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
10.1371/journal.ppat.1007518
Comprehensive profiling of translation initiation in influenza virus infected cellsCited 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 scanningCited 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 divergenceCited 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 envelopeCited 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 modelsCited 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 variantsCited 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: almost 7 years ago
10.3390/v8060155
Accurate Measurement of the Effects of All Amino-Acid Mutations on Influenza HemagglutininCited 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 ToleranceCited by: 18
Author(s): Nancy Hom, Lauren E. Gentles, Jesse D. Bloom, Kelly K. Lee
Software Mentions: 1
Published: over 5 years ago