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Table_S1 - Datasets
Datasets used in the main statistical analyses of the study. Details of column headings : gene : Ensembl accession number (human); Species; labs : Species+Chromosome; chrMark : X or Autosomes; chr : Chromosome number; dN : Number of nonsynonymous substitutions; dS: Number of synonymous substitutions , dNdS : ratio of dN/dS; RPKM : Expression level in Reads Per Kilobase per Million sequenced Reads; Tau : Expression specificity, GC3 : GC content of the third codon position
Table_S1.csv
Alignments
Alignments were obtained from ORTHOMAM v6 (http://www.orthomam.univ-montp2.fr/) and then cleaned using Gblocks (see materials and methods for details). Alignment names correspond to Ensembl accession number and match the datasets (Table_S1).
omm_DNA_fasta.36tax_CDS.gblocks.zip
", "type": { "id": "notes", "title": { "de": "Anmerkungen", "en": "Notes" } } } ], "creators": [ { "affiliations": [ { "name": "University of Montpellier" } ], "person_or_org": { "family_name": "Nguyen", "given_name": "Linh-Phuong", "name": "Nguyen, Linh-Phuong", "type": "personal" } }, { "affiliations": [ { "name": "University of Montpellier" } ], "person_or_org": { "family_name": "Galtier", "given_name": "Nicolas", "name": "Galtier, Nicolas", "type": "personal" } }, { "affiliations": [ { "name": "University of Montpellier" } ], "person_or_org": { "family_name": "Nabholz", "given_name": "Benoit", "name": "Nabholz, Benoit", "type": "personal" } }, { "affiliations": [ { "name": "University of Montpellier" } ], "person_or_org": { "family_name": "Nguyen", "given_name": "L.-P.", "name": "Nguyen, L.-P.", "type": "personal" } } ], "description": "The higher rate of non-synonymous over synonymous substitutions (dN/dS) of the X chromosome compared with autosomes is often interpreted as a consequence of X hemizygosity. However, other factors, such as gene expression, are also known to vary between X and autosomes. Analysing 4800 orthologues in six mammals, we found that gene expression levels, associated with GC content, fully account for the variation in dN/dS between X and autosomes with no detectable effect of hemizygosity. We also report an extensive variance in dN/dS and gene expression between autosomes.", "publication_date": "2015-01-27", "publisher": "Zenodo", "related_identifiers": [ { "identifier": "10.1098/rsbl.2015.0010", "relation_type": { "id": "iscitedby", "title": { "de": "Wird zitiert von", "en": "Is cited by" } }, "scheme": "doi" } ], "resource_type": { "id": "dataset", "title": { "de": "Datensatz", "en": "Dataset" } }, "rights": [ { "description": { "en": "CC0 waives copyright interest in a work you've created and dedicates it to the world-wide public domain. Use CC0 to opt out of copyright entirely and ensure your work has the widest reach." }, "icon": "cc-cc0-icon", "id": "cc0-1.0", "props": { "scheme": "spdx", "url": "https://creativecommons.org/publicdomain/zero/1.0/legalcode" }, "title": { "en": "Creative Commons Zero v1.0 Universal" } } ], "subjects": [ { "subject": "Synonymous substitutions" }, { "subject": "Hemizygosity" }, { "subject": "X chromosome" }, { "subject": "Fast-X" }, { "subject": "Non-synonymous substitutions" } ], "title": "Data from: Gene expression, chromosome heterogeneity and the fast-X effect in mammals" }, "parent": { "access": { "owned_by": { "user": "90070" } }, "communities": { "default": "734b6452-1f40-4db0-b218-08ab1d568b7f", "entries": [ { "access": { "member_policy": "open", "members_visibility": "public", "record_submission_policy": "open", "review_policy": "open", "visibility": "public" }, "children": { "allow": false }, "created": "2020-02-04T14:03:17.992421+00:00", "custom_fields": {}, "deletion_status": { "is_deleted": false, "status": "P" }, "id": "734b6452-1f40-4db0-b218-08ab1d568b7f", "links": {}, "metadata": { "curation_policy": "

The Dryad collection in Zenodo contains datasets mirrored from the Dryad Digital Repository. If you want your dataset to appear here, submit it through https://datadryad.org. No other datasets will be accepted.

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Dryad is a community-governed open data publishing and curation repository. Through Dryad and Zenodo's partnership, Zenodo hosts a preservation copy of Dryad datasets, available through this Zenodo Community. For more information or to access the original published datasets, visit https://datadryad.org.

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