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: circlator
https://packages.ecosyste.ms/registries/pypi.org/packages/circlator
circlator: a tool to circularise genome assemblies
33 versions
Latest release: over 6 years ago
59 downloads last month
Papers Mentioning circlator 16
10.1186/s13073-020-00825-3
Mode and dynamics of vanA-type vancomycin resistance dissemination in Dutch hospitalsCited by: 15
Author(s): Sergio Arredondo-Alonso, Janetta Top, Jukka Corander, Rob J. L. Willems, Anita C. Schürch
Software Mentions: 6
Published: over 3 years ago
10.1093/gbe/evaa071
Distinct Life Histories Impact Dikaryotic Genome Evolution in the Rust Fungus Puccinia striiformis Causing Stripe Rust in WheatCited by: 30
Author(s): Benjamin Schwessinger, Yan Jun Chen, Richard Tien, Josef Korbinian Vogt, Jana Sperschneider, Ramawatar Nagar, Mark McMullan, Thomas Sicheritz-Pontén, Chris K. Sørensen, Mogens S. Hovmøller, John P. Rathjen, Annemarie Fejer Justesen
Software Mentions: 6
Published: over 4 years ago
10.1128/mBio.01496-21
The Interspecific Fungal Hybrid <i>Verticillium longisporum</i> Displays Subgenome-Specific Gene ExpressionCited by: 6
Author(s): Jasper R L Depotter, Fabian van Beveren, Luis Rodríguez‐Moreno, Holger Kramer, Edgar A. Chavarro Carrero, Gabriel Lorencini Fiorin, Grardy C. M. van den Berg, Thomas A. Wood, Bart P.H.J. Thomma, Michael Seidl
Software Mentions: 5
Published: about 3 years ago
10.3389/fmicb.2020.01826
Complete Genome Sequencing and Transcriptome Analysis of Nitrogen Metabolism of Succinivibrio dextrinosolvens Strain Z6 Isolated From Dairy Cow RumenCited by: 19
Author(s): Samson Hailemariam, Shengguo Zhao, Jiaqi Wang
Software Mentions: 4
Published: about 4 years ago
10.3389/fmicb.2020.00581
The Potato Yam Phyllosphere Ectosymbiont Paraburkholderia sp. Msb3 Is a Potent Growth Promotor in TomatoCited by: 16
Author(s): Johannes B Herpell, Florian Schindler, Mersad Bejtović, Lena Fragner, Bocar Diallo, Anke Bellaire, Susanne Kublik, Bärbel U. Foesel, Silvia Gschwendtner, Melina Kerou, Michael Schloter, Wolfram Weckwerth
Software Mentions: 4
Published: over 4 years ago
10.1186/s12866-019-1500-0
Long-read based de novo assembly of low-complexity metagenome samples results in finished genomes and reveals insights into strain diversity and an active phage systemCited by: 101
Author(s): Vincent Somerville, Stefanie Lutz, Michael Schmid, Daniel Frei, Aline Moser, Stefan Irmler, Jürg E. Frey, Christian H. Ahrens
Software Mentions: 4
Published: about 5 years ago
10.1186/s12864-019-6134-y
Complete nontuberculous mycobacteria whole genomes using an optimized DNA extraction protocol for long-read sequencingCited by: 13
Author(s): Jennifer M. Bouso, Paul J. Planet
Software Mentions: 3
Published: almost 5 years ago
10.1099/mgen.0.000085
Comparison of bacterial genome assembly software for MinION data and their applicability to medical microbiologyCited by: 27
Author(s): Kim Judge, Martin Hunt, Sandra Reuter, Alan S. Tracey, Michael A. Quail, Julian Parkhill, Sharon J. Peacock
Software Mentions: 3
Published: almost 8 years ago
10.1128/mSphere.00402-18
The Enterococcus Cassette Chromosome, a Genomic Variation Enabler in EnterococciCited by: 7
Author(s): Audun Sivertsen, Jessin Janice, Torunn Pedersen, Theresa Wagner, Joachim Hegstad, Kristin Hegstad
Software Mentions: 2
Published: over 5 years ago
10.1099/mgen.0.000114
Sharing of carbapenemase-encoding plasmids between Enterobacteriaceae in UK sewage uncovered by MinION sequencingCited by: 23
Author(s): Catherine Ludden, Sandra Reuter, Kim Judge, Theodore Gouliouris, Beth Blane, Francesc Español i Coll, Plamena Naydenova, Martin Hunt, Alan S. Tracey, Katie L. Hopkins, Nicholas M. Brown, Neil Woodford, Julian Parkhill, Sharon J. Peacock
Software Mentions: 2
Published: about 7 years ago
10.7717/peerj.5233
Rapid multi-locus sequence typing direct from uncorrected long reads using <i>Krocus</i>Cited by: 17
Author(s): Andrew J. Page, Jacqueline A. Keane
Software Mentions: 2
Published: about 6 years ago
10.3389/fcimb.2020.00260
Tracing Back the Evolutionary Route of Enteroinvasive Escherichia coli (EIEC) and Shigella Through the Example of the Highly Pathogenic O96:H19 EIEC CloneCited by: 6
Author(s): Valeria Michelacci, Rosangela Tozzoli, Silvia Arancia, Alfio D'Angelo, Arianna Boni, Arnold Knijn, Gianni Prosseda, David R. Greig, Claire Jenkins, Teresa Camou, Alfredo Sirok, Alexandre Guida Navarro, Felipé Schelotto, Gustavo Varela, Stefano Morabito
Software Mentions: 2
Published: over 4 years ago
10.1093/gbe/evz189
Genome Organization and Adaptive Potential of Archetypal Organophosphate Degrading Sphingobium fuliginis ATCC 27551Cited by: 11
Author(s): Sarwar Azam, Sunil Parthasarathy, C.S. Singh, Shakti Kumar, Dayananda Siddavattam
Software Mentions: 1
Published: about 5 years ago
10.1128/genomeA.01330-17
Complete Genome Sequences of Two Plant-Associated Pseudomonas putida Isolates with Increased Heavy-Metal ToleranceCited by: 4
Author(s): Joseph Nesme, Barbara Cania, Urška Zadel, Anne Schöler, Grażyna Płaza, Michael Schloter
Software Mentions: 1
Published: almost 7 years ago
10.3389/fmicb.2020.577658
Analysis Shiga Toxin-Encoding Bacteriophage in a Rare Strain of Shiga Toxin-Producing Escherichia coli O157:H7 stx2a/stx2cCited by: 3
Author(s): David R. Greig, Amy Mikhail, Timothy J. Dallman, Claire Jenkins
Software Mentions: 1
Published: almost 4 years ago
10.3389/fmicb.2017.01272
A Case Study into Microbial Genome Assembly Gap Sequences and Finishing StrategiesCited by: 26
Author(s): Sagar M. Utturkar, Dawn M. Klingeman, Richard A. Hurt, Steven D. Brown
Software Mentions: 1
Published: about 7 years ago