Anthony Gitter

Publication Activity (10 Years)

Years Active: 2016-2024
Publications (10 Years): 44

Top Topics

Convolutional Neural Network

Respiratory Syndrome Coronavirus

Top Venues

bioRxiv : the preprint server for biology

PLoS computational biology

This page only lists publications with an associated author ORCID identifier.

Publications

Sam Gelman, Bryce Johnson, Chase R Freschlin, Sameer D'Costa, Anthony Gitter, Philip A Romero
Biophysics-based protein language models for protein engineering. bioRxiv : the preprint server for biology (2024)
Marinka Zitnik, Michelle M Li, Aydin Wells, Kimberly Glass, Deisy Morselli Gysi, Arjun Krishnan, T M Murali, Predrag Radivojac, Sushmita Roy, Anaïs Baudot, Serdar Bozdag, Danny Z Chen, Lenore J Cowen, Kapil Devkota, Anthony Gitter, Sara J C Gosline, Pengfei Gu, Pietro Hiram Guzzi, Heng Huang, Meng Jiang, Ziynet Nesibe Kesimoglu, Mehmet Koyuturk, Jian Ma, Alexander R Pico, Nataša Pržulj, Teresa M Przytycka, Benjamin J Raphael, Tunç Başar Köse, Roded Sharan, Yang Shen, Mona Singh, Donna K Slonim, Hanghang Tong, Xinan Holly Yang, Byung-Jun Yoon, Haiyuan Yu, Tijana Milenković
Current and future directions in network biology. Bioinformatics advances 4 (1) (2024)
Sam Gelman, Bryce Johnson, Chase R Freschlin, Sameer D'Costa, Anthony Gitter, Philip A Romero
Biophysics-based protein language models for protein engineering. bioRxiv : the preprint server for biology (2024)
Sam Gelman, Bryce Johnson, Chase R Freschlin, Sameer D'Costa, Anthony Gitter, Philip A Romero
Biophysics-based protein language models for protein engineering. bioRxiv : the preprint server for biology (2024)
Peng Liu, David Page, Paul G Ahlquist, Irene M Ong, Anthony Gitter
MPAC: a computational framework for inferring cancer pathway activities from multi-omic data. bioRxiv : the preprint server for biology (2024)
Peng Liu, David Page, Paul G Ahlquist, Irene M Ong, Anthony Gitter
MPAC: a computational framework for inferring cancer pathway activities from multi-omic data. bioRxiv : the preprint server for biology (2024)
Marinka Zitnik, Michelle M Li, Aydin Wells, Kimberly Glass, Deisy Morselli Gysi, Arjun Krishnan, T M Murali, Predrag Radivojac, Sushmita Roy, Anaïs Baudot, Serdar Bozdag, Danny Z Chen, Lenore J Cowen, Kapil Devkota, Anthony Gitter, Sara J C Gosline, Pengfei Gu, Pietro Hiram Guzzi, Heng Huang, Meng Jiang, Ziynet Nesibe Kesimoglu, Mehmet Koyuturk, Jian Ma, Alexander R Pico, Nataša Pržulj, Teresa M Przytycka, Benjamin J Raphael, Tunç Başar Köse, Roded Sharan, Yang Shen, Mona Singh, Donna K Slonim, Hanghang Tong, Xinan Holly Yang, Byung-Jun Yoon, Haiyuan Yu, Tijana Milenković
Current and future directions in network biology. Bioinformatics advances 4 (1) (2024)
Peng Liu, David Page, Paul G Ahlquist, Irene M Ong, Anthony Gitter
MPAC: a computational framework for inferring cancer pathway activities from multi-omic data. bioRxiv : the preprint server for biology (2024)
Cody Martin, Anthony Gitter, Karthik Anantharaman
Protein Set Transformer: A protein-based genome language model to power high diversity viromics. bioRxiv : the preprint server for biology (2024)
Cody Martin, Anthony Gitter, Karthik Anantharaman
Protein Set Transformer: A protein-based genome language model to power high diversity viromics. bioRxiv : the preprint server for biology (2024)
Peng Liu, David Page, Paul G Ahlquist, Irene M Ong, Anthony Gitter
MPAC: a computational framework for inferring cancer pathway activities from multi-omic data. bioRxiv : the preprint server for biology (2024)
Halie M Rando, Ronan Lordan, Alexandra J Lee, Amruta Naik, Nils Wellhausen, Elizabeth Sell, Likhitha Kolla, null null, Anthony Gitter, Casey S Greene
Application of Traditional Vaccine Development Strategies to SARS-CoV-2. mSystems (2023)
Halie M Rando, Ronan Lordan, Likhitha Kolla, Elizabeth Sell, Alexandra J Lee, Nils Wellhausen, Amruta Naik, Jeremy P Kamil, null null, Anthony Gitter, Casey S Greene
The Coming of Age of Nucleic Acid Vaccines during COVID-19. mSystems (2023)
Halie M Rando, Ronan Lordan, Likhitha Kolla, Elizabeth Sell, Alexandra J Lee, Nils Wellhausen, Amruta Naik, Jeremy P Kamil, null null, Anthony Gitter, Casey S Greene
The Coming of Age of Nucleic Acid Vaccines during COVID-19. mSystems (2023)
Halie M Rando, Ronan Lordan, Alexandra J Lee, Amruta Naik, Nils Wellhausen, Elizabeth Sell, Likhitha Kolla, null null, Anthony Gitter, Casey S Greene
Application of Traditional Vaccine Development Strategies to SARS-CoV-2. mSystems (2023)
Halie M Rando, Ronan Lordan, Alexandra J Lee, Amruta Naik, Nils Wellhausen, Elizabeth Sell, Likhitha Kolla, null null, Anthony Gitter, Casey S Greene
Application of Traditional Vaccine Development Strategies to SARS-CoV-2. mSystems (2023)
Moayad Alnammi, Shengchao Liu, Spencer S Ericksen, Gene E Ananiev, Andrew F Voter, Song Guo, James L Keck, F Michael Hoffmann, Scott A Wildman, Anthony Gitter
Evaluating Scalable Supervised Learning for Synthesize-on-Demand Chemical Libraries. Journal of chemical information and modeling (2023)
Halie M Rando, Ronan Lordan, Alexandra J Lee, Amruta Naik, Nils Wellhausen, Elizabeth Sell, Likhitha Kolla, null null, Anthony Gitter, Casey S Greene
Application of Traditional Vaccine Development Strategies to SARS-CoV-2. mSystems (2023)
Halie M Rando, Adam L MacLean, Alexandra J Lee, Ronan Lordan, Sandipan Ray, Vikas Bansal, Ashwin N Skelly, Elizabeth A Sell, John J Dziak, Lamonica Shinholster, Lucy D'Agostino McGowan, Marouen Ben Guebila, Nils Wellhausen, Sergey Knyazev, Simina M Boca, Stephen Capone, Yanjun Qi, YoSon Park, David Mai, Yuchen Sun, Joel D Boerckel, Christian Brueffer, James Brian Byrd, Jeremy P Kamil, Jinhui Wang, Ryan Velazquez, Gregory Lee Szeto, John P Barton, Rishi Raj Goel, Serghei Mangul, Tiago Lubiana Alves, null null, Anthony Gitter, Casey S Greene
Correction for Rando et al., "Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis of Viral Genomics and Structure". mSystems 7 (1) (2022)
Peng Yu, Spencer S Ericksen, Anthony Gitter, Michael A Newton
Bayes optimal informer sets for early-stage drug discovery. Biometrics (2022)
Steven F Baker, Helene Meistermann, Manuel Tzouros, Aaron Baker, Sabrina Golling, Juliane Siebourg Polster, Mitchell P Ledwith, Anthony Gitter, Angelique Augustin, Hassan Javanbakht, Andrew Mehle
Alternative splicing liberates a cryptic cytoplasmic isoform of mitochondrial MECR that antagonizes influenza virus. PLoS biology 20 (12) (2022)
Steven F Baker, Helene Meistermann, Manuel Tzouros, Aaron Baker, Sabrina Golling, Juliane Siebourg Polster, Mitchell P Ledwith, Anthony Gitter, Angelique Augustin, Hassan Javanbakht, Andrew Mehle
Alternative splicing liberates a cryptic cytoplasmic isoform of mitochondrial MECR that antagonizes influenza virus. PLoS biology 20 (12) (2022)
Steven F Baker, Helene Meistermann, Manuel Tzouros, Aaron Baker, Sabrina Golling, Juliane Siebourg Polster, Mitchell P Ledwith, Anthony Gitter, Angelique Augustin, Hassan Javanbakht, Andrew Mehle
Alternative splicing liberates a cryptic cytoplasmic isoform of mitochondrial MECR that antagonizes influenza virus. PLoS biology 20 (12) (2022)
Steven F Baker, Helene Meistermann, Manuel Tzouros, Aaron Baker, Sabrina Golling, Juliane Siebourg Polster, Mitchell P Ledwith, Anthony Gitter, Angelique Augustin, Hassan Javanbakht, Andrew Mehle
Alternative splicing liberates a cryptic cytoplasmic isoform of mitochondrial MECR that antagonizes influenza virus. PLoS biology 20 (12) (2022)
Benjamin D Lee, Anthony Gitter, Casey S Greene, Sebastian Raschka, Finlay Maguire, Alexander J Titus, Michael D Kessler, Alexandra J Lee, Marc G Chevrette, Paul Allen Stewart, Thiago Britto-Borges, Evan M Cofer, Kun-Hsing Yu, Juan Jose Carmona, Elana J Fertig, Alexandr A Kalinin, Brandon Signal, Benjamin J Lengerich, Timothy J Triche, Simina M Boca
Ten quick tips for deep learning in biology. PLoS computational biology 18 (3) (2022)
Steven F Baker, Helene Meistermann, Manuel Tzouros, Aaron Baker, Sabrina Golling, Juliane Siebourg Polster, Mitchell P Ledwith, Anthony Gitter, Angelique Augustin, Hassan Javanbakht, Andrew Mehle
Alternative splicing liberates a cryptic cytoplasmic isoform of mitochondrial MECR that antagonizes influenza virus. PLoS biology 20 (12) (2022)
Sam Gelman, Sarah A Fahlberg, Pete Heinzelman, Philip A Romero, Anthony Gitter
Neural networks to learn protein sequence-function relationships from deep mutational scanning data. Proceedings of the National Academy of Sciences of the United States of America 118 (48) (2022)
Steven F Baker, Helene Meistermann, Manuel Tzouros, Aaron Baker, Sabrina Golling, Juliane Siebourg Polster, Mitchell P Ledwith, Anthony Gitter, Angelique Augustin, Hassan Javanbakht, Andrew Mehle
Alternative splicing liberates a cryptic cytoplasmic isoform of mitochondrial MECR that antagonizes influenza virus. PLoS biology 20 (12) (2022)
Steven F Baker, Helene Meistermann, Manuel Tzouros, Aaron Baker, Sabrina Golling, Juliane Siebourg Polster, Mitchell P Ledwith, Anthony Gitter, Angelique Augustin, Hassan Javanbakht, Andrew Mehle
Alternative splicing liberates a cryptic cytoplasmic isoform of mitochondrial MECR that antagonizes influenza virus. PLoS biology 20 (12) (2022)
Steven F Baker, Helene Meistermann, Manuel Tzouros, Aaron Baker, Sabrina Golling, Juliane Siebourg Polster, Mitchell P Ledwith, Anthony Gitter, Angelique Augustin, Hassan Javanbakht, Andrew Mehle
Alternative splicing liberates a cryptic cytoplasmic isoform of mitochondrial MECR that antagonizes influenza virus. PLoS biology 20 (12) (2022)
Halie M Rando, Nils Wellhausen, Soumita Ghosh, Alexandra J Lee, Anna Ada Dattoli, Fengling Hu, James Brian Byrd, Diane N Rafizadeh, Ronan Lordan, Yanjun Qi, Yuchen Sun, Christian Brueffer, Jeffrey M Field, Marouen Ben Guebila, Nafisa M Jadavji, Ashwin N Skelly, Bharath Ramsundar, Jinhui Wang, Rishi Raj Goel, YoSon Park, null null, Simina M Boca, Anthony Gitter, Casey S Greene
Identification and Development of Therapeutics for COVID-19. mSystems (2021)
Halie M Rando, Nils Wellhausen, Soumita Ghosh, Alexandra J Lee, Anna Ada Dattoli, Fengling Hu, James Brian Byrd, Diane N Rafizadeh, Yanjun Qi, Yuchen Sun, Jeffrey M Field, Marouen Ben Guebila, Nafisa M Jadavji, Ronan Lordan, Ashwin N Skelly, Bharath Ramsundar, Christian Brueffer, Jinhui Wang, Rishi Raj Goel, YoSon Park, null null, Simina M Boca, Anthony Gitter, Casey S Greene
Identification and Development of Therapeutics for COVID-19. ArXiv (2021)
Chris S Magnano, Anthony Gitter
Automating parameter selection to avoid implausible biological pathway models. NPJ systems biology and applications 7 (1) (2021)
Halie M Rando, Adam L MacLean, Alexandra J Lee, Sandipan Ray, Vikas Bansal, Ashwin N Skelly, Elizabeth A Sell, John J Dziak, Lamonica Shinholster, Lucy D'Agostino McGowan, Marouen Ben Guebila, Nils Wellhausen, Sergey Knyazev, Simina M Boca, Stephen Capone, Yanjun Qi, YoSon Park, Yuchen Sun, David Mai, Christian Brueffer, James Brian Byrd, Jinhui Wang, Ronan Lordan, Ryan Velazquez, Gregory Lee Szeto, John P Barton, Rishi Raj Goel, Serghei Mangul, Tiago Lubiana Alves, null null, Anthony Gitter, Casey S Greene
Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through analysis of Viral Genomics and Structure. ArXiv (2021)
Thevaa Chandereng, Anthony Gitter
Lag penalized weighted correlation for time series clustering. BMC bioinformatics 21 (1) (2020)
Zijie J Wang, Alex J Walsh, Melissa C Skala, Anthony Gitter
Classifying T cell activity in autofluorescence intensity images with convolutional neural networks. Journal of biophotonics 13 (3) (2019)
Travers Ching, Daniel Scott Himmelstein, Brett K Beaulieu-Jones, Alexandr A Kalinin, Brian T Do, Gregory P Way, Enrico Ferrero, Paul-Michael Agapow, Michael Zietz, Michael M Hoffman, Wei Xie, Gail L Rosen, Benjamin J Lengerich, Johnny Israeli, Jack Lanchantin, Stephen Woloszynek, Anne E Carpenter, Avanti Shrikumar, Jinbo Xu, Evan M Cofer, Christopher A Lavender, Srinivas C Turaga, Amr M Alexandari, Zhiyong Lu, David J Harris, Dave DeCaprio, Yanjun Qi, Anshul Kundaje, Yifan Peng, Laura K Wiley, Marwin H S Segler, Simina M Boca, S Joshua Swamidass, Austin Huang, Anthony Gitter, Casey S Greene
Opportunities and obstacles for deep learning in biology and medicine. Journal of the Royal Society, Interface 15 (141) (2019)
Huikun Zhang, Spencer S Ericksen, Ching-Pei Lee, Gene E Ananiev, Nathan Wlodarchak, Peng Yu, Julie C Mitchell, Anthony Gitter, Stephen J Wright, F Michael Hoffmann, Scott A Wildman, Michael A Newton
Predicting kinase inhibitors using bioactivity matrix derived informer sets. PLoS computational biology 15 (8) (2019)
Daniel Scott Himmelstein, Vincent P Rubinetti, David R Slochower, Dongbo Hu, Venkat S Malladi, Casey S Greene, Anthony Gitter
Open collaborative writing with Manubot. PLoS computational biology 15 (6) (2019)
Jesse G Meyer, Shengchao Liu, Ian J Miller, Joshua J Coon, Anthony Gitter
Learning Drug Functions from Chemical Structures with Convolutional Neural Networks and Random Forests. Journal of chemical information and modeling 59 (10) (2019)
Matthew E MacGilvray, Evgenia Shishkova, Deborah A Chasman, Michael Place, Anthony Gitter, Joshua J Coon, Audrey P Gasch
Network inference reveals novel connections in pathways regulating growth and defense in the yeast salt response. PLoS computational biology 13 (5) (2018)
Shengchao Liu, Moayad Alnammi, Spencer S Ericksen, Andrew F Voter, Gene E Ananiev, James L Keck, F Michael Hoffmann, Scott A Wildman, Anthony Gitter
Practical Model Selection for Prospective Virtual Screening. Journal of chemical information and modeling 59 (1) (2018)
Zoi E Sychev, Alex Hu, Terri A DiMaio, Anthony Gitter, Nathan D Camp, William Stafford Noble, Alejandro Wolf-Yadlin, Michael Lagunoff
Integrated systems biology analysis of KSHV latent infection reveals viral induction and reliance on peroxisome mediated lipid metabolism. PLoS pathogens 13 (3) (2017)
Nurcan Tuncbag, Sara J C Gosline, Amanda J Kedaigle, Anthony R Soltis, Anthony Gitter, Ernest Fraenkel
Network-Based Interpretation of Diverse High-Throughput Datasets through the Omics Integrator Software Package. PLoS computational biology 12 (4) (2016)