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Profile Details
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Hire Jayaram K.
United States

Bioinformatics Software Engineer

Profile Summary
Subject Matter Expertise
Services
Writing Technical Writing, General Proofreading & Editing
Research Scientific and Technical Research
Data & AI Algorithm Design-Non ML, Data Visualization
Work Experience

Senior Research Software Engineer

Genentech Inc

October 2020 - Present

Research Assistant, Scientific Programmer

University of Maryland

January 2016 - October 2020

US Environmental Protection Agency

September 2011 - December 2015

Education

Masters (Computer Science)

North Carolina State University

August 2009 - June 2011

Bachelors (computer science and engineering)

Velagapudi Ramakrishna Siddhartha Engineering College

September 2005 - April 2009

Certifications
  • Certification details not provided.
Publications
JOURNAL ARTICLE
Jayaram Kancherla, Aaron Tin Long Lun (2023). gesel: a JavaScript package for client-side gene set enrichment . Journal of Open Source Software.
Jayaram Kancherla, Aaron Tin Long Lun (2023). Powering single-cell analyses in the browser with WebAssembly . Journal of Open Source Software.
Wagner J, Kancherla J, Braccia D et al. Interactive exploratory data analysis of Integrative Human Microbiome Project data using Metaviz [version 2; peer review: 3 approved] F1000Research 2021, 9:601 (https://doi.org/10.12688/f1000research.24345.2) .
Jayaram Kancherla, Justin Wagner, Domenick Braccia, James Matsumara, Victor Felix, Jonathan Crabtree, Anup Mahurkar, Héctor Corrada Bravo (2021). Interactive exploratory data analysis of Integrative Human Microbiome Project data using Metaviz . F1000Research.
Jayaram Kancherla, Yifan Yang, Hyeyun Chae, Hector Corrada Bravo, Alfonso Valencia(2020). Epiviz File Server: Query, transform and interactively explore data from indexed genomic files . Bioinformatics. Oxford University Press ({OUP})
Jayaram Kancherla, Justin Wagner, Domenick Braccia, James Matsumara, Victor Felix, Jonathan Crabtree, Anup Mahurkar, Héctor Corrada Bravo(2020). Interactive exploratory data analysis of Integrative Human Microbiome Project data using Metaviz . F1000Research. 9. p. 601. F1000 Research Ltd
Jayaram Kancherla, Zhe Cui, Kyle W Chang, Niklas Elmqvist, Héctor Corrada Bravo, John Hancock(2020). Proactive visual and statistical analysis of genomic data in Epiviz . Bioinformatics. 36. (7). p. 2195--2201. Oxford University Press ({OUP})
Jayaram Kancherla, Shruti Rao, Krithika Bhuvaneshwar, Rebecca B. Riggins, Robert A. Beckman, Subha Madhavan, Héctor Corrada Bravo, Simina M. Boca(2020). Evidence-Based Network Approach to Recommending Targeted Cancer Therapies . JCO Clinical Cancer Informatics. (4). p. 71--88. American Society of Clinical Oncology ({ASCO})
Cui, Z., Kancherla, J., Chang, K.W., Elmqvist, N., Corrada Bravo, H.(2020). Proactive visual and statistical analysis of genomic data in Epiviz . Bioinformatics (Oxford, England). 36. (7). p. 2195-2201.
Jayaram Kancherla, Zhe Cui, Kyle W Chang, Niklas Elmqvist, Héctor Corrada Bravo, John Hancock(2019). Proactive Visual and Statistical Analysis of Genomic Data in Epiviz . Bioinformatics. Oxford University Press ({OUP})
Olson, N.D., Shah, N., Kancherla, J., Wagner, J., Paulson, J.N., Corrada Bravo, H.(2019). MetagenomeFeatures: An R package for working with 16S rRNA reference databases and marker-gene survey feature data . Bioinformatics. 35. (19). p. 3870-3872.
Kancherla J, Zhang A, Gottfried B and Bravo HC. Epiviz Web Components: reusable and extensible component library to visualize functional genomic datasets [version 1; referees: 1 approved, 2 approved with reservations] F1000Research 2018, 7:1096 (doi: 10.12688/f1000research.15433.1) .
Jayaram Kancherla, Alexander Zhang, Brian Gottfried, Hector Corrada Bravo(2018). Epiviz Web Components: reusable and extensible component library to visualize functional genomic datasets . F1000Research. 7. p. 1096. F1000 Research, Ltd.
Jayaram Kancherla, Justin Wagner, Florin Chelaru, Joseph N Paulson, Alexander Zhang, Victor Felix, Anup Mahurkar, Niklas Elmqvist, Héctor Corrada Bravo(2018). Metaviz: interactive statistical and visual analysis of metagenomic data . Nucleic Acids Research. 46. (6). p. 2777--2787. Oxford University Press ({OUP})
Jayaram Kancherla, Justin Wagner, Florin Chelaru, Joseph N Paulson, Alexander Zhang, Victor Felix, Anup Mahurkar, Niklas Elmqvist, Héctor Corrada Bravo(2018). Metaviz: interactive statistical and visual analysis of metagenomic data . Nucleic Acids Research. 46. (6). p. 2777--2787. Oxford University Press ({OUP})
Wagner, J., Chelaru, F., Kancherla, J., Paulson, J.N., Zhang, A., Felix, V., Mahurkar, A., Elmqvist, N., Bravo, H.C.(2018). Metaviz: interactive statistical and visual analysis of metagenomic data . Nucleic Acids Research. 46. (6). p. 2777-2787.
Bravo, H.C., Kancherla, J., Zhang, A., Gottfried, B.(2018). Epiviz Web Components: Reusable and extensible component library to visualize functional genomic datasets . F1000Research. 7.
Jayaram Kancherla, Gary Ginsberg, Suryanarayana V Vulimiri, Yu-Sheng Lin, Brenda Foos, Babasaheb Sonawane(2017). A framework and case studies for evaluation of enzyme ontogeny in children’s health risk evaluation . Journal of Toxicology and Environmental Health, Part A. p. 1--25. Informa {UK} Limited
Ginsberg, G., Vulimiri, S.V., Lin, Y.-S., Kancherla, J., Foos, B., Sonawane, B.(2017). A framework and case studies for evaluation of enzyme ontogeny in children’s health risk evaluation . Journal of Toxicology and Environmental Health - Part A: Current Issues. 80. (10-12). p. 569-593.
Jayaram Kancherla, Ann M Richard, Richard S. Judson, Keith A. Houck, Christopher M. Grulke, Patra Volarath, Inthirany Thillainadarajah, Chihae Yang, James F Rathman, Matthew Thomas Martin, et al.(2016). The ToxCast Chemical Landscape: Paving the Road to 21st Century Toxicology . Chem. Res. Toxicol. American Chemical Society ({ACS})
Jayaram Kancherla, Kamel Mansouri, Ahmed Abdelaziz, Aleksandra Rybacka, Alessandra Roncaglioni, Alexander Tropsha, Alexandre Varnek, Alexey Zakharov, Andrew Worth, Ann M. Richard, et al.(2016). CERAPP: Collaborative Estrogen Receptor Activity Prediction Project . EHP. Environmental Health Perspectives
Mansouri, K., Abdelaziz, A., Rybacka, A., Roncaglioni, A., Tropsha, A., Varnek, A., Zakharov, A., Worth, A., Richard, A.M., Grulke, C.M., et al.(2016). CERAPP: Collaborative estrogen receptor activity prediction project . Environmental Health Perspectives. 124. (7). p. 1023-1033.
Richard, A.M., Judson, R.S., Houck, K.A., Grulke, C.M., Volarath, P., Thillainadarajah, I., Yang, C., Rathman, J., Martin, M.T., Wambaugh, J.F., et al.(2016). ToxCast Chemical Landscape: Paving the Road to 21st Century Toxicology . Chemical Research in Toxicology. 29. (8). p. 1225-1251.
PREPRINT
Jayaram Kancherla, Aaron Lun (2022). Powering single-cell analyses in the browser with WebAssembly .
OTHER
Jayaram Kancherla, Zizhen Yao, Hanqing Liu, Fangming Xie, Stephan Fischer, A. Sina Booeshaghi, Ricky S Adkins, Andrew I. Aldridge, Seth A. Ament, Antonio Pinto-Duarte, et al.(2020). An integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell types . Cold Spring Harbor Laboratory
Jayaram Kancherla, Yifan Yang, Hyeyun Chae, Hector Corrada Bravo(2019). Epiviz File Server: Query, Transform and Interactively Explore Data from Indexed Genomic Files . Cold Spring Harbor Laboratory
Jayaram Kancherla, Zhe Cui, Hector Corrada Bravo, Niklas Elmqvist(2019). Sherpa: Leveraging User Attention for Computational Steering in Visual Analytics . 2019 IEEE Visualization in Data Science (VDS). {IEEE}
Jayaram Kancherla, Shruti Rao, Krithika Bhuvaneshwar, Rebecca B. Riggins, Robert A. Beckman, Subha Madhavan, Héctor Corrada Bravo, Simina M. Boca(2019). An evidence-based network approach to recommending targeted cancer therapies . Cold Spring Harbor Laboratory
Jayaram Kancherla, Yifan Yang, Hector Corrada Bravo (2019). Epiviz File Server – Query, compute and interactive exploration of data from indexed genomic files . F1000 Research Limited.
Jayaram Kancherla, Mohamed K. Gunady, Héctor Corrada Bravo, Soheil Feizi(2019). scGAIN: Single Cell RNA-seq Data Imputation using Generative Adversarial Networks . Cold Spring Harbor Laboratory
Jayaram Kancherla, AlexanderYZhang, Alex Bradford, Lan Tran, Brian Gottfried, Hcorrada (2018). Epiviz/Epiviz-Chart: Epiviz-Chart . Zenodo.
Jayaram Kancherla, AlexanderYZhang, Alex Bradford, Lan Tran, Brian Gottfried, Hcorrada (2018). Epiviz/Epiviz-Chart: Epiviz-Chart . Zenodo.
Jayaram Kancherla, AlexanderYZhang, Alex Bradford, Lan Tran, Brian Gottfried, Hcorrada (2018). Epiviz/Epiviz-Chart: Epiviz-Chart . Zenodo.
Jayaram Kancherla, Nathan D Olson, Nidhi Shah, Justin Wagner, Joseph Paulson, Hector Corrada Bravo(2018). metagenomeFeatures: An R package for working with 16S rRNA reference databases and marker-gene survey feature data . Cold Spring Harbor Laboratory
Jayaram Kancherla, Justin Wagner, Florin Chelaru, Joseph N Paulson, Victor Felix, Anup Mahurkar, Hector Corrada Bravo(2017). Metaviz: interactive statistical and visual analysis of metagenomic data . Cold Spring Harbor Laboratory
Jayaram Kancherla, Kamel Mansouri, Ann Richard, Richard Judson, 0000-0002-2348-9633, 0000-0003-2116-2300 (2017). EDSP Prioritization: Collaborative Estrogen Receptor Activity Prediction Project (CERAPP) . Figshare.
Jayaram Kancherla, Kamel Mansouri, Hao Truong, Ann Richard, Richard Judson, 0000-0003-2116-2300, 0000-0002-2348-9633 (2017). ACToR Chemical Structure processing using Open Source ChemInformatics Libraries . Figshare.
Jayaram Kancherla, Kamel Mansouri, Ann Richard, Richard Judson, 0000-0002-2348-9633, 0000-0003-2116-2300 (2017). CERAPP-Collaborative Estrogen Receptor Activity Prediction Project . Figshare.
Jayaram Kancherla, Sean Watford, Jeff Edwards, Richard Judson, Monica Linnenbrink, Matthew Martin, 0000-0002-2348-9633 (2017). Web Application Supporting Chemical Safety Decisions . Figshare.
Jayaram Kancherla, Sean Watford, Jeff Edwards, Richard Judson, Monica Linnenbrink, Matthew Martin, 0000-0002-2348-9633 (2017). Web Application Supporting Chemical Safety Decisions . Figshare.
Florin Chelaru Hector Corrada Bravo (2017). epivizr . Bioconductor.
Jayaram Kancherla, Cory L. Strope, Kamel Mansouri, Caroline Stevens, John Wambaugh, 0000-0002-4024-534X (2017). High Throughput Pharmacokinetic Modeling Using Computationally Predicted Parameter Values: Dissociation Constants . Figshare.
Jayaram Kancherla, Cory L. Strope, Kamel Mansouri, Caroline Stevens, John Wambaugh, 0000-0002-4024-534X (2017). High Throughput Pharmacokinetic Modeling Using Computationally Predicted Parameter Values: Dissociation Constants . Figshare.
Jayaram Kancherla, Cory L. Strope, Kamel Mansouri, Caroline Stevens, John Wambaugh, 0000-0002-4024-534X (2017). High Throughput Pharmacokinetic Modeling Using Computationally Predicted Parameter Values: Dissociation Constants . Figshare.
Jayaram Kancherla, Sean Watford, Jeff Edwards, Richard Judson, Monica Linnenbrink, Matthew Martin, 0000-0002-2348-9633 (2017). Web Application Supporting Chemical Safety Decisions . Figshare.
Hector Corrada Bravo [Cre, Aut], Florin Chelaru [Aut], JustinWagner [Aut], Jayaram Kancherla [Aut], Joseph Paulson [Aut] (2017). metavizr . Bioconductor.
Hector Corrada Bravo [Aut, Cre], Florin Chelaru [Aut] (2017). epivizrData . Bioconductor.
Jayaram Kancherla Hector Corrada Bravo (2017). epivizrStandalone . Bioconductor.
Brian Gottfried [Aut], Jayaram Kancherla [Aut], Hector CorradaBravo [Aut, Cre] (2017). epivizrChart . Bioconductor.
Jayaram Kancherla, Trygve E. Bakken, Nikolas L. Jorstad, Qiwen Hu, Blue B. Lake, Wei Tian, Brian E. Kalmbach, Megan Crow, Rebecca D. Hodge, Fenna M. Krienen, et al. Evolution of cellular diversity in primary motor cortex of human, marmoset monkey, and mouse .
BOOK
Practical graph mining with R @book{RID:0918171139285-1, title = {Practical graph mining with R}, publisher = {}, year = {}, author = {Samatova, Nagiza F.}, editor = {}, series = {Chapman & Hall/CRC data mining and knowledge discovery series}, pages = {xxi, 473 pages} }. Chapman & Hall/CRC data mining and knowledge discovery series.