Alex Lu

Senior Researcher

论文与出版物

查看方式：

- scGeneScope: A Treatment-Matched Single Cell Imaging and Transcriptomics Dataset and Benchmark for Treatment Response Modeling
  
  Joel Dapello, Marcel Nassar, Ridvan Eksi, Ban Wang, Jules Gagnon-Marchand, Kenneth Gao, akram Baharlouei, Kyra Thrush, Nina Riehs, Amy Peterson, Aniket Tolpadi, Abhejit Rajagopal, Henry Miller, ashley conard, David Alvarez-Melis, Rory Stark, Simone Bianco, Morgan Levine, Ava P. Amini, Alex Lu, Nicolo Fusi, Ravi Pandya, Valentina Pedoia, Hana El-Samad
  
  NeurIPS 2025 | October 2025
  
  Publication
- Representation Learning Methods for Single-Cell Microscopy are Confounded by Background Cells
  
  Arushi Gupta, Alan Moses, Alex Lu
  
  June 2025
  
  DOI Github
- Causal integration of chemical structures improves representations of microscopy images for morphological profiling
  
  Yemin Yu, Neil Tenenholtz, Lester Mackey, Ying Wei, David Alvarez-Melis, Ava P. Amini, Alex Lu
  
  April 2025
  
  DOI Publication Publication Github
- Exploring Reduced Feature Sets for American Sign Language Dictionaries
  
  Ben Kosa, Aashaka Desai, Alex Lu, Richard E. Ladner, Danielle Bragg
  
  CHI 2025 | March 2025
  
  Honorable Mention, CHI 2025
  
  Publication
- ASL STEM Wiki: Dataset and Benchmark for Interpreting STEM Articles
  
  Kayo Yin, Chinmay Singh, Fyodor O. Minakov, Vanessa Milan, Hal Daumé, Cyril Zhang, Alex Lu, Danielle Bragg
  
  Proceedings of the 2024 Conference on Empirical Methods in Natural Language Processing | November 2024
  
  Publication Publication 项目
- Protein generation with evolutionary diffusion: sequence is all you need
  
  Sarah Alamdari, Nitya Thakkar, Rianne van den Berg, Neil Tenenholtz, Robert Strome, Alan M. Moses, Alex Lu, Nicolo Fusi, Ava P. Amini, Kevin Kaichuang Yang
  
  bioRxiv | November 2024
  
  DOI Preprint Access
- Feature Reuse and Scaling: Understanding Transfer Learning with Protein Language Models
  
  Francesca-Zhoufan Li, Ava P. Amini, Yisong Yue, Kevin Yang, Alex Lu
  
  ICML 2024 | February 2024
  
  DOI Publication
- Protein structure generation via folding diffusion
  
  Kevin E. Wu, Kevin Kaichuang Yang, Rianne van den Berg, Sarah Alamdari, James Zou, Alex Lu, Ava P. Amini
  
  Nature Communications | February 2024, 第 15 卷
  
  DOI PDF Publication
- Assessing the limits of zero-shot foundation models in single-cell biology
  
  Kasia Z. Kedzierska, Lorin Crawford, Ava P. Amini, Alex Lu
  
  bioRxiv | November 2023
  
  Preprint PDF 项目
- ASL Citizen: A Community-Sourced Dataset for Advancing Isolated Sign Language Recognition
  
  Aashaka Desai, Lauren Berger, Fyodor O. Minakov, Vanessa Milan, Chinmay Singh, Kriston Pumphrey, Richard E. Ladner, Hal Daumé III, Alex Lu, Naomi Caselli, Danielle Bragg
  
  Advances in Neural Information Processing Systems (NeurIPS) 36 | June 2023
  
  Publication Publication 项目
- Protein structure generation via folding diffusion
  
  Kevin E. Wu, Kevin K. Yang, Rianne van den Berg, James Y. Zou, Alex X. Lu, Ava P. Amini
  
  arXiv | September 2022
  
  DOI
- Discovering molecular features of intrinsically disordered regions by using evolution for contrastive learning
  
  Alex X. Lu, Amy X. Lu, Iva Pritišanac, Taraneh Zarin, Julie D. Forman-Kay, Alan M. Moses
  
  PLOS Computational Biology | July 2022, 第 18 卷(6)
  
  Publication 项目

- scGeneScope: A Treatment-Matched Single Cell Imaging and Transcriptomics Dataset and Benchmark for Treatment Response Modeling
  
  Joel Dapello, Marcel Nassar, Ridvan Eksi, Ban Wang, Jules Gagnon-Marchand, Kenneth Gao, akram Baharlouei, Kyra Thrush, Nina Riehs, Amy Peterson, Aniket Tolpadi, Abhejit Rajagopal, Henry Miller, ashley conard, David Alvarez-Melis, Rory Stark, Simone Bianco, Morgan Levine, Ava P. Amini, Alex Lu, Nicolo Fusi, Ravi Pandya, Valentina Pedoia, Hana El-Samad
  
  NeurIPS 2025 | October 2025
  
  Publication
- Representation Learning Methods for Single-Cell Microscopy are Confounded by Background Cells
  
  Arushi Gupta, Alan Moses, Alex Lu
  
  June 2025
  
  DOI Github
- Causal integration of chemical structures improves representations of microscopy images for morphological profiling
  
  Yemin Yu, Neil Tenenholtz, Lester Mackey, Ying Wei, David Alvarez-Melis, Ava P. Amini, Alex Lu
  
  April 2025
  
  DOI Publication Publication Github
- Protein generation with evolutionary diffusion: sequence is all you need
  
  Sarah Alamdari, Nitya Thakkar, Rianne van den Berg, Neil Tenenholtz, Robert Strome, Alan M. Moses, Alex Lu, Nicolo Fusi, Ava P. Amini, Kevin Kaichuang Yang
  
  bioRxiv | November 2024
  
  DOI Preprint Access
- Protein structure generation via folding diffusion
  
  Kevin E. Wu, Kevin Kaichuang Yang, Rianne van den Berg, Sarah Alamdari, James Zou, Alex Lu, Ava P. Amini
  
  Nature Communications | February 2024, 第 15 卷
  
  DOI PDF Publication
- Protein structure generation via folding diffusion
  
  Kevin E. Wu, Kevin K. Yang, Rianne van den Berg, James Y. Zou, Alex X. Lu, Ava P. Amini
  
  arXiv | September 2022
  
  DOI
- Discovering molecular features of intrinsically disordered regions by using evolution for contrastive learning
  
  Alex X. Lu, Amy X. Lu, Iva Pritišanac, Taraneh Zarin, Julie D. Forman-Kay, Alan M. Moses
  
  PLOS Computational Biology | July 2022, 第 18 卷(6)
  
  Publication 项目
- Causal integration of chemical structures improves representations of microscopy images for morphological profiling
  
  Yemin Yu, Neil Tenenholtz, Lester Mackey, Ying Wei, David Alvarez-Melis, Ava P. Amini, Alex Lu
  
  April 2025
  
  DOI Publication Publication Github
- Exploring Reduced Feature Sets for American Sign Language Dictionaries
  
  Ben Kosa, Aashaka Desai, Alex Lu, Richard E. Ladner, Danielle Bragg
  
  CHI 2025 | March 2025
  
  Honorable Mention, CHI 2025
  
  Publication
- ASL STEM Wiki: Dataset and Benchmark for Interpreting STEM Articles
  
  Kayo Yin, Chinmay Singh, Fyodor O. Minakov, Vanessa Milan, Hal Daumé, Cyril Zhang, Alex Lu, Danielle Bragg
  
  Proceedings of the 2024 Conference on Empirical Methods in Natural Language Processing | November 2024
  
  Publication Publication 项目
- Protein generation with evolutionary diffusion: sequence is all you need
  
  Sarah Alamdari, Nitya Thakkar, Rianne van den Berg, Neil Tenenholtz, Robert Strome, Alan M. Moses, Alex Lu, Nicolo Fusi, Ava P. Amini, Kevin Kaichuang Yang
  
  bioRxiv | November 2024
  
  DOI Preprint Access
- Feature Reuse and Scaling: Understanding Transfer Learning with Protein Language Models
  
  Francesca-Zhoufan Li, Ava P. Amini, Yisong Yue, Kevin Yang, Alex Lu
  
  ICML 2024 | February 2024
  
  DOI Publication
- Protein structure generation via folding diffusion
  
  Kevin E. Wu, Kevin Kaichuang Yang, Rianne van den Berg, Sarah Alamdari, James Zou, Alex Lu, Ava P. Amini
  
  Nature Communications | February 2024, 第 15 卷
  
  DOI PDF Publication
- Assessing the limits of zero-shot foundation models in single-cell biology
  
  Kasia Z. Kedzierska, Lorin Crawford, Ava P. Amini, Alex Lu
  
  bioRxiv | November 2023
  
  Preprint PDF 项目
- Protein structure generation via folding diffusion
  
  Kevin E. Wu, Kevin K. Yang, Rianne van den Berg, James Y. Zou, Alex X. Lu, Ava P. Amini
  
  arXiv | September 2022
  
  DOI
- Discovering molecular features of intrinsically disordered regions by using evolution for contrastive learning
  
  Alex X. Lu, Amy X. Lu, Iva Pritišanac, Taraneh Zarin, Julie D. Forman-Kay, Alan M. Moses
  
  PLOS Computational Biology | July 2022, 第 18 卷(6)
  
  Publication 项目
- Exploring Reduced Feature Sets for American Sign Language Dictionaries
  
  Ben Kosa, Aashaka Desai, Alex Lu, Richard E. Ladner, Danielle Bragg
  
  CHI 2025 | March 2025
  
  Honorable Mention, CHI 2025
  
  Publication
- ASL STEM Wiki: Dataset and Benchmark for Interpreting STEM Articles
  
  Kayo Yin, Chinmay Singh, Fyodor O. Minakov, Vanessa Milan, Hal Daumé, Cyril Zhang, Alex Lu, Danielle Bragg
  
  Proceedings of the 2024 Conference on Empirical Methods in Natural Language Processing | November 2024
  
  Publication Publication 项目
- ASL Citizen: A Community-Sourced Dataset for Advancing Isolated Sign Language Recognition
  
  Aashaka Desai, Lauren Berger, Fyodor O. Minakov, Vanessa Milan, Chinmay Singh, Kriston Pumphrey, Richard E. Ladner, Hal Daumé III, Alex Lu, Naomi Caselli, Danielle Bragg
  
  Advances in Neural Information Processing Systems (NeurIPS) 36 | June 2023
  
  Publication Publication 项目
- ASL Citizen: A Community-Sourced Dataset for Advancing Isolated Sign Language Recognition
  
  Aashaka Desai, Lauren Berger, Fyodor O. Minakov, Vanessa Milan, Chinmay Singh, Kriston Pumphrey, Richard E. Ladner, Hal Daumé III, Alex Lu, Naomi Caselli, Danielle Bragg
  
  Advances in Neural Information Processing Systems (NeurIPS) 36 | June 2023
  
  Publication Publication 项目

- scGeneScope: A Treatment-Matched Single Cell Imaging and Transcriptomics Dataset and Benchmark for Treatment Response Modeling
  
  Joel Dapello, Marcel Nassar, Ridvan Eksi, Ban Wang, Jules Gagnon-Marchand, Kenneth Gao, akram Baharlouei, Kyra Thrush, Nina Riehs, Amy Peterson, Aniket Tolpadi, Abhejit Rajagopal, Henry Miller, ashley conard, David Alvarez-Melis, Rory Stark, Simone Bianco, Morgan Levine, Ava P. Amini, Alex Lu, Nicolo Fusi, Ravi Pandya, Valentina Pedoia, Hana El-Samad
  
  NeurIPS 2025 | October 2025
  
  Publication
- Exploring Reduced Feature Sets for American Sign Language Dictionaries
  
  Ben Kosa, Aashaka Desai, Alex Lu, Richard E. Ladner, Danielle Bragg
  
  CHI 2025 | March 2025
  
  Honorable Mention, CHI 2025
  
  Publication
- ASL STEM Wiki: Dataset and Benchmark for Interpreting STEM Articles
  
  Kayo Yin, Chinmay Singh, Fyodor O. Minakov, Vanessa Milan, Hal Daumé, Cyril Zhang, Alex Lu, Danielle Bragg
  
  Proceedings of the 2024 Conference on Empirical Methods in Natural Language Processing | November 2024
  
  Publication Publication 项目
- Feature Reuse and Scaling: Understanding Transfer Learning with Protein Language Models
  
  Francesca-Zhoufan Li, Ava P. Amini, Yisong Yue, Kevin Yang, Alex Lu
  
  ICML 2024 | February 2024
  
  DOI Publication
- ASL Citizen: A Community-Sourced Dataset for Advancing Isolated Sign Language Recognition
  
  Aashaka Desai, Lauren Berger, Fyodor O. Minakov, Vanessa Milan, Chinmay Singh, Kriston Pumphrey, Richard E. Ladner, Hal Daumé III, Alex Lu, Naomi Caselli, Danielle Bragg
  
  Advances in Neural Information Processing Systems (NeurIPS) 36 | June 2023
  
  Publication Publication 项目
- Representation Learning Methods for Single-Cell Microscopy are Confounded by Background Cells
  
  Arushi Gupta, Alan Moses, Alex Lu
  
  June 2025
  
  DOI Github
- Causal integration of chemical structures improves representations of microscopy images for morphological profiling
  
  Yemin Yu, Neil Tenenholtz, Lester Mackey, Ying Wei, David Alvarez-Melis, Ava P. Amini, Alex Lu
  
  April 2025
  
  DOI Publication Publication Github
- Protein generation with evolutionary diffusion: sequence is all you need
  
  Sarah Alamdari, Nitya Thakkar, Rianne van den Berg, Neil Tenenholtz, Robert Strome, Alan M. Moses, Alex Lu, Nicolo Fusi, Ava P. Amini, Kevin Kaichuang Yang
  
  bioRxiv | November 2024
  
  DOI Preprint Access
- Protein structure generation via folding diffusion
  
  Kevin E. Wu, Kevin Kaichuang Yang, Rianne van den Berg, Sarah Alamdari, James Zou, Alex Lu, Ava P. Amini
  
  Nature Communications | February 2024, 第 15 卷
  
  DOI PDF Publication
- Assessing the limits of zero-shot foundation models in single-cell biology
  
  Kasia Z. Kedzierska, Lorin Crawford, Ava P. Amini, Alex Lu
  
  bioRxiv | November 2023
  
  Preprint PDF 项目
- Protein structure generation via folding diffusion
  
  Kevin E. Wu, Kevin K. Yang, Rianne van den Berg, James Y. Zou, Alex X. Lu, Ava P. Amini
  
  arXiv | September 2022
  
  DOI
- Discovering molecular features of intrinsically disordered regions by using evolution for contrastive learning
  
  Alex X. Lu, Amy X. Lu, Iva Pritišanac, Taraneh Zarin, Julie D. Forman-Kay, Alan M. Moses
  
  PLOS Computational Biology | July 2022, 第 18 卷(6)
  
  Publication 项目

Alex Lu

论文与出版物

scGeneScope: A Treatment-Matched Single Cell Imaging and Transcriptomics Dataset and Benchmark for Treatment Response Modeling

Representation Learning Methods for Single-Cell Microscopy are Confounded by Background Cells

Causal integration of chemical structures improves representations of microscopy images for morphological profiling

Exploring Reduced Feature Sets for American Sign Language Dictionaries

ASL STEM Wiki: Dataset and Benchmark for Interpreting STEM Articles

Protein generation with evolutionary diffusion: sequence is all you need

Feature Reuse and Scaling: Understanding Transfer Learning with Protein Language Models

Protein structure generation via folding diffusion

Assessing the limits of zero-shot foundation models in single-cell biology

ASL Citizen: A Community-Sourced Dataset for Advancing Isolated Sign Language Recognition

Protein structure generation via folding diffusion

Discovering molecular features of intrinsically disordered regions by using evolution for contrastive learning

scGeneScope: A Treatment-Matched Single Cell Imaging and Transcriptomics Dataset and Benchmark for Treatment Response Modeling

Representation Learning Methods for Single-Cell Microscopy are Confounded by Background Cells

Causal integration of chemical structures improves representations of microscopy images for morphological profiling

Protein generation with evolutionary diffusion: sequence is all you need

Protein structure generation via folding diffusion

Protein structure generation via folding diffusion

Discovering molecular features of intrinsically disordered regions by using evolution for contrastive learning

Causal integration of chemical structures improves representations of microscopy images for morphological profiling

Exploring Reduced Feature Sets for American Sign Language Dictionaries

ASL STEM Wiki: Dataset and Benchmark for Interpreting STEM Articles

Protein generation with evolutionary diffusion: sequence is all you need

Feature Reuse and Scaling: Understanding Transfer Learning with Protein Language Models

Protein structure generation via folding diffusion

Assessing the limits of zero-shot foundation models in single-cell biology

Protein structure generation via folding diffusion

Discovering molecular features of intrinsically disordered regions by using evolution for contrastive learning

Exploring Reduced Feature Sets for American Sign Language Dictionaries

ASL STEM Wiki: Dataset and Benchmark for Interpreting STEM Articles

ASL Citizen: A Community-Sourced Dataset for Advancing Isolated Sign Language Recognition

ASL Citizen: A Community-Sourced Dataset for Advancing Isolated Sign Language Recognition

scGeneScope: A Treatment-Matched Single Cell Imaging and Transcriptomics Dataset and Benchmark for Treatment Response Modeling

Exploring Reduced Feature Sets for American Sign Language Dictionaries

ASL STEM Wiki: Dataset and Benchmark for Interpreting STEM Articles

Feature Reuse and Scaling: Understanding Transfer Learning with Protein Language Models

ASL Citizen: A Community-Sourced Dataset for Advancing Isolated Sign Language Recognition

Representation Learning Methods for Single-Cell Microscopy are Confounded by Background Cells

Causal integration of chemical structures improves representations of microscopy images for morphological profiling

Protein generation with evolutionary diffusion: sequence is all you need

Protein structure generation via folding diffusion

Assessing the limits of zero-shot foundation models in single-cell biology

Protein structure generation via folding diffusion

Discovering molecular features of intrinsically disordered regions by using evolution for contrastive learning