Saish Jaiswal

PhD Student · Department of Computer Science and Engineering, IIT Madras

I am a PhD student in the Department of Computer Science and Engineering at the Indian Institute of Technology, Madras, advised by Prof. Manikandan Narayanan in the Bioinformatics and Integrative Data Science (BIRDS) Lab. I am a former Prime Minister’s Research Fellow (PMRF).

My research focuses on developing machine learning and signal processing frameworks for genomic sequence analysis, with applications in species classification and antimicrobial resistance (AMR) prediction — particularly in Mycobacterium tuberculosis. I design scalable, data-driven models that learn directly from raw genomic sequences, capturing both local and global patterns without heavy reliance on prior biological assumptions.

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Research

Advances in whole-genome sequencing have enabled unprecedented access to biological data across diverse organisms, from microbes to complex pathogens. Extracting meaningful insights from such high-dimensional, structured genomic data remains a significant computational challenge. I develop machine learning models that bridge statistical modeling and modern representation learning to build robust, interpretable, and generalizable approaches that contribute to both computational biology and real-world healthcare challenges.

Research Interests

Machine Learning for Genomics
Genomic Sequence Analysis
Antimicrobial Resistance (AMR) Prediction
Taxonomic Classification
Signal Processing & Spectral Methods
Bioinformatics
Automatic Speech Recognition

Publications

* denotes equal contribution

Preprint

TB-Bench: A Systematic Benchmark of Machine Learning and Deep Learning Methods for Second-Line TB Drug Resistance Prediction

Brintha VP, Saish Jaiswal, Ansh Meshram, Deepti PVS, Sidharthan S C, and Manikandan Narayanan

bioRxiv, April 13, 2026

[bioRxiv]

Journal

SpecGMM: Integrating Spectral Analysis and Gaussian Mixture Models for taxonomic classification and identification of discriminative DNA regions

Saish Jaiswal, Hema A. Murthy, and Manikandan Narayanan

Bioinformatics Advances, Volume 4, Issue 1 (vbae171), 2024

[Paper]

Journal

Understanding the role of mobility in the recorded levels of violent crimes during COVID-19 pandemic: a case study of Tamil Nadu, India

Kandaswamy Paramasivan, Saish Jaiswal, Rahul Subburaj, and Nandan Sudarsanam

Crime Science, 13, 21, 2024

[Paper]

Journal

Empirical evidence of the impact of mobility on property crimes during the first two waves of the COVID-19 pandemic

Kandaswamy Paramasivan, Rahul Subburaj, Saish Jaiswal, and Nandan Sudarsanam

Nature Humanities and Social Sciences Communications, 9, 373, 2022

[Paper]

Conference

Dual Script E2E Framework for Multilingual and Code-Switching ASR

Mari Ganesh Kumar, Jom Kuriakose, Anand Thyagachandran, Arun Kumar*, Ashish Seth*, Lodagala VSV Durga Prasad*, Saish Jaiswal*, Anusha Prakash, and Hema A. Murthy

Interspeech 2021, 2021

[Paper]

Projects

Research projects, course projects, and open-source contributions.

MIC Prediction using Genomic Data of M. tuberculosis

Nov 2025 – Present

Developing machine learning models to predict minimum inhibitory concentrations (MICs) from whole-genome sequencing data, enabling fine-grained antimicrobial resistance profiling for Mycobacterium tuberculosis.

Machine Learning Genomics AMR WGS

Benchmarking AMR Prediction for Second-line Drugs in M. tuberculosis

May 2025 – Present

Establishing a comprehensive benchmark of machine and deep learning models for predicting resistance to second-line anti-TB drugs using whole-genome sequencing data.

Deep Learning Bioinformatics TB Research Benchmarking

Genomic Signal Processing for Species Classification

Aug 2020 – Dec 2024

Developed SpecGMM, a framework integrating spectral analysis and Gaussian Mixture Models for DNA-based taxonomic classification and identification of discriminative DNA regions. Published in Bioinformatics Advances.

Signal Processing GMM Taxonomic Classification DNA

Experience

Ph.D., Computer Science & Engineering

2020 – Present

Indian Institute of Technology, Madras · Chennai, India

Advisor: Prof. Manikandan Narayanan — BIRDS Lab
Thesis area: Machine Learning Approaches for Genomic Sequence Analysis
Former Prime Minister’s Research Fellow (PMRF)

B.Tech., Computer Science & Engineering

2016 – 2020

Visvesvaraya National Institute of Technology (VNIT), Nagpur

Awards & Achievements

Prime Minister’s Research Fellowship (PMRF) at IIT Madras
Star Teaching Assistant Award — CSE Dept., IIT Madras (received multiple times for outstanding TA contributions)
School Topper Award for scoring highest percentage in Class X
Rajya Puraskar (State Award), Maharashtra State, Bharat Scouts and Guides
Sanskrit Prathama and Dvitiya Diksha (Diploma in Sanskrit), Rashtriya Samskrit Sansthan
Japanese Language Proficiency Test (JLPT) — N4 and N5, Japan Foundation

Teaching Assistant

2020 – 2025

Department of Computer Science & Engineering, IIT Madras

Algorithmic Approaches to Computational Biology (CS6024) — Jan–May 2025 ★ Star TA
Programming and Data Structures (CS2700) — Jul–Nov 2024 ★ Star TA
Introduction to Programming (CS1100) — Jan–May 2024 ★ Star TA
Pattern Recognition and Machine Learning (CS5691) — Jul–Nov 2023 ★ Star TA
Pattern Recognition and Machine Learning (CS5691) — Jan–May 2022 ★ Star TA
Speech Technology (CS6300) — Jan–May 2021; Jan–May 2023
Advanced Programming Lab (CS6150) — Jul–Nov 2021; Jul–Nov 2022
Programming and Data Structures (CS2700) & Lab (CS2710) — Jul–Nov 2020
NPTEL: Data Analytics With Python, The Joy of Computing Using Python — 2023–2025

Contact

I am always happy to discuss research ideas, collaborations, or just chat. Feel free to reach out!

jaiswalsaish@gmail.com