Updated HIV-1 interaction datasets in Gene


We recently updated the HIV-1 interaction datasets in Gene with data provided by the Southern Research Institute (SRI).

The protein interactions dataset now has:

  • 8,005 interactions,
  • 16,215 interaction descriptions,
  • 3,859 proteins encoded by 3,757 human genes,
  • and 6,822 publications.

The replication interactions dataset now has:

  • 1,595 interactions,
  • 1,854 interaction descriptions,
  • 1,583 proteins encoded by 1,583 human genes,
  • and 229 publications.

Data are also available at the RefSeq HIV-1 website and the GeneRIF FTP site.

September 2017: NCBI to present EDirect workshop at NLM


On September 18, 2017, NCBI staff will offer a workshop on EDirect, NCBI’s suite of programs for easy command line access to literature and biomolecular records. To join the workshop, please register.

NOTE: This is an in-person workshop at the National Library of Medicine on the NIH campus in Bethesda, MD, USA. The course is limited to 22 participants.

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RefSeq Functional Elements now public


NCBI is pleased to announce the initial data release of RefSeq Functional Elements, a resource that provides RefSeq and Gene records for experimentally validated human and mouse non-genic functional elements. Data can be accessed via GeneNucleotideBLASTBioProjectGraphical Displays and FTP.

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Clearing Up Confusion with Human Gene Symbols & Names Using NCBI Gene Data


This blog post is intended for people who refer to gene symbols or names in databases such as Gene, ClinVar, or PubMed. There is a similar post for chemical names and symbols.

During the research and publishing process, scientists need to refer to their genes-of-interest. However, different labs sometimes use different gene symbols to refer to the same gene. As you can imagine, this leads to confusion.

To standardize the use of terms, the HUGO Gene Nomenclature Committee (HGNC) sets official gene symbols and names. The NCBI Gene resource reports these official gene symbols and names, as well as additional symbols and names that are included on related sequence records for the same gene or from submitted GeneRIFs.

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