Timezone: »
The workshop will showcase recent research in the field of Computational Biology. There has been significant development in genomic sequencing techniques as well as imaging technologies that not only generate huge amounts of data but provide unprecedented levels of resolution, that of a single cell and even subcellular resolution. This availability of high dimensional data, at multiple spatial and temporal resolutions and capturing several perspectives of biological phenomena has made machine learning methods increasingly relevant for computational analysis of the data. Conversely, biological data has also exposed unique challenges and problems that call for the development of new machine learning methods. This workshop aims at bringing in researchers working at the intersection of Machine Learning and Biology to present recent advances and open questions in computational biology to the ICML community.
|
Wed 3:45 p.m. - 3:50 p.m.
|
Opening Remarks
|
🔗 |
|
Wed 3:50 p.m. - 4:30 p.m.
|
Stability and Aggregation of Experimental Results
(Invited Talk)
link »
Spearman's correlation measures the association between ranked lists. Given a set of ranked lists, we study two tasks: aggregating the set of ranks into one single ranked list, and computing the agreement of the lists as we traverse it. Applications include the analysis of the stability of feature selection and integration of various sources of information. This is illustrated with two examples respectively: We study the stability of identifying variations in GWAS by considering replication studies. In another study, we aggregate genomic distance, 3D associations, and literature information to findpromising disease associated variations. It turns out that these problems can be tackled by considering a multivariate Spearman's correlation. |
🔗 |
|
Wed 4:30 p.m. - 5:00 p.m.
|
Spotlight Presentations
(Spotlight)
|
🔗 |
|
Wed 5:00 p.m. - 5:30 p.m.
|
Coffee Break
(Break)
|
🔗 |
|
Wed 5:30 p.m. - 6:10 p.m.
|
Deep learning approaches to impute, integrate and interpret regulatory genomic data (Invited talk) link » | 🔗 |
|
Wed 6:10 p.m. - 6:30 p.m.
|
Uncovering the gene usage of human tissue cells with joint factorized embeddings
(Contributed Talk)
|
🔗 |
|
Wed 6:30 p.m. - 7:00 p.m.
|
Dilated Convolutions for Modeling Long-Distance Genomic Dependencies
(Contributed Talk)
|
🔗 |
|
Wed 7:00 p.m. - 9:00 p.m.
|
Poster Session I
(Lunch & Posters)
|
🔗 |
|
Wed 9:00 p.m. - 9:40 p.m.
|
Reasoning from "Messy" Clinical Time Series for Individualizing Care -- Suchi Saria (Invited Talk) link » | 🔗 |
|
Wed 9:40 p.m. - 10:00 p.m.
|
Ask the doctor – Improving drug sensitivity predictions through active expert knowledge elicitation
(Contributed Talk)
|
🔗 |
|
Wed 10:00 p.m. - 11:15 p.m.
|
Poster Session II
(Posters & Break)
|
🔗 |
|
Wed 11:15 p.m. - 11:35 p.m.
|
Contrastive Principal Component Analysis
(Contributed Talk)
|
🔗 |
|
Wed 11:35 p.m. - 12:00 a.m.
|
Closing Remarks and Awards
(Closing & Awards)
|
🔗 |
Author Information
Dana Pe'er (Sloan Kettering Institute)
Christina Leslie (Memorial Sloan Kettering Cancer Center)
Barbara Engelhardt (Princeton University)
Barbara E. Engelhardt, an associate professor, joined the Princeton Computer Science Department in 2014 from Duke University, where she had been an assistant professor in Biostatistics and Bioinformatics and Statistical Sciences. She graduated from Stanford University and received her Ph.D. from the University of California, Berkeley, advised by Professor Michael Jordan. She did postdoctoral research at the University of Chicago, working with Professor Matthew Stephens, and three years at Duke University as an assistant professor. Interspersed among her academic experiences, she spent two years working at the Jet Propulsion Laboratory, a summer at Google Research, and a year at 23andMe, a DNA ancestry service. Professor Engelhardt received an NSF Graduate Research Fellowship, the Google Anita Borg Memorial Scholarship, and the Walter M. Fitch Prize from the Society for Molecular Biology and Evolution. As a faculty member, she received the NIH NHGRI K99/R00 Pathway to Independence Award, a Sloan Faculty Fellowship, and an NSF CAREER Award. Professor Engelhardt’s research interests involve developing statistical models and methods for the analysis of high-dimensional biomedical data, with a goal of understanding the underlying biological mechanisms of complex phenotypes and human disease.
Elham Azizi (Memorial Sloan Kettering Cancer Center)
Sandhya Prabhakaran (Memorial Sloan Kettering Cancer Centre)
Meghana Kshirsagar (Memorial Sloan Kettering Cancer Center)
Ambrose Carr (Memorial Sloan Kettering Cancer Center)
More from the Same Authors
-
2020 : Barbara Engelhardt -- Invited Talk »
Barbara Engelhardt -
2023 Workshop: ICML 2023 Workshop on Computational Biology »
Yubin Xie · Cassandra Burdziak · Dana Pe'er · Debora Marks · Alexander Anderson · Elham Azizi · Abdoulaye Baniré Diallo · Wesley Tansey · Bianca Dumitrascu · Sandhya Prabhakaran · Maria Brbic · Mafalda Dias · Cameron Park · Pascal Notin · Joy Fan · Ruben Weizman · Lingting Shi · Siyu He · Yinuo Jin -
2022 Workshop: ICML 2022 Workshop on Computational Biology »
Cassandra Burdziak · Yubin Xie · Amine Remita · Mauricio Tec · Achille O R Nazaret · Pascal Notin · Mafalda Dias · Steffan Paul · Cameron Park · Dana Pe'er · Debora Marks · Alexander Anderson · Elham Azizi · Abdoulaye Baniré Diallo · Wesley Tansey · Julia Vogt · Sandhya Prabhakaran -
2021 Workshop: ICML 2021 Workshop on Computational Biology »
Yubin Xie · Cassandra Burdziak · Amine Remita · Elham Azizi · Abdoulaye Baniré Diallo · Sandhya Prabhakaran · Debora Marks · Dana Pe'er · Wesley Tansey · Julia Vogt · Engelbert MEPHU NGUIFO · Jaan Altosaar · Anshul Kundaje · Sabeur Aridhi · Bishnu Sarker · Wajdi Dhifli · Alexander Anderson -
2020 : Panel Discussion »
Subhashini Venugopalan · Eun-Ah Kim · Barbara Engelhardt · Sendhil Mullainathan · Arunachalam Narayanaswamy · Katherine Bouman -
2020 : Q&A - Barbara Engelhardt »
Barbara Engelhardt · Subhashini Venugopalan -
2020 : Invited Talk - Barbara Engelhardt »
Barbara Engelhardt · Subhashini Venugopalan -
2020 Workshop: ICML 2020 Workshop on Computational Biology »
Workshop CompBio · Delasa Aghamirzaie · Alexander Anderson · Elham Azizi · Abdoulaye Baniré Diallo · Cassandra Burdziak · Jill Gallaher · Anshul Kundaje · Dana Pe'er · Sandhya Prabhakaran · Amine Remita · Mark Robertson-Tessi · Wesley Tansey · Julia Vogt · Yubin Xie -
2019 Workshop: ICML 2019 Workshop on Computational Biology »
Donna Pe'er · Sandhya Prabhakaran · Elham Azizi · Abdoulaye Baniré Diallo · Anshul Kundaje · Barbara Engelhardt · Wajdi Dhifli · Engelbert MEPHU NGUIFO · Wesley Tansey · Julia Vogt · Jennifer Listgarten · Cassandra Burdziak · Workshop CompBio