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Depositordc.contributorBarker, Daniel
Funderdc.contributor.otherUniversity of Edinburghen_UK
Data Creatordc.creatorMcGill, Susan
Data Creatordc.creatorBarker, Daniel
Date Accessioneddc.date.accessioned2017-06-13T09:54:50Z
Date Availabledc.date.available2017-06-13T09:54:50Z
Citationdc.identifier.citationMcGill, Susan; Barker, Daniel. (2017). Additional files for 'Comparison of the protein-coding genomes of three deep-sea, sulfur-oxidising bacteria: "Candidatus Ruthia magnifica", "Candidatus Vesicomyosocius okutanii" and Thiomicrospira crunogena', [dataset]. https://doi.org/10.7488/ds/2065.en
Persistent Identifierdc.identifier.urihttp://hdl.handle.net/10283/2734
Persistent Identifierdc.identifier.urihttps://doi.org/10.7488/ds/2065
Dataset Description (abstract)dc.description.abstractGenome-wide protein sets input to OrthoMCL, OrthoMCL output, Perl script to count cross-species occurence of OrthoMCL groups, and output of Perl script, as used by McGill and Barker (2017, BMC Research Notes 10:296, doi:10.1186/s13104-017-2598-5).en_UK
Dataset Description (TOC)dc.description.tableofcontents* fasta_files.zip: Genome-wide protein sets, in FASTA format, for "Candidatus Ruthia magnifica" strain Cm (magnificapep.fa), "Candidatus Vesicomyosocius okutanii" HA (okutaniipep.fa) and Thiomicrospira crunogena XCL-2 (crunogenapep.fa). These files were downloaded from the Ensembl Genomes database (http://ensemblgenomes.org). * group_count.zip: - groups_1.4.txt is a text file containing output of OrthoMCL for the three protein sets in fasta_files.zip, with an OrthoMCL inflation parameter of 1.4. Taxon abbreviations are MAG ("Candidatus Ruthia magnifica"), CRU ("Candidatus Ruthia magnifica") and OKU ("Candidatus Vesicomyosocius okutanii"). - group_count_script.pl is the Perl script used to post-process OrthoMCL output, counting groups across the three taxa. - groups1.4_output.txt is a text file, containing the final output of group_count_script.pl.en_UK
Languagedc.language.isoengen_UK
Relation (Is Referenced By)dc.relation.isreferencedbyhttps://doi.org/10.1186/s13104-017-2598-5
Relation (Is Referenced By)dc.relation.isreferencedbyMcGill, S & Barker, D 2017, 'Comparison of the protein-coding genomes of three deep-sea, sulfur-oxidising bacteria: “Candidatus Ruthia magnifica”, “Candidatus Vesicomyosocius okutanii” and Thiomicrospira crunogena' BMC Research Notes, vol. 10, no. 296. DOI: 10.1186/s13104-017-2598-5
Rightsdc.rightsCopyright and related rights waived via CC0 1.0 Public Domain Dedication (http://creativecommons.org/publicdomain/zero/1.0).en
Sourcedc.sourceGenome-wide protein sets were downloaded from Ensembl Genomes (http://ensemblgenomes.org).en_UK
Subjectdc.subject"Candidatus Ruthia magnifica"en_UK
Subjectdc.subject"Candidatus Vesicomyosocius okutanii"en_UK
Subjectdc.subjectThiomicrospira crunogenaen_UK
Subjectdc.subjectsulfur-oxidising bacteriaen_UK
Subjectdc.subjectRaspberry Pien_UK
Subjectdc.subjectOrthoMCLen_UK
Subjectdc.subjectcomparative genomicsen_UK
Subjectdc.subjectparalogsen_UK
Subjectdc.subjectorthologsen_UK
Subject Classificationdc.subject.classificationBiological Sciencesen_UK
Titledc.titleAdditional files for 'Comparison of the protein-coding genomes of three deep-sea, sulfur-oxidising bacteria: "Candidatus Ruthia magnifica", "Candidatus Vesicomyosocius okutanii" and Thiomicrospira crunogena'en_UK
Typedc.typedataseten_UK

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