Anshul Kundaje

Associate Professor, Genetics, Computer Science, Stanford University

Joined

July 2019

Names

Anshul Kundaje

Emails

****@stanford.edu (Confirmed)

Personal Links

Career & Education History

Associate Professor

Genetics, Computer Science, Stanford University (stanford.edu)

2024 – Present

Assistant Professor

Stanford University (stanford.edu)

2014 – 2024

Postdoc

Massachusetts Institute of Technology (mit.edu)

2012 – 2013

Postdoc

Stanford University (stanford.edu)

2008 – 2012

PhD student

Columbia University (columbia.edu)

2003 – 2008

MS student

Columbia University (columbia.edu)

2001 – 2002

Undergrad student

Veermata Jijabai Technological Institute (vjti.ac.in)

1997 – 2001

Advisors, Relations & Conflicts

Postdoc Advisor

Manolis Kellis

2012 – 2014

Postdoc Advisor

Serafim Batzoglou

2008 – 2012

PhD Advisor

Christina Leslie

2003 – 2008

Expertise

Computational Biology

Present

Deep learning

Present

Interpretability

Present

Computational Genomics

Present

Multi-task learning

Present

Meta-learning

Present

Publications

Targeted Optimization of Regulatory DNA sequences with Neural Editing Architectures
Anvita Gupta, Anshul Kundaje
- International Society for Molecular Biology (ISMB)
- Readers: Everyone
DART-Eval: A Comprehensive DNA Language Model Evaluation Benchmark on Regulatory DNA
Aman Patel, Arpita Singhal, Austin Wang, Anusri Pampari, Maya Kasowski, Anshul Kundaje
- NeurIPS 2024 Track Datasets and Benchmarks Poster
- Readers: Everyone
Tartarus: A Benchmarking Platform for Realistic And Practical Inverse Molecular Design
AkshatKumar Nigam, Robert Pollice, Gary Tom, Kjell Jorner, John Willes, Luca Thiede, Anshul Kundaje, Alan Aspuru-Guzik
- NeurIPS 2023 Datasets and Benchmarks Poster
- Readers: Everyone
Chromatin accessibility dynamics reveal novel functional enhancers in C. elegans
Aaron C. Daugherty, Robin W Yeo, Jason D. Buenrostro, Will J. Greenleaf, Anshul Kundaje, Anne Brunet
- 12 May 2023 (modified: 12 May 2023)
- OpenReview Archive Direct Upload
- Readers: Everyone
Fourier-transform-based attribution priors improve the interpretability and stability of deep learning models for genomics
Alex Tseng, Avanti Shrikumar, Anshul Kundaje
- 18 Sept 2021
- OpenReview Archive Direct Upload
- Readers: Everyone
WILDS: A Benchmark of in-the-Wild Distribution Shifts
Pang Wei Koh, Shiori Sagawa, Henrik Marklund, Sang Michael Xie, Marvin Zhang, Akshay Balsubramani, Weihua Hu, Michihiro Yasunaga, Richard Lanas Phillips, Sara Beery, Jure Leskovec, Anshul Kundaje, Emma Pierson, Sergey Levine, Chelsea Finn, Percy Liang
- 2020 (modified: 12 May 2023)
- CoRR 2020
- Readers: Everyone
Fourier-transform-based attribution priors improve the interpretability and stability of deep learning models for genomics
Alex Tseng, Avanti Shrikumar, Anshul Kundaje
- 2020 (modified: 04 Nov 2022)
- NeurIPS 2020
- Readers: Everyone
Maximum Likelihood with Bias-Corrected Calibration is Hard-To-Beat at Label Shift Adaptation
Amr Alexandari, Anshul Kundaje, Avanti Shrikumar
- 2020 (modified: 04 Nov 2022)
- ICML 2020
- Readers: Everyone
Calibration with Bias-Corrected Temperature Scaling Improves Domain Adaptation Under Label Shift in Modern Neural Networks
Avanti Shrikumar, Anshul Kundaje
- 2019 (modified: 04 Nov 2022)
- CoRR 2019
- Readers: Everyone
Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellular contexts
Surag Nair, Daniel S. Kim, Jacob Perricone, Anshul Kundaje
- 2019 (modified: 19 Feb 2025)
- Bioinform. 2019
- Readers: Everyone

View all 33 publications

Co-Authors

View all 284 co-authors