Reference health

Automated assembly of a reference taxonomy for phylogenetic data synthesis

https://doi.org/10.1101/116418
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13/13 checkable references clean · checked 2026-08-23

Every reference with a DOI in the deposited reference list resolved to a known work in Crossref or DataCite at the dated check, and none carried a retraction, withdrawal, or removal notice.

10 without a DOI — not checked. A reference deposited without a DOI is never matched by title or guessed at; it stays outside the checked set, and this line discloses that.

The 13 checked references that resolve
resolves10.1641/0006-3568(2004)054[0486:RASBOT]2.0.CO;2
Research and Societal Benefits of the Global Biodiversity Information Facility
resolves10.3897/rio.2.e10610
Controlling the taxonomic variable: Taxonomic concept resolution for a southeastern United States herbarium portal
resolves10.1016/j.mycres.2007.03.004
A higher-level phylogenetic classification of the Fungi
resolves10.1073/pnas.1423041112
Synthesis of phylogeny and taxonomy into a comprehensive tree of life
resolves10.1093/bib/bbn022
Biodiversity informatics: the challenge of linking data and the role of shared identifiers
resolves10.3897/BDJ.2.e1079
The Encyclopedia of Life v2: Providing Global Access to Knowledge About Life on Earth
resolves10.3897/BDJ.4.e8080
Challenges with using names to link digital biodiversity information
resolves10.1186/1756-0500-7-79
Scientific names of organisms: attribution, rights, and licensing
resolves10.1093/nar/gks1219
The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
resolves10.7717/peerj.3058
A supertree pipeline for summarizing phylogenetic and taxonomic information for millions of species
resolves10.1186/1471-2148-10-352
Towards resolving Lamiales relationships: insights from rapidly evolving chloroplast sequences
resolves10.11646/bionomina.4.1.3
The problem of hemihomonyms and the on-line hemihomonyms database (HHDB)
resolves10.1371/journal.pone.0029715
Darwin Core: An Evolving Community-Developed Biodiversity Data Standard
The 10 references without a DOI — listed, not checked
no DOI — not checkedDöring M (2016a) Updating the GBIF Backbone. GBIF Developer Blog URL: http://gbif.blogspot.com/2016/04/updating-gbif-backbone.html
no DOI — not checkedDöring M (2016b) GBIF Backbone - August 2016 Update. GBIF Developer Blog URL: http://gbif.blogspot.com/2016/08/gbif-backbone-august-2016-update.html
no DOI — not checkedThe NCBI Taxonomy database
no DOI — not checkedIndex Fungorum Partnership (2014a) Index Fungorum. http://www.indexfungorum.org. Accessed on: 2014-4-07.
no DOI — not checkedIndex Fungorum Partnership (2014b) Index Fungorum. URL: http://www.indexfungorum.org
no DOI — not checkedInternational Union for Conservation of Nature and Natural Resources (2016) The IUCN Red List of Threatened Species, version 2016-3. http://www.iucnredlist.org/. Accessed on: 2017-3-01.
no DOI — not checkedOlsen G (1990) Interpretation of the “Newick’s 8:45” tree format standard. http://evolution.genetics.washington.edu/phylip/newick_doc.html. Accessed on: 2017-3-01.
no DOI — not checkedRees T (2008) IRMNG –-- The Interim Register of Marine and Nonmarine Genera. Provisional Abstracts of the 2008 Annual Conference of the Taxonomic Databases Working Group.Biodiversity Information Standards (TDWG) and the Missouri Botanical Garden URL: http://www.tdwg.org/fileadmin/2008conference/documents/Proceedings2008.pdf#page=72
no DOI — not checkedRoskov Y , L A, T O, D N, C F, N B, P K, T B, DeWalt RE , W D, A. eDW (2016) Species 2000 & ITIS Catalogue of Life, 2016 Annual Checklist..
no DOI — not checkedWoRMS Editorial Board (2015) World Register of Marine Species. http://www.marinespecies.org. Accessed on: 2015-10-01.
What this badge says. CiteStamped means the CHECKABLE references of this work were clean at the dated check: each resolved to a known work in a public registry, and none carried a retraction notice at that time. It says nothing about the quality, findings, or importance of the work itself, and nothing about references deposited without a DOI.

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