FlyBase:Reference Report

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Last Updated: May 2015

The Reference Report includes the bibliographic citation, abstract, external IDs (PubMed, PubMed Central, DOI), and links to FlyBase Report pages containing data curated from the reference, where applicable.

Reference

Citation The bibliographic citation for the reference. The exact content of this field differs depending on publication type but, where applicable, the information is in the following order: authors (surname. initial), year, title, publication details (e.g. abbreviated journal name, volume and issue number), page range/article number/URL.

For many journal articles, the citation includes a hyperlink to the relevant webpage on the journal's server.

Clicking on the 'Export to RIS’ link at the end of each citation downloads a tagged text file of citation data that can be imported into any standard reference manager.

FlyBase ID The unique FlyBase identifier for the reference (FBrf number).
Publication Type Term from the the publication class section of the FlyBase Controlled Vocabulary, hyperlinked to the respective FlyBase 'Term Report'.
Abstract The abstract of the reference, usually obtained from PubMed.
PubMed ID The PubMed identification (PMID) number for the reference, where available, hyperlinked to the relevant page for the reference on the PubMed server.
PubMed Central ID The PubMed Central identification (PMCID) number for the reference, where available. Hyperlinks are provided both for NCBI PubMed Central and Europe PubMed Central.
DOI The Digital Object Identifier for the reference, if available, hyperlinked to the relevant webpage on the journal's server.
ISBN The 'International Standard Book Number' (ISBN) applies only to references of the publication type 'book'. It is a unique number which is widely used to catalogue and search for books. This subsection is only present if it has content.
Text of Personal Communication The text of a 'personal communication to FlyBase' will appear here, if available. If unavailable, the message 'Paper copy archived' will be shown and users can contact FlyBase for a copy. This subsection is only present if it has content. Any files that accompany the personal communication will be displayed in the Associated Files subsection of the Associated Information section.

Related Publication(s)

This section lists any references in FlyBase that are directly linked to the subject of the current Reference Report. Common examples of related publication types are:

  • research paper and supplementary material
  • research paper and erratum
  • research paper and commentary ('note')
  • research paper and personal communication to FlyBase

The publication type of the related reference is given in the left-hand column and the citation of the reference is provided in the right-hand column, along with its FlyBase ID, which is hyperlinked to the Reference Report of that publication.

Recent Updates

This section lists objects (e.g., genes, alleles, transgenic constructs) that were associated with the reference in each FlyBase release. It currently only tracks new links and not links that were removed.

Associated Information

Comments Used by FlyBase to provide comments about the content of a reference. This field is blank in most cases, but is often filled in for references of the type 'FlyBase analysis'.
Associated Files The names of, and links to, any files that accompany the subject of the Reference Report (usually a personal communication) but are not in text format and so cannot be displayed in situ (e.g. spreadsheets, images). Entries are of the format "File date; File size; File format; File name".

Other Information

Secondary IDs A list of secondary FlyBase identifier numbers of the reference, if present. If a reference has a secondary identifier number, it generally indicates that duplicate entries have been merged in the database.
Language of Publication The language in which the main text (i.e. the non-abstract sections) of the publication is written. (See the publication language section of the FlyBase Controlled Vocabulary for a full listing of publication languages used in FlyBase.)
Additional Languages of Abstract The abstract of a publication is sometimes provided in more than one language, even when the main text of the paper is in a single language. The additional language(s) of such abstracts are listed here.
Also Published As If the subject of the Reference Report also exists as a distinct publication in a different format (e.g. a different language) and/or in a different journal, then they will be listed here. The publication type and the citation of the other reference are shown, along with its primary FlyBase identifier number which is hyperlinked to its associated Reference Report.

Parent Publication

Most references in FlyBase are not stand-alone publications, but are published within a 'parent publication' - usually a journal or an edited book. Details on the parent publication of the subject of the Reference Report are given in this section.

Publication Type Either 'journal', 'book', or the catch-all term 'compendium', taken from the publication class section of the FlyBase Controlled Vocabulary, and hyperlinked to the respective FlyBase 'Term Report'.
Abbreviation The FlyBase abbreviation for the parent publication, used where the reference is cited in the Citation section of the Reference Report and in the References section of other Reports. Journal abbreviations usually mirror those used at PubMed.
Title The full title of the parent publication.
Editors The editors where the parent publication is an edited book. Names are listed in the format "surname. initial". This subsection is only present if it has content.
Publication Year The year in which an edited book was published, or the years of publication of a journal (only shown for older journals). This subsection is only present if it has content.
ISBN/ISSN The International Standard Book Number (ISBN) where the parent publication is an edited book, or one or more International Standard Serial Numbers (ISSN) where the parent publication is a journal. These are unique numbers that are widely used to catalogue and search for books and journals.

Data from Reference

This section provides a list of genetic objects (genes, alleles, aberrations, transgenic constructs etc.) that have been curated from the reference, each hyperlinked to their respective Report page. Genetic objects are organized into subsections according to type and presented in alphabetical order. Subsections are only present where relevant data has been curated, meaning that this entire section will be blank for uncurated references, or will only have a 'Genes' subsection if that is the only date type curated.