Sagnik Banerjee

About Sagnik Banerjee

As a Senior Scientist in Applied Bioinformatics at Bristol Myers Squibb with over a year of tenure, I specialize in developing innovative algorithms and pipelines for single-cell variant calling and tumor genomics. My work includes creating a novel algorithm for long-read single-cell sequencing, enhancing variant detection sensitivity, and implementing advanced peptide tiling approaches to identify regions in undruggable targets. Leveraging skills in cloud computing, single-cell variant calling, and nanopore sequencing, I focus on integrating cutting-edge generative AI tools to improve genomic data analysis. My contributions aim to drive actionable insights and empower therapeutic strategies, supporting advancements in oncology and precision medicine.

Experience

1. Applied Bioinformatics Senior Scientist

   Bristol Myers Squibb

   Nov 2024 — Present

   Architected a novel algorithm leveraging long-read single-cell sequencing to isolate variants across cells, delivering 30x higher detection sensitivity compared to short-read methods.* Pinpointed over 50 potential regions in undruggable targets by deploying advanced peptide tiling approaches* Elucidated differential intron retention in over 20 genes using nanopore transcriptomics, converting findings into actionable post-drug treatment therapeutic hypotheses.* Established a variant-based analysis pipeline to quantify tumor-to-normal cross-contamination, successfully validating tumor infiltration in over 50 paired samples.* Integrated Generative AI tools across internal and external documentation workflows, driving a 20% efficiency gain* Engineered a strategic Generative AI initiative to convert core pipeline components to C, delivering a 15% reduction in overall pipeline execution duration

Education

• Iowa State University

  Doctor of Philosophy - PhD, Bioinformatics & Computational Biology

• Bharatiya Vidya Bhavan's

  Class XII, Computer Science

  2006 — 2008

• Jadavpur University

  Master of Engineering (M.E.), Computer Science and Engineering

  2012 — 2014

• Institute of Engineering & Management, Kolkata

  Bachelor of Technology (BTech), Computer Science and Engineering

  2008 — 2012

• Bharatiya Vidya Bhavan's

  Class X, General Studies

  1994 — 2006

Skills

• Java
• Python
• C
• Latex
• Genetic Algorithms
• Statistics
• C++
• Databases
• Research
• Pattern Recognition
• Data Structures
• Formal Language and Automata Theory
• Soft Computing
• Algorithms
• Digital Image Processing
• Machine Learning
• Php
• Bioinformatics
• Operations Research
• Next Gen Sequencing
• Protein Secondary Structure Prediction
• Javascript
• Systems Biology
• Post Translational Modification
• Linux
• Microprocessors
• Artificial Intelligence
• Operating Systems
• Embedded Systems
• Teaching
• Numerical Analysis