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: HyPhy
https://packages.ecosyste.ms/registries/pypi.org/packages/HyPhy
HyPhy package interface library
2 versions
Latest release: about 8 years ago
8 downloads last month
Papers Mentioning HyPhy 722
10.1371/journal.pone.0110463
Spatial Variation in Genetic Diversity and Natural Selection on the Thrombospondin-Related Adhesive Protein Locus of Plasmodium vivax (PvTRAP)Cited by: 12
Author(s): Rattiporn Kosuwin, Chaturong Putaporntip, Hiroshi Tachibana, Somchai Jongwutiwes
Software Mentions: 2
Published: about 10 years ago
10.1371/journal.pone.0007789
Evolutionary Trends of A(H1N1) Influenza Virus Hemagglutinin Since 1918Cited by: 76
Author(s): Jun Shen, Jianpeng Ma, Qinghua Wang
Software Mentions: 2
Published: about 15 years ago
10.1371/journal.pone.0005362
The EG95 Antigen of Echinococcus spp. Contains Positively Selected Amino Acids, which May Influence Host Specificity and Vaccine EfficacyCited by: 25
Author(s): Karen Luisa Haag, Bruno Gottstein, Francisco J. Ayala
Software Mentions: 2
Published: over 15 years ago
10.1371/journal.pone.0022780
Comprehensive Phylogenetic Reconstruction of Amoebozoa Based on Concatenated Analyses of SSU-rDNA and Actin GenesCited by: 78
Author(s): Daniel J. G. Lahr, Jessica R. Grant, Truc Nguyen, Jian Lin, Laura A. Katz
Software Mentions: 2
Published: over 13 years ago
10.1371/journal.pone.0120748
Association of Anaplasma marginale Strain Superinfection with Infection Prevalence within Tropical RegionsCited by: 27
Author(s): Elizabeth J. Castañeda-Ortiz, Massaro W. Ueti, Minerva Camacho-Nuez, Juan Mosqueda, Michelle R. Mousel, Wendell C. Johnson, Guy H. Palmer
Software Mentions: 2
Published: over 9 years ago
10.1371/journal.pone.0066836
Evolution of Type 2 Vaccine Derived Poliovirus Lineages. Evidence for Codon-Specific Positive Selection at Three Distinct Locations on Capsid WallCited by: 4
Author(s): Tapani Hovi, Carita Savolainen-Kopra, Teemu Smura, Soile Blomqvist, Haider Al-Hello, Merja Roivainen
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0155924
Disparate Modes of Evolution Shaped Modern Prion (PRNP) and Prion-Related Doppel (PRND) Variation in Domestic CattleCited by: 0
Author(s): Brian W. Brunelle, Allison M. O’Grady, E. M. Nicholson, Christopher M. Seabury
Software Mentions: 2
Published: over 8 years ago
10.1371/journal.pone.0068188
HIV-1 Clade B pol Evolution following Primary InfectionCited by: 37
Author(s): George K. Hightower, Susanne May, Josué Pérez-Santiago, Mary E. Pacold, Gregory LeClaire Wagner, Susan J. Little, Douglas D. Richman, Sanjay R. Mehta, Davey M. Smith, Sergei L. Kosakovsky Pond
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0112129
Molecular Epidemiology of Seal Parvovirus, 1988–2014Cited by: 5
Author(s): Rogier Bodewes, Rebriarina Hapsari, Ana Rubio García, Guillermo J. Sánchez Contreras, Marco W. G. van de Bildt, Miranda de Graaf, Thijs Kuiken, Albert D. M. E. Osterhaus
Software Mentions: 2
Published: about 10 years ago
10.1371/journal.pone.0030036
Evolution of the Primate APOBEC3A Cytidine Deaminase Gene and Identification of Related Coding RegionsCited by: 24
Author(s): H. Mathieu, Christophe Terzian, Martine Peeters, Simon Wain‐Hobson, Jean‐Pierre Vartanian
Software Mentions: 2
Published: almost 13 years ago
10.1371/journal.pone.0016867
The Expansion of the PRAME Gene Family in EutheriaCited by: 36
Author(s): Ti Cheng Chang, Yang Yang, Hiroshi Yasue, Arvind K. Bharti, Ernest F. Retzel, Wan Sheng Liu
Software Mentions: 2
Published: almost 14 years ago
10.1371/journal.pone.0062393
On Hepatitis C Virus Evolution: The Interaction between Virus and Host towards Treatment OutcomeCited by: 10
Author(s): Cíntia Bittar, Ana Carolina Gomes Jardim, Lílian Hiromi Tomonari Yamasaki, Claudia M. A. Carareto, João Renato Rebello Pinho, Philippe Lemey, Isabel Maria Vicente Guedes de Carvalho-Mello, Paula Rahal
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0163529
Genomic Mining of Phylogenetically Informative Nuclear Markers in Bark and Ambrosia BeetlesCited by: 11
Author(s): Dario Pistone, Sigrid Mugu, Bjarte H. Jordal
Software Mentions: 2
Published: about 8 years ago
10.1371/journal.pone.0068282
Species Delimitation and Morphological Divergence in the Scorpion Centruroides vittatus (Say, 1821): Insights from PhylogeographyCited by: 13
Author(s): Tsunemi Yamashita, David B. Rhoads
Software Mentions: 2
Published: over 11 years ago
10.1371/journal.pone.0161355
A Comprehensive Systems Biology Approach to Studying Zika VirusCited by: 18
Author(s): Meghan May, Ryan F. Relich
Software Mentions: 2
Published: about 8 years ago
10.1371/journal.pone.0028644
Molecular Evolution of the Infrared Sensory Gene TRPA1 in Snakes and Implications for Functional StudiesCited by: 23
Author(s): Jing Geng, Dan Liang, Ke Jiang, Peng Zhang
Software Mentions: 2
Published: almost 13 years ago
10.1038/s42003-020-1094-y
Mandarin fish (Sinipercidae) genomes provide insights into innate predatory feedingCited by: 27
Author(s): Shan He, Ling Li, Liyuan Lv, Wenjing Cai, Yaqi Dou, Jiao Li, Shulin Tang, Chunyan Xu, Zhen Zhang, Jing Xu, Yanpeng Zhang, Zhan Yin, Sven Wuertz, Ya‐Xiong Tao, Heiner Kuhl, Xu‐Fang Liang
Software Mentions: 2
Published: over 4 years ago
10.1038/s42003-019-0340-7
Identification of evolutionarily conserved virulence factor by selective pressure analysis of Streptococcus pneumoniaeCited by: 20
Author(s): M. Yamaguchi, Kana Goto, Yujiro Hirose, Yuka Yamaguchi, Tomoko Sumitomo, Masao Nakata, Kazuhiko Nakano, Shigetada Kawabata
Software Mentions: 2
Published: over 5 years ago
10.1093/database/bav065
EvoDB: a database of evolutionary rate profiles, associated protein domains and phylogenetic trees for PFAM-ACited by: 2
Author(s): Andrew Ndhlovu, Pierre Durand, Scott Hazelhurst
Software Mentions: 2
Published: almost 10 years ago
10.1002/ece3.13
Variation in MHC genotypes in two populations of house sparrow (<i>Passer domesticus</i>) with different population historiesCited by: 32
Author(s): Åsa A. Borg, Sindre Andre Pedersen, Henrik Jensen, Helena Westerdahl
Software Mentions: 2
Published: about 13 years ago
10.1002/ece3.1042
Selection and demographic history shape the molecular evolution of the gamete compatibility protein bindin in<i><scp>P</scp>isaster</i>sea starsCited by: 16
Author(s): Iva Popovic, Peter B. Marko, John P. Wares, Michael W. Hart
Software Mentions: 2
Published: over 10 years ago