Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: pypi: phydms

https://packages.ecosyste.ms/registries/pypi.org/packages/phydms

Phylogenetic analyses informed by deep mutational scanning data.
36 versions
Latest release: over 3 years ago
98 downloads last month

Papers Mentioning phydms 8

Comprehensive profiling of translation initiation in influenza virus infected cells
Cited by: 22
Author(s): Heather M. Machkovech, Jesse D. Bloom, Arvind R. Subramaniam
Software Mentions: 6
Published: almost 6 years ago

10.7717/peerj.3657

<tt>phydms</tt>: software for phylogenetic analyses informed by deep mutational scanning
Cited by: 21
Author(s): Sarah K Hilton, Michael B. Doud, Jesse D Bloom
Software Mentions: 5
Published: over 7 years ago

10.1093/ve/vey033

Modeling site-specific amino-acid preferences deepens phylogenetic estimates of viral sequence divergence
Cited by: 11
Author(s): Sarah K Hilton, Jesse D. Bloom
Software Mentions: 4
Published: over 6 years ago

10.7554/eLife.34420

Mapping mutational effects along the evolutionary landscape of HIV envelope
Cited by: 87
Author(s): Hugh K. Haddox, Adam S. Dingens, Sarah K Hilton, Julie Overbaugh, Jesse D. Bloom
Software Mentions: 3
Published: over 6 years ago

10.1186/s13062-016-0172-z

Identification of positive selection in genes is greatly improved by using experimentally informed site-specific models
Cited by: 51
Author(s): Jesse D. Bloom
Software Mentions: 3
Published: almost 8 years ago

10.15252/msb.20177908

A framework for exhaustively mapping functional missense variants
Cited by: 130
Author(s): Jochen Weile, Song Sun, Atina G. Coté, Jennifer J. Knapp, Marta Verby, Joseph Mellor, Yingzhou Wu, Carles Pons, Cassandra Wong, Natascha van Lieshout, Fan Yang, Murat Taşan, Guihong Tan, Shan Yang, Douglas M. Fowler, Robert L. Nussbaum, Jesse D Bloom, Marc Vidal, David E. Hill, Patrick Aloy, Frederick P. Roth
Software Mentions: 3
Published: about 7 years ago

10.3390/v8060155

Accurate Measurement of the Effects of All Amino-Acid Mutations on Influenza Hemagglutinin
Cited by: 164
Author(s): Michael B. Doud, Jesse D. Bloom
Software Mentions: 3
Published: over 8 years ago

10.1128/JVI.00161-19

Deep Mutational Scan of the Highly Conserved Influenza A Virus M1 Matrix Protein Reveals Substantial Intrinsic Mutational Tolerance
Cited by: 18
Author(s): Nancy Hom, Lauren E. Gentles, Jesse D. Bloom, Kelly K. Lee
Software Mentions: 1
Published: over 5 years ago