Carla A. Cummins
Wellcome Trust Sanger Institute
12 Papers
Carla A. Cummins is an academic researcher from Wellcome Trust Sanger Institute. The author has contributed to research in topics: Biology & Population. The author has an hindex of 3, co-authored 3 publications.
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Papers
Roary: Rapid large-scale prokaryote pan genome analysis
Andrew J. Page,Carla A. Cummins,Martin Hunt,Vanessa K. Wong,Sandra Reuter,Matthew T. G. Holden,Maria Fookes,Daniel Falush,Jacqueline A. Keane,Julian Parkhill +9 more
TL;DR: Roary, a tool that rapidly builds large-scale pan genomes, identifying the core and accessory genes, is introduced, making construction of the pan genome of thousands of prokaryote samples possible on a standard desktop without compromising on the accuracy of results.
Roary: Rapid large-scale prokaryote pan genome analysis
Andrew J. Page,Carla A. Cummins,Martin Hunt,Vanessa K. Wong,Sandra Reuter,Matthew T. G. Holden,Maria Fookes,Jacqueline A. Keane,Julian Parkhill +8 more
TL;DR: Roary is introduced, a tool that rapidly builds large-scale pan genomes, identifying the core and dispensable accessory genes and making construction of the pan genome of thousands of prokaryote samples possible on a standard desktop without compromising on the accuracy of results.
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The TraDIS toolkit: sequencing and analysis for dense transposon mutant libraries
Lars Barquist,Matthew Mayho,Carla A. Cummins,Amy K. Cain,Christine J. Boinett,Andrew J. Page,Gemma C. Langridge,Michael A. Quail,Jacqueline A. Keane,Julian Parkhill +9 more
TL;DR: An optimized high-yield library preparation and sequencing protocol for TraDIS experiments and a novel software pipeline for analysis of the resulting data are described.
The European Nucleotide Archive in 2022
Josephine Burgin,Alisha Ahamed,Carla A. Cummins,Rajkumar Devraj,K. Gueye,Dipayan Sen Gupta,Vikas Gupta,Muhammad Haseeb,Maira Ihsan,Eugene Ivanov,Suran Jayathilaka,Vishnukumar Balavenkataraman Kadhirvelu,Manish Kumar,Ankur Lathi,Rasko Leinonen,Milena Mansurova,Jasmine McKinnon,Colman O'Cathail,Joana Paupério,Stephane Pesant,Nadim Rahman,Gabriele Rinck,S. Selvakumar,Swati Suman,Senthilnathan Vijayaraja,Zahra Waheed,Peter Woollard,David Yuan,Ahmad M-S Zyoud,Tony Burdett,Guy Cochrane +30 more
TL;DR: The European Nucleotide Archive (ENA) as discussed by the authors is an open and supported platform for the management, archiving, publication, and dissemination of data; and to the scientific community as a whole, it offers a globally comprehensive data set through a host of data discovery and retrieval tools.
The European Nucleotide Archive in 2023.
David Yuan,Alisha Ahamed,Josephine Burgin,Carla A. Cummins,Rajkumar Devraj,Khadim Gueye,Dipayan Sen Gupta,Vikas Gupta,Muhammad Haseeb,Maira Ihsan,Eugene Ivanov,Suran Jayathilaka,Vishnukumar Balavenkataraman Kadhirvelu,Manish Kumar,Ankur Lathi,Rasko Leinonen,Jasmine McKinnon,Lili Meszaros,Colman O'Cathail,Dennis Ouma,Joana Paupério,Stephane Pesant,Nadim Rahman,Gabriele Rinck,S. Selvakumar,Swati Suman,Yanisa Sunthornyotin,Marianna Ventouratou,Senthilnathan Vijayaraja,Zahra Waheed,Peter Woollard,Ahmad M-S Zyoud,Tony Burdett,Guy Cochrane +33 more
TL;DR: Recent progress and improvements to ENA services are described and three areas of work in 2023 are focused upon: FAIRness of ENA data, pandemic preparedness and foundational technology.
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