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@inproceedings{DBLP:conf/mlcb/AlzaidDM23,
  author       = {Ethar Alzaid and
                  Muhammad Dawood and
                  Fayyaz Minhas},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {A Transductive Approach to Survival Ranking for Cancer Risk Stratification},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {101--109},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/alzaid24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/AlzaidDM23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/BajwaRKSI23,
  author       = {Ayesha Bajwa and
                  Ruchir Rastogi and
                  Pooja Kathail and
                  Richard W. Shuai and
                  Nilah Ioannidis},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {Characterizing uncertainty in predictions of genomic sequence-to-activity
                  models},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {279--297},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/bajwa24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/BajwaRKSI23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/HongDH23,
  author       = {Juneki Hong and
                  Dezhong Deng and
                  David A. Hendrix},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {Improving transformer secondary structure predictions with secondary
                  structure "fixing" task},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {267--278},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/hong24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/HongDH23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/IsaevK23,
  author       = {Keren Isaev and
                  David A. Knowles},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {Investigating {RNA} splicing as a source of cellular diversity using
                  a binomial mixture model},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {163--175},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/isaev24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/IsaevK23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/KenariAL23,
  author       = {Neda Shokraneh Kenari and
                  Megan Andrews and
                  Max W. Libbrecht},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {Model-based imputation enables improved resolution for identifying
                  differential chromatin contacts in single-cell Hi-C data},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {176--193},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/shokraneh-kenari24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/KenariAL23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/LiuK23,
  author       = {Renming Liu and
                  Arjun Krishnan},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {Open Biomedical Network Benchmark: {A} Python Toolkit for Benchmarking
                  Datasets with Biomedical Networks},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {23--59},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/liu24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/LiuK23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/MajhaS023,
  author       = {Arushi G. K. Majha and
                  Ian Stott and
                  Andreas Bender},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {On Modelability and Generalizability: Are Machine Learning Models
                  for Drug Synergy Exploiting Artefacts and Biases in Available Data?},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {123--134},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/majha24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/MajhaS023.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/MartensY23,
  author       = {Kaspar M{\"{a}}rtens and
                  Christopher Yau},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {Disentangling shared and private latent factors in multimodal Variational
                  Autoencoders},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {60--75},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/martens24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/MartensY23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/NathansenKRNB23,
  author       = {Andrea Nathansen and
                  Kevin Klein and
                  Bernhard Y. Renard and
                  Melania Nowicka and
                  Jakub M. Bartoszewicz},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {Evaluating Tuning Strategies for Sequence Generation with Protein
                  Language Models},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {76--89},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/nathansen24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/NathansenKRNB23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/RobsonI23,
  author       = {Eyes S. Robson and
                  Nilah Ioannidis},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {GUANinE v1.0: Benchmark Datasets for Genomic {AI} Sequence-to-Function
                  Models},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {250--266},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/robson24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/RobsonI23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/SimsC23,
  author       = {Zachary S. Sims and
                  Young Hwan Chang},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {A Masked Image Modeling Approach to CyCIF Panel Reduction and Marker
                  Imputation},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {1--9},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/sims24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/SimsC23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/SzatkownikFCYJ23,
  author       = {Antoine Szatkownik and
                  Cyril Furtlehner and
                  Guillaume Charpiat and
                  Burak Yelmen and
                  Flora Jay},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {Towards creating longer genetic sequences with GANs: Generation in
                  principal component space},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {110--122},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/szatkownik24a.html},
  timestamp    = {Sun, 04 Aug 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/SzatkownikFCYJ23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/TuHWKRL23,
  author       = {Xinming Tu and
                  Jan{-}Christian H{\"{u}}tter and
                  Zitong Jerry Wang and
                  Takamasa Kudo and
                  Aviv Regev and
                  Romain Lopez},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {A Supervised Contrastive Framework for Learning Disentangled Representations
                  of Cellular Perturbation Data},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {90--100},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/tu24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/TuHWKRL23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/VisaniGPN23,
  author       = {Gian Marco Visani and
                  William Galvin and
                  Michael N. Pun and
                  Armita Nourmohammad},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {H-Packer: Holographic Rotationally Equivariant Convolutional Neural
                  Network for Protein Side-Chain Packing},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {230--249},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/visani24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/VisaniGPN23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/WuBLBLH23,
  author       = {You Wu and
                  Omid Bazgir and
                  Yongju Lee and
                  Tommaso Biancalani and
                  James Lu and
                  Ehsan Hajiramezanali},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {Multitask-Guided Self-Supervised Tabular Learning for Patient-Specific
                  Survival Prediction},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {10--22},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/wu24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/WuBLBLH23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/WuYDBXESC023,
  author       = {Kevin E. Wu and
                  Kathryn Yost and
                  Bence Daniel and
                  Julia A. Belk and
                  Yu Xia and
                  Takeshi Egawa and
                  Ansuman Satpathy and
                  Howard Chang and
                  James Zou},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {{TCR-BERT:} learning the grammar of T-cell receptors for flexible
                  antigen-binding analyses},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {194--229},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/wu24b.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/WuYDBXESC023.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/YuWMT023,
  author       = {Jennifer Yu and
                  Zhenqin Wu and
                  Aaron T. Mayer and
                  Alexandro Trevino and
                  James Zou},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {A Multi-Granularity Approach to Similarity Search in Multiplexed Immunofluorescence
                  Images},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {135--147},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/yu24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/YuWMT023.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@inproceedings{DBLP:conf/mlcb/ZhangLBDC23,
  author       = {Chenwei Zhang and
                  Jordan Lovrod and
                  Boyan Beronov and
                  Khanh Dao Duc and
                  Anne Condon},
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {ViDa: Visualizing {DNA} hybridization trajectories with biophysics-informed
                  deep graph embeddings},
  booktitle    = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  pages        = {148--162},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/zhang24a.html},
  timestamp    = {Mon, 13 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/ZhangLBDC23.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

@proceedings{DBLP:conf/mlcb/2023,
  editor       = {David A. Knowles and
                  Sara Mostafavi},
  title        = {Machine Learning in Computational Biology, November 30 - December
                  1, 2023, Seattle, WA, {USA}},
  series       = {Proceedings of Machine Learning Research},
  volume       = {240},
  publisher    = {{PMLR}},
  year         = {2023},
  url          = {https://proceedings.mlr.press/v240/},
  timestamp    = {Fri, 10 May 2024 01:00:00 +0200},
  biburl       = {https://dblp.org/rec/conf/mlcb/2023.bib},
  bibsource    = {dblp computer science bibliography, https://dblp.org}
}

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