project . Nature.