Senior Director
Current
Jan 2024 - Present
AeroLeads people directory · profile
Abhinav Kumar, Phd Email & Phone Number
Bioinformatician, Computational Biologist, Data Scientist, Software Developer
at
Switch Therapeutics
LinkedIn matched
3 data sources
Profile completeness 100%
Current company
Role
Bioinformatician, Computational Biologist, Data Scientist, Software Developer
Location
San Francisco Bay Area, United States, United States
Who is Abhinav Kumar, Phd? Overview
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Quick answer
Abhinav Kumar, Phd is listed as Bioinformatician, Computational Biologist, Data Scientist, Software Developer at Switch Therapeutics, based in San Francisco Bay Area, United States, United States. AeroLeads shows a matched LinkedIn profile for Abhinav Kumar, Phd.
Abhinav Kumar, Phd previously worked as Senior Director at Switch Therapeutics and Director at Switch Therapeutics. Abhinav Kumar, Phd holds Doctor Of Philosophy - Phd, Structural Biology from Purdue University.
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Profile bio
About Abhinav Kumar, Phd
I am a scientist with several years’ experience in Bioinformatics, Software development, Structural Biology and Drug Discovery Research. I have expertise and proven abilities in NGS, Multi-omics data analyses and other Bioinformatics areas, Software development, Computational Biology, Drug design and discovery with a focus on automation. Application of Multi-omics data to solve problems in biotechnology is a constant source of excitement to me.AREAS OF EXPERTISE • NGS and multi-omics data analysis (Variant Calling, Whole Genome Assembly, RNA-SEQ, Proteomics).• SiRNA/CASi designs• Protein and Strain engineering, enzyme selection/discovery, enzyme evolution.• Protein structure and binding site analysis, ligand docking, and ligand designing, x-ray crystallography.• Pipeline building to automate data analyses and reporting.• Programming languages including Python, Perl, web app development, shell scripting on Linux/OSX platforms, data engineering and pipeline creations, machine learning, databases, distributed and cloud computing, Docker deployment, code version control (git).• Basic familiarity in molecular biology, biochemistry and other lab techniques.
Listed skills include Drug Design, Linux, Crystallography, Perl, and 16 others.
Current workplace
Abhinav Kumar, Phd's current company
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12 roles · 31 years
Abhinav Kumar, Phd work experience
A career timeline built from the work history available for this profile.
Director
- Built the Bioinformatics department from scratch with capabilities to acquire, store, analyze, and report on various kinds of data.
- Set up AWS infra structure for data storage, analysis, and deployment of web apps (S3, RDS, EC2, etc.).
- Created sophisticated tools to design SiRNAs and CASis.
- Set up ELN and Compound Registry database with CDD.
- Set up CROs and consultants for large scale data analysis like RNA-SEQ and NGS.
- Worked closely with various teams to understand their computational needs and deliver appropriate products.
Aug 2022 - Dec 2023
Director
- Created the NGS pipeline and deployed it on AWS – with seamless integration with Benchling, AWS (S3, Aurora), Google Drive.
- Created several web app tools for use by strain engineering team and deployed on AWS Fargate
- Discovered an enzyme using RNA-SEQ data – patent filed
- Set up a Alphafold server on AWS to model protein structures and developed an automated pipeline to dock ligands into the structures.
- Created and annotated a reference genome using de novo assembly
Feb 2021 - Jul 2022
Principal Scientist
Helped build a robust platform for Insilixa’s bioinformatics needs, including building automated systems, databases, etc.
Jun 2020 - Feb 2021
Principal Scientist
- Group Leader: Responsible for all multi-omics and bioinformatics analysis and software development/maintenance.
- Designed and built pipelines and webapps to automate the analysis of various types of NGS and other Omics data (DGE for RNA-SEQ and Proteomics, Metabolomics), including associated ETLs and reporting. These automated.
- Created novel apps to identify unexpected changes in genomes in strain engineering, avoiding months of time waste due to unidentified changes in the genomes. ▸ Created app to automatically identify the locus of.
- Applied machine learning to enzyme engineering data analysis to accelerate the process of enzyme evolution.
- Actively worked with NGS team to test and validate new experimental methods including library preparation kitsand protocols.
- Extensive experience with Illumina and Pacbio technologies.
Jan 2018 - May 2020
Senior Scientist
- Built pipeline for NGS data analysis of plasmids (Plasmid Validation) with interactive graphical reporting and filtering of results, thereby saving days of analysis time.
- Created apps to analyze, transform, perform calculations, store data in databases, and provide visualization tools through web browser and spotfire for a number of applications including Proteomics, Metabolomics, CGQ.
- Designed pathways with heterologous enzymes to produce fine chemicals in bacteria and yeast for over a dozen projects.
- Engineered proteins through rational designs and Directed Enzyme Evolution to improve their physico-chemical and catalytic properties.
Oct 2015 - Dec 2017
Consultant
- Automated the process of docking small molecule ligands into protein structures.
- Established crystallographic efforts to crystallize target proteins with ligands and their subsequent structures determination to aid drug design and development.
Apr 2015 - Oct 2015
Staff Scientist
- Developed software systems including data mining for ligands, data management server, automation of refinement of structures, and quality control, resulting in substantial time saving and streamlining of routine.
- Quality Control Server: This application was widely used by scientists from all over the world.
- Ligand Search Server: This was also widely used from all over the world.
- Refinement Database Server: This was a crystallographic LIMS server that managed and tracked the progress of projects in the lab.
Dec 2005 - Mar 2015
Senior Scientist
- Designed, implemented, and optimized software systems to automate data mining, analysis, and reporting in Crystallography, Assay, and Molecular Biology. These software developments involved working with scientists in.
- Structural Biology support for Braf project: Provided structural biology support to Braf project, helping design and validation of drug candidates that led to the FDA approval of Vemurafenib for the treatment of.
- Crystal Screen Maker: This web based tool generates various kinds of crystallization screens. Development of this software saved the company about $30,000 annually and streamlined the process of crystallization.
- Structure Determination and Refinement: This software automates the processes of solving protein structures and refinement. This software cut the time of a typical structural biology project by 40%.
- Set up and managed the computational crystallography department.
Jan 2002 - Jun 2005
Research Associate
1995 - 1997
~2 yrs
Research Associate
1995 - 1997
~2 yrs
Research Associate
1995 - 1997
~2 yrs
4 education records
Abhinav Kumar, Phd education
Doctor Of Philosophy - Phd, Structural Biology
Purdue University
Master Of Science (M.Sc.), Physics
Indian Institute Of Technology, Kanpur
Bachelor Of Science (B.Sc.), Physics
St. Stephen'S College, Delhi
Education record
Sainik School Tilaiya
FAQ
Frequently asked questions about Abhinav Kumar, Phd
Quick answers generated from the profile data available on this page.
What company does Abhinav Kumar, Phd work for?
Abhinav Kumar, Phd works for Switch Therapeutics.
What is Abhinav Kumar, Phd's role at Switch Therapeutics?
Abhinav Kumar, Phd is listed as Bioinformatician, Computational Biologist, Data Scientist, Software Developer at Switch Therapeutics.
Where is Abhinav Kumar, Phd based?
Abhinav Kumar, Phd is based in San Francisco Bay Area, United States, United States while working with Switch Therapeutics.
What companies has Abhinav Kumar, Phd worked for?
Abhinav Kumar, Phd has worked for Switch Therapeutics, Sestina Bio, Llc., Insilixa, Mbp Titan, and Intrexon Corporation.
How can I contact Abhinav Kumar, Phd?
You can use AeroLeads to view verified contact signals for Abhinav Kumar, Phd at Switch Therapeutics, including work email, phone, and LinkedIn data when available.
What schools did Abhinav Kumar, Phd attend?
Abhinav Kumar, Phd holds Doctor Of Philosophy - Phd, Structural Biology from Purdue University.
What skills is Abhinav Kumar, Phd known for?
Abhinav Kumar, Phd is listed with skills including Drug Design, Linux, Crystallography, Perl, Genomics, Protein Engineering, Drug Discovery, and Molecular Biology.
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