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Maulik Shukla
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2020 – today
- 2023
- [j17]Maxim Zvyagin, Alexander Brace, Kyle Hippe, Yuntian Deng, Bin Zhang, Cindy Orozco Bohorquez, Austin Clyde, Bharat Kale, Danilo Perez-Rivera, Heng Ma, Carla M. Mann
, Michael W. Irvin, Defne G. Ozgulbas
GenSLMs: Genome-scale language models reveal SARS-CoV-2 evolutionary dynamics. Int. J. High Perform. Comput. Appl. 37(6): 683-705 (2023) - [j16]Robert D. Olson, Rida Assaf, Thomas S. Brettin, Neal Conrad, Clark Cucinell, James J. Davis
Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR. Nucleic Acids Res. 51(D1): 678-689 (2023) - [c4]Oleksandr Narykov
Entropy-Based Regularization on Deep Learning Models for Anti-Cancer Drug Response Prediction. SC Workshops 2023: 121-122 - [i3]Shuaiwen Leon Song, Bonnie Kruft, Minjia Zhang, Conglong Li, Shiyang Chen, Chengming Zhang, Masahiro Tanaka, Xiaoxia Wu, Jeff Rasley, Ammar Ahmad Awan, Connor Holmes, Martin Cai, Adam Ghanem, Zhongzhu Zhou, Yuxiong He, Pete Luferenko, Divya Kumar, Jonathan A. Weyn, Ruixiong Zhang, Sylwester Klocek, Volodymyr Vragov, Mohammed AlQuraishi, Gustaf Ahdritz, Christina Floristean, Cristina Negri, Rao Kotamarthi, Venkatram Vishwanath, Arvind Ramanathan, Sam Foreman, Kyle Hippe, Troy Arcomano, Romit Maulik, Maxim Zvyagin, Alexander Brace, Bin Zhang, Cindy Orozco Bohorquez, Austin Clyde, Bharat Kale, Danilo Perez-Rivera, Heng Ma, Carla M. Mann
DeepSpeed4Science Initiative: Enabling Large-Scale Scientific Discovery through Sophisticated AI System Technologies. CoRR abs/2310.04610 (2023) - 2022
- [j15]Fangfang Xia, Jonathan E. Allen
A cross-study analysis of drug response prediction in cancer cell lines. Briefings Bioinform. 23(1) (2022) - [j14]Zachary S. Wallace
Early detection of emerging SARS-CoV-2 variants of interest for experimental evaluation. Frontiers Bioinform. 2 (2022) - 2021
- [j13]Margo VanOeffelen, Marcus Nguyen, Derya Aytan-Aktug
A genomic data resource for predicting antimicrobial resistance from laboratory-derived antimicrobial susceptibility phenotypes. Briefings Bioinform. 22(6) (2021) - [j12]Alexander Partin
Learning curves for drug response prediction in cancer cell lines. BMC Bioinform. 22(1): 252 (2021) - 2020
- [j11]James J. Davis, Alice R. Wattam, Ramy K. Aziz, Thomas S. Brettin, Ralph Butler, Rory Butler
The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities. Nucleic Acids Res. 48(Database-Issue): D606-D612 (2020) - [j10]Marcus Nguyen
Predicting antimicrobial resistance using conserved genes. PLoS Comput. Biol. 16(10) (2020) - [i2]Yitan Zhu, Thomas S. Brettin, Yvonne A. Evrard, Alexander Partin, Fangfang Xia, Maulik Shukla, Hyun Seung Yoo, James H. Doroshow, Rick Stevens:
Ensemble Transfer Learning for the Prediction of Anti-Cancer Drug Response. CoRR abs/2005.09572 (2020) - [i1]Alexander Partin, Thomas S. Brettin, Yvonne A. Evrard, Yitan Zhu, Hyun Seung Yoo, Fangfang Xia, Songhao Jiang, Austin Clyde, Maulik Shukla, Michael Fonstein, James H. Doroshow, Rick Stevens:
Learning Curves for Drug Response Prediction in Cancer Cell Lines. CoRR abs/2011.12466 (2020)
2010 – 2019
- 2019
- [j9]Dionysios A. Antonopoulos, Rida Assaf, Ramy Karam Aziz, Thomas S. Brettin, Christopher Bun, Neal Conrad, James J. Davis, Emily M. Dietrich, Terry Disz, Svetlana Gerdes, Ronald W. Kenyon, Dustin Machi, Chunhong Mao, Daniel E. Murphy-Olson, Eric K. Nordberg, Gary J. Olsen, Robert Olson, Ross A. Overbeek, Bruce D. Parrello, Gordon D. Pusch, John Santerre, Maulik Shukla
PATRIC as a unique resource for studying antimicrobial resistance. Briefings Bioinform. 20(4): 1094-1102 (2019) - 2018
- [j8]Fangfang Xia, Maulik Shukla
Predicting tumor cell line response to drug pairs with deep learning. BMC Bioinform. 19-S(18): 71-79 (2018) - 2017
- [j7]Alice R. Wattam, James J. Davis, Rida Assaf, Sébastien Boisvert, Thomas S. Brettin, Christopher Bun, Neal Conrad, Emily M. Dietrich, Terry Disz, Joseph L. Gabbard
Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center. Nucleic Acids Res. 45(Database-Issue): D535-D542 (2017) - 2015
- [j6]Chunhong Mao, David Abraham, Alice R. Wattam, Meredith J. C. Wilson, Maulik Shukla
Curation, integration and visualization of bacterial virulence factors in PATRIC. Bioinform. 31(2): 252-258 (2015) - [j5]Andrew S. Warren
RNA-Rocket: an RNA-Seq analysis resource for infectious disease research. Bioinform. 31(9): 1496-1498 (2015) - 2014
- [j4]Ross A. Overbeek, Robert Olson, Gordon D. Pusch, Gary J. Olsen, James J. Davis, Terry Disz, Robert A. Edwards
The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST). Nucleic Acids Res. 42(Database-Issue): 206-214 (2014) - [j3]Alice R. Wattam, David Abraham, Oral Dalay, Terry Disz, Timothy Driscoll
PATRIC, the bacterial bioinformatics database and analysis resource. Nucleic Acids Res. 42(Database-Issue): 581-591 (2014) - 2011
- [j2]Timothy Driscoll
Integration and visualization of host-pathogen data related to infectious diseases. Bioinform. 27(16): 2279-2287 (2011) - [c3]Bruno W. S. Sobral
Informatics-Driven Infectious Disease Research. BIOSTEC (Selected Papers) 2011: 3-11
2000 – 2009
- 2007
- [j1]E. E. Snyder, N. Kampanya, J. Lu, Eric K. Nordberg, H. R. Karur, Maulik Shukla, Jeetendra Soneja, Y. Tian, Tian Xue, Hyun Seung Yoo, Fengkai Zhang
PATRIC: The VBI PathoSystems Resource Integration Center. Nucleic Acids Res. 35(Database-Issue): 401-406 (2007) - 2003
- [c2]Allan A. Sioson, Jonathan I. Watkinson, Cecilia Vasquez-Robinet
Expresso and Chips: Creating a Next Generation Microarray Experiment Management System. IPDPS 2003: 209 - 2002
- [c1]Jacob P. Somervell, D. Scott McCrickard, Chris North, Maulik Shukla:
An Evaluation of Information Visualization in Attention-Limited Environments. VisSym 2002: 211-216
Coauthor Index
aka: Rick Stevens
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