Literature DB >> 33152070

Genenames.org: the HGNC and VGNC resources in 2021.

Susan Tweedie1, Bryony Braschi1, Kristian Gray1, Tamsin E M Jones1, Ruth L Seal1,2, Bethan Yates1, Elspeth A Bruford1,2.   

Abstract

The HUGO Gene Nomenclature Committee (HGNC) based at EMBL's European Bioinformatics Institute (EMBL-EBI) assigns unique symbols and names to human genes. There are over 42,000 approved gene symbols in our current database of which over 19 000 are for protein-coding genes. While we still update placeholder and problematic symbols, we are working towards stabilizing symbols where possible; over 2000 symbols for disease associated genes are now marked as stable in our symbol reports. All of our data is available at the HGNC website https://www.genenames.org. The Vertebrate Gene Nomenclature Committee (VGNC) was established to assign standardized nomenclature in line with human for vertebrate species lacking their own nomenclature committee. In addition to the previous VGNC core species of chimpanzee, cow, horse and dog, we now name genes in cat, macaque and pig. Gene groups have been added to VGNC and currently include two complex families: olfactory receptors (ORs) and cytochrome P450s (CYPs). In collaboration with specialists we have also named CYPs in species beyond our core set. All VGNC data is available at https://vertebrate.genenames.org/. This article provides an overview of our online data and resources, focusing on updates over the last two years.
© The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research.

Entities:  

Year:  2021        PMID: 33152070      PMCID: PMC7779007          DOI: 10.1093/nar/gkaa980

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  33 in total

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2.  The GeneCards Suite: From Gene Data Mining to Disease Genome Sequence Analyses.

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Journal:  Curr Protoc Bioinformatics       Date:  2016-06-20

3.  Structure of 4-diphosphocytidyl-2-C- methylerythritol synthetase involved in mevalonate- independent isoprenoid biosynthesis.

Authors:  S B Richard; M E Bowman; W Kwiatkowski; I Kang; C Chow; A M Lillo; D E Cane; J P Noel
Journal:  Nat Struct Biol       Date:  2001-07

4.  Mouse Genome Database (MGD) 2019.

Authors:  Carol J Bult; Judith A Blake; Cynthia L Smith; James A Kadin; Joel E Richardson
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

5.  FAIRsharing as a community approach to standards, repositories and policies.

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6.  UCSC Genome Browser enters 20th year.

Authors:  Christopher M Lee; Galt P Barber; Jonathan Casper; Hiram Clawson; Mark Diekhans; Jairo Navarro Gonzalez; Angie S Hinrichs; Brian T Lee; Luis R Nassar; Conner C Powell; Brian J Raney; Kate R Rosenbloom; Daniel Schmelter; Matthew L Speir; Ann S Zweig; David Haussler; Maximilian Haeussler; Robert M Kuhn; W James Kent
Journal:  Nucleic Acids Res       Date:  2020-01-08       Impact factor: 16.971

7.  Ensembl 2020.

Authors:  Andrew D Yates; Premanand Achuthan; Wasiu Akanni; James Allen; Jamie Allen; Jorge Alvarez-Jarreta; M Ridwan Amode; Irina M Armean; Andrey G Azov; Ruth Bennett; Jyothish Bhai; Konstantinos Billis; Sanjay Boddu; José Carlos Marugán; Carla Cummins; Claire Davidson; Kamalkumar Dodiya; Reham Fatima; Astrid Gall; Carlos Garcia Giron; Laurent Gil; Tiago Grego; Leanne Haggerty; Erin Haskell; Thibaut Hourlier; Osagie G Izuogu; Sophie H Janacek; Thomas Juettemann; Mike Kay; Ilias Lavidas; Tuan Le; Diana Lemos; Jose Gonzalez Martinez; Thomas Maurel; Mark McDowall; Aoife McMahon; Shamika Mohanan; Benjamin Moore; Michael Nuhn; Denye N Oheh; Anne Parker; Andrew Parton; Mateus Patricio; Manoj Pandian Sakthivel; Ahamed Imran Abdul Salam; Bianca M Schmitt; Helen Schuilenburg; Dan Sheppard; Mira Sycheva; Marek Szuba; Kieron Taylor; Anja Thormann; Glen Threadgold; Alessandro Vullo; Brandon Walts; Andrea Winterbottom; Amonida Zadissa; Marc Chakiachvili; Bethany Flint; Adam Frankish; Sarah E Hunt; Garth IIsley; Myrto Kostadima; Nick Langridge; Jane E Loveland; Fergal J Martin; Joannella Morales; Jonathan M Mudge; Matthieu Muffato; Emily Perry; Magali Ruffier; Stephen J Trevanion; Fiona Cunningham; Kevin L Howe; Daniel R Zerbino; Paul Flicek
Journal:  Nucleic Acids Res       Date:  2020-01-08       Impact factor: 16.971

8.  The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species.

Authors:  Kent A Shefchek; Nomi L Harris; Michael Gargano; Nicolas Matentzoglu; Deepak Unni; Matthew Brush; Daniel Keith; Tom Conlin; Nicole Vasilevsky; Xingmin Aaron Zhang; James P Balhoff; Larry Babb; Susan M Bello; Hannah Blau; Yvonne Bradford; Seth Carbon; Leigh Carmody; Lauren E Chan; Valentina Cipriani; Alayne Cuzick; Maria Della Rocca; Nathan Dunn; Shahim Essaid; Petra Fey; Chris Grove; Jean-Phillipe Gourdine; Ada Hamosh; Midori Harris; Ingo Helbig; Maureen Hoatlin; Marcin Joachimiak; Simon Jupp; Kenneth B Lett; Suzanna E Lewis; Craig McNamara; Zoë M Pendlington; Clare Pilgrim; Tim Putman; Vida Ravanmehr; Justin Reese; Erin Riggs; Sofia Robb; Paola Roncaglia; James Seager; Erik Segerdell; Morgan Similuk; Andrea L Storm; Courtney Thaxon; Anne Thessen; Julius O B Jacobsen; Julie A McMurry; Tudor Groza; Sebastian Köhler; Damian Smedley; Peter N Robinson; Christopher J Mungall; Melissa A Haendel; Monica C Munoz-Torres; David Osumi-Sutherland
Journal:  Nucleic Acids Res       Date:  2020-01-08       Impact factor: 16.971

9.  The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces.

Authors:  Adrian M Altenhoff; Natasha M Glover; Clément-Marie Train; Klara Kaleb; Alex Warwick Vesztrocy; David Dylus; Tarcisio M de Farias; Karina Zile; Charles Stevenson; Jiao Long; Henning Redestig; Gaston H Gonnet; Christophe Dessimoz
Journal:  Nucleic Acids Res       Date:  2018-01-04       Impact factor: 16.971

10.  The Year of the Rat: The Rat Genome Database at 20: a multi-species knowledgebase and analysis platform.

Authors:  Jennifer R Smith; G Thomas Hayman; Shur-Jen Wang; Stanley J F Laulederkind; Matthew J Hoffman; Mary L Kaldunski; Monika Tutaj; Jyothi Thota; Harika S Nalabolu; Santoshi L R Ellanki; Marek A Tutaj; Jeffrey L De Pons; Anne E Kwitek; Melinda R Dwinell; Mary E Shimoyama
Journal:  Nucleic Acids Res       Date:  2020-01-08       Impact factor: 16.971

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  66 in total

1.  RNAInter v4.0: RNA interactome repository with redefined confidence scoring system and improved accessibility.

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Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

2.  Overexpression of melanoma-associated antigen A2 has a clinical significance in embryonal carcinoma and is associated with tumor progression.

Authors:  Leili Saeednejad Zanjani; Monireh Mohsenzadegan; Mahdieh Razmi; Fahimeh Fattahi; Elham Kalantari; Maryam Abolhasani; Sima Saki; Zahra Madjd
Journal:  J Cancer Res Clin Oncol       Date:  2021-11-27       Impact factor: 4.553

Review 3.  RNA binding motif 47 (RBM47): emerging roles in vertebrate development, RNA editing and cancer.

Authors:  Pavan Kumar Mysuru Shivalingappa; Vaishali Sharma; Anjali Shiras; Sharmila A Bapat
Journal:  Mol Cell Biochem       Date:  2021-09-09       Impact factor: 3.396

Review 4.  Nano-omics: nanotechnology-based multidimensional harvesting of the blood-circulating cancerome.

Authors:  Lois Gardner; Kostas Kostarelos; Parag Mallick; Caroline Dive; Marilena Hadjidemetriou
Journal:  Nat Rev Clin Oncol       Date:  2022-06-23       Impact factor: 65.011

5.  An Integrated Bioinformatics Analysis towards the Identification of Diagnostic, Prognostic, and Predictive Key Biomarkers for Urinary Bladder Cancer.

Authors:  Michail Sarafidis; George I Lambrou; Vassilis Zoumpourlis; Dimitrios Koutsouris
Journal:  Cancers (Basel)       Date:  2022-07-10       Impact factor: 6.575

6.  Using FlyBase: A Database of Drosophila Genes and Genetics.

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7.  HumanMine: advanced data searching, analysis and cross-species comparison.

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Journal:  Database (Oxford)       Date:  2022-07-12       Impact factor: 4.462

8.  miRSM: an R package to infer and analyse miRNA sponge modules in heterogeneous data.

Authors:  Junpeng Zhang; Lin Liu; Taosheng Xu; Wu Zhang; Chunwen Zhao; Sijing Li; Jiuyong Li; Nini Rao; Thuc Duy Le
Journal:  RNA Biol       Date:  2021-04-06       Impact factor: 4.652

9.  KEGG mapping tools for uncovering hidden features in biological data.

Authors:  Minoru Kanehisa; Yoko Sato; Masayuki Kawashima
Journal:  Protein Sci       Date:  2021-08-26       Impact factor: 6.725

10.  Identification of Variants Associated With Rare Hematological Disorder Erythrocytosis Using Targeted Next-Generation Sequencing Analysis.

Authors:  Aleša Kristan; Tadej Pajič; Aleš Maver; Tadeja Režen; Tanja Kunej; Rok Količ; Andrej Vuga; Martina Fink; Špela Žula; Helena Podgornik; Saša Anžej Doma; Irena Preložnik Zupan; Damjana Rozman; Nataša Debeljak
Journal:  Front Genet       Date:  2021-07-19       Impact factor: 4.599

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