Author

Alexander M. Rush

Cornell TechORCID 0000-0002-9900-1606Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Signature Assays, Organisms & Methods

Click to filter · or open tag

Approach:statistical model· 2 Approach:deep learning· 1 Research Focus:differential expression· 1 Assay:DNA methylation· 1 Research Focus:gene regulatory network inference· 1 Organism:human· 1 Assay:protein sequence· 1 Research Focus:protein structure prediction· 1

Frequent Co-Authors

Ankit GuptaiD· 1 shared Juannan ZhouiD· 1 shared Justas DauparasiD· 1 shared Neil ThomasiD· 1 shared Nicholas BhattacharyaiD· 1 shared Peter K. KooiD· 1 shared Roshan RaoiD· 1 shared Samantha PettiiD· 1 shared

Activity by Year

2017-2022 · peak 1/yr

Co-Author Collaboration Network

9 top collaborators · 28 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

1 shared paperGenomics

Ankit GuptaORCID

Author profile →

2 papers

Recent·Most cited

End-to-end learning of multiple sequence alignments with differentiable Smith-Waterman

Samantha Petti, Nicholas Bhattacharya, Roshan Rao, Justas Dauparas, Neil Thomas, Juannan Zhou, Alexander M. Rush, Peter K. Koo, Sergey Ovchinnikov

This paper introduces a differentiable Smith-Waterman algorithm to jointly learn multiple sequence alignments and downstream tasks, showing improvements in contact prediction and structure prediction.

Bioinformatics · Nov 8, 2022Peer-reviewedBioinformatics

Dilated Convolutions for Modeling Long-Distance Genomic Dependencies

Ankit Gupta, Alexander M. Rush

Dilated convolutions let models of raw DNA span longer stretches; on a newly released large-context dataset they locate regulatory marks, with standard convolutions and recurrent networks as comparisons.

bioRxiv · Oct 10, 2017 · PreprintGenomics