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: cran: micropan

https://packages.ecosyste.ms/registries/cran.r-project.org/packages/micropan

Microbial Pan-Genome Analysis
8 versions
Latest release: about 4 years ago
1 dependent package
277 downloads last month

Papers Mentioning micropan 19

Phylogenetic background and habitat drive the genetic diversification of Escherichia coli
Cited by: 119
Author(s): Marie Touchon, Perrin Amandine, Jorge Moura de Sousa, Belinda Vangchhia, Samantha Burn, Claire O’Brien, Erick Denamur, David M. Gordon, Eduardo P. C. Rocha
Software Mentions: 16
Published: over 4 years ago

10.1186/s12864-021-07388-6

Phenotype and multi-omics comparison of Staphylococcus and Streptococcus uncovers pathogenic traits and predicts zoonotic potential
Cited by: 3
Author(s): Niels A. Zondervan, Vítor A. P. Martins dos Santos, María Suárez-Diez, Edoardo Saccenti
Software Mentions: 10
Published: over 3 years ago

10.1186/s12866-019-1664-7

Pan-genome diversification and recombination in Cronobacter sakazakii, an opportunistic pathogen in neonates, and insights to its xerotolerant lifestyle
Cited by: 10
Author(s): Isaiah Paolo A. Lee, Cheryl P. Andam
Software Mentions: 6
Published: almost 5 years ago

10.3389/fmicb.2021.665858

Multi-Omics Approach Reveals the Potential Core Vaccine Targets for the Emerging Foodborne Pathogen Campylobacter jejuni
Cited by: 6
Author(s): Hai‐Yan Cao, Hanxiao Xu, Ning Cai, Xiang Li, Ren Qiu-fang, Tiantian Zhang, Yusen Zhang, Rui Gao
Software Mentions: 5
Published: about 3 years ago

10.1186/s12864-017-3543-7

The nucleotide composition of microbial genomes indicates differential patterns of selection on core and accessory genomes
Cited by: 56
Author(s): Jon Bohlin, Vegard Eldholm, John H.‐O. Pettersson, Ola Brønstad Brynildsrud, Lars-Gustav Snipen
Software Mentions: 5
Published: over 7 years ago

10.3389/fcimb.2017.00031

Persistence of Functional Protein Domains in Mycoplasma Species and their Role in Host Specificity and Synthetic Minimal Life
Cited by: 10
Author(s): Tjerko Kamminga, Jasper J. Koehorst, Paul Vermeij, Simen-Jan Slagman, Vítor A. P. Martins dos Santos, Jetta J. E. Bijlsma, Peter J. Schaap
Software Mentions: 4
Published: over 7 years ago

10.1038/s41598-019-48283-1

De novo transcriptome assembly for four species of crustose coralline algae and analysis of unique orthologous genes
Cited by: 9
Author(s): Tessa M. Page, Carmel McDougall, Guillermo Díaz-Pulido
Software Mentions: 4
Published: about 5 years ago

10.1155/2021/5585586

Epi-Gene: An R-Package for Easy Pan-Genome Analysis
Cited by: 1
Author(s): Furqan Awan, Muhammad Muddassir Ali, Muhammad Hamid, Muhammad Huzair Awan, Muhammad Mushtaq, Saeeda Kalsoom, Muhammad Ijaz, Khalid Mehmood, Yongjie Liu
Software Mentions: 4
Published: almost 3 years ago

10.1002/2211-5463.13201

Genomic analysis of Neisseria elongata isolate from a patient with infective endocarditis
Cited by: 1
Author(s): Marcos André Schörner, Hemanoel Passarelli‐Araujo, Mara Cristina Scheffer, Fernando Hartmann Barazzetti, Jéssica Motta Martins, Hanalydia de Melo Machado, Jussara Kasuko Palmeiro, Maria Luiza Bazzo
Software Mentions: 3
Published: over 3 years ago

10.3389/fmicb.2019.00448

Multiple Recombination Events Drive the Current Genetic Structure of Xanthomonas perforans in Florida
Cited by: 40
Author(s): Sujan Timilsina, Juliana A. Pereira-Martin, Gerald V. Minsavage, Fernanda Iruegas-Bocardo, Peter Abrahamian, Neha Potnis, Bryan Kolaczkowski, Gary E. Vallad, Erica M. Goss, Jeffrey B. Jones
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-017-10059-w

A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions
Cited by: 39
Author(s): Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiß, Laura M Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, T Pribýl, Sven Hammerschmidt, Eric W. Deutsch, Samuel L. Bader, Michael Hecker, Robert L. Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
Software Mentions: 3
Published: about 7 years ago

10.3389/fgene.2020.00506

Characterization of Burkholderia cepacia Complex Core Genome and the Underlying Recombination and Positive Selection
Cited by: 10
Author(s): Jianglin Zhou, Hongguang Ren, Mingda Hu, Jing Zhou, Beiping Li, Na Kong, Qi Zhang, Jianmin Yuan, Long Liang, Junjie Yue
Software Mentions: 2
Published: over 4 years ago

10.1186/s13059-018-1606-y

Recombination of ecologically and evolutionarily significant loci maintains genetic cohesion in the Pseudomonas syringae species complex
Cited by: 78
Author(s): Marcus M. Dillon, Shalabh Thakur, Renan N. D. Almeida, Pauline W. Wang, Bevan S. Weir, David S. Guttman
Software Mentions: 2
Published: over 5 years ago

10.3390/genes10070521

Pangloss: A Tool for Pan-Genome Analysis of Microbial Eukaryotes
Cited by: 14
Author(s): Charley G. P. McCarthy, David A. Fitzpatrick
Software Mentions: 2
Published: about 5 years ago

10.3389/fmicb.2021.725776

Development, Phenotypic Characterization and Genomic Analysis of a Francisella tularensis Panel for Tularemia Vaccine Testing
Cited by: 1
Author(s): Beth A. Bachert, Joshua B. Richardson, Kevin D. Mlynek, Christopher P. Klimko, Ronald G. Toothman, David P. Fetterer, Andrea E. Luquette, Kitty Chase, Jessica L Storrs, Ashley K Rogers, Christopher K. Cote, David A. Rozak, Joel A. Bozue
Software Mentions: 2
Published: about 3 years ago

10.1038/s41598-021-96710-z

Whole genome sequencing reveals possible host species adaptation of Streptococcus dysgalactiae
Cited by: 13
Author(s): Davide Porcellato, Marit Smistad, Siv Skeie, Hannah Joan Jørgensen, Lars Austbø, Oddvar Oppegaard
Software Mentions: 1
Published: about 3 years ago

10.3389/fmicb.2019.00552

Within-Species Genomic Variation and Variable Patterns of Recombination in the Tetracycline Producer Streptomyces rimosus
Cited by: 25
Author(s): Cooper J. Park, Cheryl P. Andam
Software Mentions: 1
Published: over 5 years ago

10.1038/srep33442

Dynamics of genome change among Legionella species
Cited by: 18
Author(s): Sandeep J. Joseph, Daniel N. Cox, Bernard J. Wolff, Shatavia S. Morrison, Natalia A. Kozak-Muiznieks, Michael Frace, Xavier Didelot, Santiago Castillo-Ramírez, Jonas M. Winchell, Timothy D. Read, Deborah Dean
Software Mentions: 1
Published: about 8 years ago

10.1186/s12859-015-0517-0

micropan: an R-package for microbial pan-genomics
Cited by: 133
Author(s): Lars-Gustav Snipen, Kristian Hovde Liland
Software Mentions: 1
Published: over 9 years ago