Profile Details

Create Project

★★★★★

☆☆☆☆☆

USD 125 /hr

★★★★★

☆☆☆☆☆

Hire Dr. Ashish J.

United States

USD 125 /hr

Empowering biotech and research teams to unlock the full potential of their data through advanced NGS analytics.

Profile Summary

I am a computational biologist with over a decade of experience at institutions including Boston Children's Hospital, the Frederick National Laboratory for Cancer Research (NIH/NCI), and Takeda Pharmaceuticals, ATGC brings publication grade rigor and deep technical expertise to every engagement. We provides independent consulting practice specializing in next-generation sequencing, multi-omics integration, and computational biology. We partner with academic research groups, hospitals, and biotech companies to design, execute, and interpret complex genomic analyses. From early study design through to publication ready results, we act as an embedded scientific partner, not just a service provider. Our goal is to accelerate your research, reduce technical bottlenecks, and ensure your genomic data reaches its full scientific potential.

Subject Matter Expertise

• ☆ Molecular Biology
• ☆ DNA Sequencing
• ☆ RNA Sequencing
• ☆ Data Analysis
• ☆ Cluster Analysis
• ☆ Data Visualization
• ☆ Machine Learning
• ☆ Bioinformatics
• ☆ Gene & Protein Expression Analysis
• ☆ Systems Biology
• ☆ Python
• ☆ R

Services

• Research
• Consulting
• Data & AI

Research Scientific and Technical Research

Consulting Healthcare Consulting

Data & AI Statistical Analysis, Data Visualization, Data Cleaning, Data Processing, Data Insights

Work Experience

Data Scientist

Merck & Co.

February 2026 - Present

Data Scientist III

Boston Children's Hospital

April 2022 - January 2026

Bioinformatician

Leidos Inc Frederick

December 2020 - April 2022

Computational Biology Intern

Takeda Oncology

May 2019 - August 2019

Bioinformatics Intern

Cancer Genetics (United States)

May 2015 - August 2015

Graduate Research Assistant

Indiana University Purdue University at Indianapolis

August 2014 - May 2015

Education

Ph.D. (Bioinformatics and Computational Biology)

Iowa State University

August 2015 - November 2020

B.E. (Biotechnology)

Delhi College of Engineering

August 2007 - June 2011

Certifications

• Certification details not provided.

Publications

JOURNAL ARTICLE

Holm, A., Graus, M.S., Wylie-Sears, J., Tan, J.W.H., Alvarez-Harmon, M., Borgelt, L., Nasim, S., Chung, L., Jain, A., Sun, M., et al.(2025). An endothelial SOX18–mevalonate pathway axis enables repurposing of statins for infantile hemangioma . Journal of Clinical Investigation. 135. (7).

Martinez-Sanchez, M., Skarnes, W., Jain, A., Vemula, S., Sun, L., Rockowitz, S., Whitman, M.C.(2025). Chromosome 4 Duplication Associated with Strabismus Leads to Gene Expression Changes in iPSC-Derived Cortical Neurons . Genes. 16. (1).

Lee, K.A.V., Aboobakar, I.F., Jain, A., Tesdahl, C.D., Jin, K., Oke, I., Whitman, M.C.(2025). Genome-Wide and Rare Variant Association Studies of Amblyopia in the All of Us Research Program . Ophthalmology.

Ashish Jain, Victor Fattori, Tiago H. Zaninelli, Fernanda S. Rasquel-Oliveira, Olivia K. Heintz, Liang Sun, Maya L. Seshan, Daniëlle Peterse, Anne E. Lindholm, Raymond M. Anchan, et al. (2024). Nociceptor-to-macrophage communication through CGRP/RAMP1 signaling drives endometriosis-associated pain and lesion growth in mice . Science Translational Medicine.

Ashish Jain, Maria Strakosha, Daniela Vega-Mendoza, Jennifer Kane, Liang Sun, Shira Rockowitz, Megan Elkins, Kensuke Miyake, Janet Chou, Hajime Karasuyama, et al. (2024). Basophils Play a Protective Role in the Recovery of Skin Barrier Function from Mechanical Injury in Mice . Journal of Investigative Dermatology.

Fligor, S.C., Tsikis, S.T., Hirsch, T.I., Jain, A., Sun, L., Rockowitz, S., Gura, K.M., Puder, M.(2024). Inflammation drives pathogenesis of early intestinal failure-associated liver disease . Scientific Reports. 14. (1).

Jain, A., Gyori, B.M., Hakim, S., Jain, A., Sun, L., Petrova, V., Bhuiyan, S.A., Zhen, S., Wang, Q., Kawaguchi, R., et al.(2024). Nociceptor-immune interactomes reveal insult-specific immune signatures of pain . Nature Immunology. 25. (7). p. 1296-1305.

Fattori, V., Zaninelli, T.H., Rasquel-Oliveira, F.S., Heintz, O.K., Jain, A., Sun, L., Seshan, M.L., Peterse, D., Lindholm, A.E., Anchan, R.M., et al.(2024). Nociceptor-to-macrophage communication through CGRP/RAMP1 signaling drives endometriosis-associated pain and lesion growth in mice . Science Translational Medicine. 16. (772).

Strakosha, M., Vega-Mendoza, D., Kane, J., Jain, A., Sun, L., Rockowitz, S., Elkins, M., Miyake, K., Chou, J., Karasuyama, H., et al.(2024). Basophils Play a Protective Role in the Recovery of Skin Barrier Function from Mechanical Injury in Mice . Journal of Investigative Dermatology. 144. (8). p. 1784-1797.e4.

Ahmed, S., Wedekind, M.F., Rivero, J.D., Raygada, M., Lockridge, R., Glod, J.W., Flowers, C., Thomas, B.J., Bernstein, D.B., Kapustina, O.B., et al.(2023). Longitudinal Natural History Study of Children and Adults with Rare Solid Tumors: Initial Results for First 200 Participants . Cancer Research Communications. 3. (12). p. 2468-2482.

Conservation at the uterine–placental interface <head> <META HTTP-EQUIV="Refresh" CONTENT="0;URL=/servlet/useragent"> </head> . Proceedings of the National Academy of Sciences.

Jain A and Tandon M. MAFDash: An easy-to-use dashboard builder for mutation data [version 1; peer review: 2 not approved] F1000Research 2022, 11:748 (https://doi.org/10.12688/f1000research.118761.1) .

Ashish Jain, Mayank Tandon(2022). MAFDash: An easy-to-use dashboard builder for mutation data . F1000Research. 11. p. 748. F1000 Research Ltd

Scott, R.L., Vu, H.T.H., Jain, A., Iqbal, K., Tuteja, G., Soares, M.J.(2022). Conservation at the uterine–placental interface . Proceedings of the National Academy of Sciences of the United States of America. 119. (41).

Jain, A., Tuteja, G.(2021). PlacentaCellEnrich: A tool to characterize gene sets using placenta cell-specific gene enrichment analysis . Placenta. 103. p. 164-171.

(2020). PlacentaCellEnrich: A tool to characterize gene sets using placenta cell-specific gene enrichment analysis . Placenta.

Ashish Jain, Jiude Mao, Nancy D. Denslow, Mohammad-Zaman Nouri, Sixue Chen, Tingting Wang, Ning Zhu, Jin Koh, Saurav J. Sarma, Barbara W. Sumner, et al.(2020). Bisphenol A and bisphenol S disruptions of the mouse placenta and potential effects on the placenta–brain axis . Proceedings of the National Academy of Sciences. 117. (9). p. 4642--4652. Proceedings of the National Academy of Sciences

Mao, J., Jain, A., Denslow, N.D., Nouri, M.-Z., Chen, S., Wang, T., Zhu, N., Koh, J., Sarma, S.J., Sumner, B.W., et al.(2020). Bisphenol A and bisphenol S disruptions of the mouse placenta and potential effects on the placenta-brain axis . Proceedings of the National Academy of Sciences of the United States of America. 117. (9). p. 4642-4652.

Ashish Jain, Huy N Nguyen, Oliver Eulenstein, Iddo Friedberg, Russell Schwartz(2019). Tracing the ancestry of operons in bacteria . Bioinformatics. 35. (17). p. 2998--3004. Oxford University Press ({OUP})

Ashish Jain, Majd Abdulghani, Geetu Tuteja(2019). Genome-wide identification of enhancer elements in the placenta . Placenta. Elsevier {BV}

Ashish Jain, Megan A. Sheridan, Ying Yang, Alex S. Lyons, Penghua Yang, Sambasiva R. Brahmasani, Aihua Dai, Yuchen Tian, Mark R. Ellersieck, Geetu Tuteja, et al.(2019). Early onset preeclampsia in a model for human placental trophoblast . Proceedings of the National Academy of Sciences. 116. (10). p. 4336--4345. Proceedings of the National Academy of Sciences

Starks RR, Biswas A, Jain A, Tuteja G(2019). Combined analysis of dissimilar promoter accessibility and gene expression profiles identifies tissue-specific genes and actively repressed networks . Epigenetics & chromatin.

Sheridan, M.A., Yang, Y., Jain, A., Lyons, A.S., Yang, P., Brahmasani, S.R., Dai, A., Tian, Y., Ellersieck, M.R., Tuteja, G., et al.(2019). Early onset preeclampsia in a model for human placental trophoblast . Proceedings of the National Academy of Sciences of the United States of America. 116. (10). p. 4336-4345.

Abdulghani, M., Jain, A., Tuteja, G.(2019). Genome-wide identification of enhancer elements in the placenta . Placenta. 79. p. 72-77.

Jain, A., Tuteja, G.(2019). TissueEnrich: Tissue-specific gene enrichment analysis . Bioinformatics. 35. (11). p. 1966-1967.

Nguyen, H.N., Jain, A., Eulenstein, O., Friedberg, I.(2019). Tracing the ancestry of operons in bacteria . Bioinformatics. 35. (17). p. 2998-3004.

Starks, R.R., Biswas, A., Jain, A., Tuteja, G.(2019). Combined analysis of dissimilar promoter accessibility and gene expression profiles identifies tissue-specific genes and actively repressed networks . Epigenetics and Chromatin. 12. (1).

Ashish Jain, Geetu Tuteja, Janet Kelso(2018). TissueEnrich: Tissue-specific gene enrichment analysis . Bioinformatics. Oxford University Press ({OUP})

Jain, A., Ezashi, T., Roberts, R.M., Tuteja, G.(2017). Deciphering transcriptional regulation in human embryonic stem cells specified towards a trophoblast fate . Scientific Reports. 7. (1).

Ashish Jain, Toshihiko Ezashi, R. Michael Roberts, Geetu Tuteja(2017). Deciphering transcriptional regulation in human embryonic stem cells specified towards a trophoblast fate . Scientific Reports. 7. (1). Springer Nature

OTHER

Holm, A., Graus, M.S., Wylie-Sears, J., Borgelt, L., Tan, J.W.H., Nasim, S., Chung, L., Jain, A., Sun, M., Sun, L., et al.(2024). An endothelial SOX18-mevalonate pathway axis enables repurposing of statins for infantile hemangioma . bioRxiv.

Fattori, V., Zaninelli, T.H., Rasquel-Oliveira, F.S., Heintz, O.K., Jain, A., Sun, L., Seshan, M.L., Peterse, D., Lindholm, A.E., Anchan, R.M., et al.(2023). Nociceptor to macrophage communication through CGRP/RAMP1 signaling drives endometriosis-associated pain and lesion growth . bioRxiv.

Scott, R.L., Vu, H.T.H., Jain, A., Iqbal, K., Tuteja, G., Soares, M.J.(2022). CONSERVATION AT THE UTERINE-PLACENTAL INTERFACE . bioRxiv.

Nguyen, H., Jain, A., Eulenstein, O., Friedberg, I.(2017). Tracing the ancestry of operons in bacteria . bioRxiv.

CONFERENCE PAPER

Saksena, A., Jain, A., Pack, S.D., Kim, J., Lee, I., Tyagi, M., Xi, L., Pittaluga, S., Raffeld, M., Jaffe, E.S.(2023). Follicle Center Lymphoma (FCL) of the Lower Female Genital Tract (LFGT): A Novel Variant of Primary Cutaneous Follicle Center Lymphoma (PCFCL) . American Journal of Surgical Pathology. 47. (3). p. 409-419.