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ORCIDBibTeX records: Ali Madani
@article{DBLP:journals/corr/abs-2401-06151,
author = {Alex Morehead and
Jeffrey Ruffolo and
Aadyot Bhatnagar and
Ali Madani},
title = {Towards Joint Sequence-Structure Generation of Nucleic Acid and Protein
Complexes with SE(3)-Discrete Diffusion},
journal = {CoRR},
volume = {abs/2401.06151},
year = {2024},
url = {https://doi.org/10.48550/arXiv.2401.06151},
doi = {10.48550/ARXIV.2401.06151},
eprinttype = {arXiv},
eprint = {2401.06151},
timestamp = {Fri, 26 Jan 2024 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2401-06151.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2206-13517,
author = {Erik Nijkamp and
Jeffrey Ruffolo and
Eli N. Weinstein and
Nikhil Naik and
Ali Madani},
title = {ProGen2: Exploring the Boundaries of Protein Language Models},
journal = {CoRR},
volume = {abs/2206.13517},
year = {2022},
url = {https://doi.org/10.48550/arXiv.2206.13517},
doi = {10.48550/ARXIV.2206.13517},
eprinttype = {arXiv},
eprint = {2206.13517},
timestamp = {Mon, 04 Jul 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2206-13517.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/npjdm/EstevaCYNMM0TDS21,
author = {Andre Esteva and
Katherine Chou and
Serena Yeung and
Nikhil Naik and
Ali Madani and
Ali Mottaghi and
Yun Liu and
Eric J. Topol and
Jeff Dean and
Richard Socher},
title = {Deep learning-enabled medical computer vision},
journal = {npj Digit. Medicine},
volume = {4},
year = {2021},
url = {https://doi.org/10.1038/s41746-020-00376-2},
doi = {10.1038/S41746-020-00376-2},
timestamp = {Wed, 01 Nov 2023 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/npjdm/EstevaCYNMM0TDS21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/iclr/VigMVXSR21,
author = {Jesse Vig and
Ali Madani and
Lav R. Varshney and
Caiming Xiong and
Richard Socher and
Nazneen Fatema Rajani},
title = {BERTology Meets Biology: Interpreting Attention in Protein Language
Models},
booktitle = {9th International Conference on Learning Representations, {ICLR} 2021,
Virtual Event, Austria, May 3-7, 2021},
publisher = {OpenReview.net},
year = {2021},
url = {https://openreview.net/forum?id=YWtLZvLmud7},
timestamp = {Wed, 23 Jun 2021 17:36:39 +0200},
biburl = {https://dblp.org/rec/conf/iclr/VigMVXSR21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/nips/ChanMKN21,
author = {Alvin Chan and
Ali Madani and
Ben Krause and
Nikhil Naik},
editor = {Marc'Aurelio Ranzato and
Alina Beygelzimer and
Yann N. Dauphin and
Percy Liang and
Jennifer Wortman Vaughan},
title = {Deep Extrapolation for Attribute-Enhanced Generation},
booktitle = {Advances in Neural Information Processing Systems 34: Annual Conference
on Neural Information Processing Systems 2021, NeurIPS 2021, December
6-14, 2021, virtual},
pages = {14084--14096},
year = {2021},
url = {https://proceedings.neurips.cc/paper/2021/hash/75da5036f659fe64b53f3d9b39412967-Abstract.html},
timestamp = {Tue, 03 May 2022 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/nips/ChanMKN21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/nips/DallagoMJWBGMY21,
author = {Christian Dallago and
Jody Mou and
Kadina E. Johnston and
Bruce J. Wittmann and
Nicholas Bhattacharya and
Samuel Goldman and
Ali Madani and
Kevin K. Yang},
editor = {Joaquin Vanschoren and
Sai{-}Kit Yeung},
title = {{FLIP:} Benchmark tasks in fitness landscape inference for proteins},
booktitle = {Proceedings of the Neural Information Processing Systems Track on
Datasets and Benchmarks 1, NeurIPS Datasets and Benchmarks 2021, December
2021, virtual},
year = {2021},
url = {https://datasets-benchmarks-proceedings.neurips.cc/paper/2021/hash/2b44928ae11fb9384c4cf38708677c48-Abstract-round2.html},
timestamp = {Fri, 06 Oct 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/conf/nips/DallagoMJWBGMY21.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2107-02968,
author = {Alvin Chan and
Ali Madani and
Ben Krause and
Nikhil Naik},
title = {Deep Extrapolation for Attribute-Enhanced Generation},
journal = {CoRR},
volume = {abs/2107.02968},
year = {2021},
url = {https://arxiv.org/abs/2107.02968},
eprinttype = {arXiv},
eprint = {2107.02968},
timestamp = {Tue, 20 Jul 2021 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2107-02968.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2004-03497,
author = {Ali Madani and
Bryan McCann and
Nikhil Naik and
Nitish Shirish Keskar and
Namrata Anand and
Raphael R. Eguchi and
Po{-}Ssu Huang and
Richard Socher},
title = {ProGen: Language Modeling for Protein Generation},
journal = {CoRR},
volume = {abs/2004.03497},
year = {2020},
url = {https://arxiv.org/abs/2004.03497},
eprinttype = {arXiv},
eprint = {2004.03497},
timestamp = {Wed, 08 Apr 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2004-03497.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2006-15222,
author = {Jesse Vig and
Ali Madani and
Lav R. Varshney and
Caiming Xiong and
Richard Socher and
Nazneen Fatema Rajani},
title = {BERTology Meets Biology: Interpreting Attention in Protein Language
Models},
journal = {CoRR},
volume = {abs/2006.15222},
year = {2020},
url = {https://arxiv.org/abs/2006.15222},
eprinttype = {arXiv},
eprint = {2006.15222},
timestamp = {Wed, 01 Jul 2020 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-2006-15222.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-2012-00195,
author = {Pascal Sturmfels and
Jesse Vig and
Ali Madani and
Nazneen Fatema Rajani},
title = {Profile Prediction: An Alignment-Based Pre-Training Task for Protein
Sequence Models},
journal = {CoRR},
volume = {abs/2012.00195},
year = {2020},
url = {https://arxiv.org/abs/2012.00195},
eprinttype = {arXiv},
eprint = {2012.00195},
timestamp = {Fri, 04 Dec 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/corr/abs-2012-00195.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1910-09738,
author = {Ali Madani and
Cyna Shirazinejad and
Jia Rui Ong and
Hengameh Shams and
Mohammad R. K. Mofrad},
title = {ProDyn0: Inferring calponin homology domain stretching behavior using
graph neural networks},
journal = {CoRR},
volume = {abs/1910.09738},
year = {2019},
url = {http://arxiv.org/abs/1910.09738},
eprinttype = {arXiv},
eprint = {1910.09738},
timestamp = {Fri, 14 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1910-09738.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/npjdm/MadaniAMA18,
author = {Ali Madani and
Ramy Arnaout and
Mohammad R. K. Mofrad and
Rima Arnaout},
title = {Fast and accurate view classification of echocardiograms using deep
learning},
journal = {npj Digit. Medicine},
volume = {1},
year = {2018},
url = {https://doi.org/10.1038/s41746-017-0013-1},
doi = {10.1038/S41746-017-0013-1},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/npjdm/MadaniAMA18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/npjdm/MadaniOTM18,
author = {Ali Madani and
Jia Rui Ong and
Anshul Tibrewal and
Mohammad R. K. Mofrad},
title = {Deep echocardiography: data-efficient supervised and semi-supervised
deep learning towards automated diagnosis of cardiac disease},
journal = {npj Digit. Medicine},
volume = {1},
year = {2018},
url = {https://doi.org/10.1038/s41746-018-0065-x},
doi = {10.1038/S41746-018-0065-X},
timestamp = {Mon, 28 Aug 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/npjdm/MadaniOTM18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/isbi/MadaniMKS18,
author = {Ali Madani and
Mehdi Moradi and
Alexandros Karargyris and
Tanveer F. Syeda{-}Mahmood},
title = {Semi-supervised learning with generative adversarial networks for
chest X-ray classification with ability of data domain adaptation},
booktitle = {15th {IEEE} International Symposium on Biomedical Imaging, {ISBI}
2018, Washington, DC, USA, April 4-7, 2018},
pages = {1038--1042},
publisher = {{IEEE}},
year = {2018},
url = {https://doi.org/10.1109/ISBI.2018.8363749},
doi = {10.1109/ISBI.2018.8363749},
timestamp = {Wed, 04 Oct 2023 17:01:25 +0200},
biburl = {https://dblp.org/rec/conf/isbi/MadaniMKS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/miccai/MoradiMGGS18,
author = {Mehdi Moradi and
Ali Madani and
Yaniv Gur and
Yufan Guo and
Tanveer F. Syeda{-}Mahmood},
editor = {Alejandro F. Frangi and
Julia A. Schnabel and
Christos Davatzikos and
Carlos Alberola{-}L{\'{o}}pez and
Gabor Fichtinger},
title = {Bimodal Network Architectures for Automatic Generation of Image Annotation
from Text},
booktitle = {Medical Image Computing and Computer Assisted Intervention - {MICCAI}
2018 - 21st International Conference, Granada, Spain, September 16-20,
2018, Proceedings, Part {I}},
series = {Lecture Notes in Computer Science},
volume = {11070},
pages = {449--456},
publisher = {Springer},
year = {2018},
url = {https://doi.org/10.1007/978-3-030-00928-1\_51},
doi = {10.1007/978-3-030-00928-1\_51},
timestamp = {Tue, 14 May 2019 10:00:49 +0200},
biburl = {https://dblp.org/rec/conf/miccai/MoradiMGGS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@inproceedings{DBLP:conf/miip/MadaniMKS18,
author = {Ali Madani and
Mehdi Moradi and
Alexandros Karargyris and
Tanveer F. Syeda{-}Mahmood},
editor = {Elsa D. Angelini and
Bennett A. Landman},
title = {Chest x-ray generation and data augmentation for cardiovascular abnormality
classification},
booktitle = {Medical Imaging 2018: Image Processing, Houston, Texas, United States,
10-15 February 2018},
series = {{SPIE} Proceedings},
volume = {10574},
pages = {105741M},
publisher = {{SPIE}},
year = {2018},
url = {https://doi.org/10.1117/12.2293971},
doi = {10.1117/12.2293971},
timestamp = {Tue, 06 Mar 2018 10:23:57 +0100},
biburl = {https://dblp.org/rec/conf/miip/MadaniMKS18.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/abs-1809-01610,
author = {Mehdi Moradi and
Ali Madani and
Yaniv Gur and
Yufan Guo and
Tanveer F. Syeda{-}Mahmood},
title = {Bimodal network architectures for automatic generation of image annotation
from text},
journal = {CoRR},
volume = {abs/1809.01610},
year = {2018},
url = {http://arxiv.org/abs/1809.01610},
eprinttype = {arXiv},
eprint = {1809.01610},
timestamp = {Fri, 05 Oct 2018 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/abs-1809-01610.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/corr/MadaniAMA17,
author = {Ali Madani and
Ramy Arnaout and
Mohammad R. K. Mofrad and
Rima Arnaout},
title = {Fast and accurate classification of echocardiograms using deep learning},
journal = {CoRR},
volume = {abs/1706.08658},
year = {2017},
url = {http://arxiv.org/abs/1706.08658},
eprinttype = {arXiv},
eprint = {1706.08658},
timestamp = {Fri, 14 Apr 2023 01:00:00 +0200},
biburl = {https://dblp.org/rec/journals/corr/MadaniAMA17.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
@article{DBLP:journals/cea/GolmohammadiRPM16,
author = {Golmar Golmohammadi and
Ramesh P. Rudra and
Shiv O. Prasher and
Ali Madani and
Pradeep K. Goel and
Kourosh Mohammadi},
title = {Modeling the impacts of tillage practices on water table depth, drain
outflow and nitrogen losses using {DRAINMOD}},
journal = {Comput. Electron. Agric.},
volume = {124},
pages = {73--83},
year = {2016},
url = {https://doi.org/10.1016/j.compag.2016.03.031},
doi = {10.1016/J.COMPAG.2016.03.031},
timestamp = {Sat, 22 Feb 2020 00:00:00 +0100},
biburl = {https://dblp.org/rec/journals/cea/GolmohammadiRPM16.bib},
bibsource = {dblp computer science bibliography, https://dblp.org}
}
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