Avanti Shrikumar
Avanti Shrikumar
Verified email at stanford.edu
TitleCited byYear
Dynamic and coordinated epigenetic regulation of developmental transitions in the cardiac lineage
JA Wamstad, JM Alexander, RM Truty, A Shrikumar, F Li, KE Eilertson, ...
Cell 151 (1), 206-220, 2012
4362012
Opportunities and obstacles for deep learning in biology and medicine
T Ching, DS Himmelstein, BK Beaulieu-Jones, AA Kalinin, BT Do, ...
Journal of The Royal Society Interface 15 (141), 20170387, 2018
2572018
Learning important features through propagating activation differences
A Shrikumar, P Greenside, A Kundaje
Proceedings of the 34th International Conference on Machine Learning-Volume …, 2017
2542017
Not just a black box: Learning important features through propagating activation differences
A Shrikumar, P Greenside, A Shcherbina, A Kundaje
arXiv preprint arXiv:1605.01713, 2016
862016
Transcriptional reversion of cardiac myocyte fate during mammalian cardiac regeneration
CC O’Meara, JA Wamstad, RA Gladstone, GM Fomovsky, VL Butty, ...
Circulation research 116 (5), 804-815, 2015
782015
Reverse-complement parameter sharing improves deep learning models for genomics
A Shrikumar, P Greenside, A Kundaje
bioRxiv, 103663, 2017
162017
Kipoi: accelerating the community exchange and reuse of predictive models for genomics
Z Avsec, R Kreuzhuber, J Israeli, N Xu, J Cheng, A Shrikumar, A Banerjee, ...
BioRxiv, 375345, 2018
92018
Opportunities And Obstacles For Deep Learning In Biology And Medicine. bioRxiv (2017)
T Ching, DS Himmelstein, BK Beaulieu-Jones, AA Kalinin, BT Do, ...
Retrieved from, 2017
52017
The Kipoi repository accelerates community exchange and reuse of predictive models for genomics
Ž Avsec, R Kreuzhuber, J Israeli, N Xu, J Cheng, A Shrikumar, A Banerjee, ...
Nature biotechnology, 1, 2019
42019
Deciphering regulatory DNA sequences and noncoding genetic variants using neural network models of massively parallel reporter assays
R Movva, P Greenside, GK Marinov, S Nair, A Shrikumar, A Kundaje
PloS one 14 (6), e0218073, 2019
32019
TF-MoDISco v0. 4.4. 2-alpha
A Shrikumar, K Tian, A Shcherbina, Ž Avsec, A Banerjee, M Sharmin, ...
arXiv preprint arXiv:1811.00416, 2018
22018
Separable Fully Connected Layers Improve Deep Learning Models For Genomics
AM Alexandari, A Shrikumar, A Kundaje
BioRxiv, 146431, 2017
12017
A multi-modal neural network for learning cis and trans regulation of stress response in yeast
B Liu, N Hussami, A Shrikumar, T Shimko, S Bhate, S Longwell, ...
1
GkmExplain: fast and accurate interpretation of nonlinear gapped k-mer SVMs
A Shrikumar, E Prakash, A Kundaje
Bioinformatics 35 (14), i173-i182, 2019
2019
Calibration with Bias-Corrected Temperature Scaling Improves Domain Adaptation Under Label Shift in Modern Neural Networks
A Shrikumar, A Kundaje
arXiv preprint arXiv:1901.06852, 2019
2019
Computationally Efficient Measures of Internal Neuron Importance
A Shrikumar, J Su, A Kundaje
arXiv preprint arXiv:1807.09946, 2018
2018
Selective Classification via Curve Optimization
A Alexandari, A Shrikumar, A Kundaje
arXiv preprint arXiv:1802.07024, 2018
2018
Gkmexplain: Fast and Accurate Interpretation of Nonlinear Gapped k-mer Support Vector Machines Using Integrated Gradients
A Shrikumar, E Prakash, A Kundaje
BioRxiv, 457606, 2018
2018
Learning to Abstain via Curve Optimization.
A Alexandari, A Shrikumar, A Kundaje
CoRR, 2018
2018
Systems and Methods for Holistic Extraction of Features from Neural Networks
A Shrikumar, PG Greenside, A Kundaje
US Patent App. 15/444,258, 2017
2017
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Articles 1–20