Literature DB >> 30311387

ClinVar at five years: Delivering on the promise.

Melissa J Landrum1, Brandi L Kattman1.   

Abstract

The increasing application of genetic testing for determining the causes underlying Mendelian, pharmacogenetic, and somatic phenotypes has accelerated the discovery of novel variants by clinical genetics laboratories, resulting in a critical need for interpreting the significance of these variants and presenting considerable challenges. Launched in 2013 at the National Center for Biotechnology Information, National Institutes of Health, ClinVar is a public database for clinical laboratories, researchers, expert panels, and others to share their interpretations of variants with their evidence. The database holds 600,000 submitted records from 1,000 submitters, representing 430,000 unique variants. ClinVar encourages submissions of variants reviewed by expert panels, as expert consensus confers a high standard. Aggregating data from many groups in a single database allows comparison of interpretations, providing transparency into the concordance or discordance of interpretations. In its first five years, ClinVar has successfully provided a gateway for the submission of medically relevant variants and interpretations of their significance to disease. It has become an invaluable resource for the clinical genetics community seeking guidance from consensus interpretations. Building on the platform of providing transparency and leveraging aggregation of variant interpretations, ClinVar is now well positioned to help the clinical genetics community improve interpretations. © Published 2018. This article is a U.S. Government work and is in the public domain in the USA.

Keywords:  ClinVar; bioinformatics; clinical genetics; database; genetic testing; medical genetics; variant interpretation

Mesh:

Year:  2018        PMID: 30311387     DOI: 10.1002/humu.23641

Source DB:  PubMed          Journal:  Hum Mutat        ISSN: 1059-7794            Impact factor:   4.878


  60 in total

1.  Machine learning-based reclassification of germline variants of unknown significance: The RENOVO algorithm.

Authors:  Valentina Favalli; Giulia Tini; Emanuele Bonetti; Gianluca Vozza; Alessandro Guida; Sara Gandini; Pier Giuseppe Pelicci; Luca Mazzarella
Journal:  Am J Hum Genet       Date:  2021-03-23       Impact factor: 11.025

2.  Integrating Genomics into Healthcare: A Global Responsibility.

Authors:  Zornitza Stark; Lena Dolman; Teri A Manolio; Brad Ozenberger; Sue L Hill; Mark J Caulfied; Yves Levy; David Glazer; Julia Wilson; Mark Lawler; Tiffany Boughtwood; Jeffrey Braithwaite; Peter Goodhand; Ewan Birney; Kathryn N North
Journal:  Am J Hum Genet       Date:  2019-01-03       Impact factor: 11.025

3.  Assessment of blind predictions of the clinical significance of BRCA1 and BRCA2 variants.

Authors:  Melissa S Cline; Giulia Babbi; Sandra Bonache; Yue Cao; Rita Casadio; Xavier de la Cruz; Orland Díez; Sara Gutiérrez-Enríquez; Panagiotis Katsonis; Carmen Lai; Olivier Lichtarge; Pier L Martelli; Gilad Mishne; Alejandro Moles-Fernández; Gemma Montalban; Sean D Mooney; Robert O'Conner; Lars Ootes; Selen Özkan; Natalia Padilla; Kymberleigh A Pagel; Vikas Pejaver; Predrag Radivojac; Casandra Riera; Castrense Savojardo; Yang Shen; Yuanfei Sun; Scott Topper; Michael T Parsons; Amanda B Spurdle; David E Goldgar
Journal:  Hum Mutat       Date:  2019-08-23       Impact factor: 4.878

4.  Prediction of impacts of mutations on protein structure and interactions: SDM, a statistical approach, and mCSM, using machine learning.

Authors:  Arun Prasad Pandurangan; Tom L Blundell
Journal:  Protein Sci       Date:  2019-11-25       Impact factor: 6.725

5.  ClinVar: improvements to accessing data.

Authors:  Melissa J Landrum; Shanmuga Chitipiralla; Garth R Brown; Chao Chen; Baoshan Gu; Jennifer Hart; Douglas Hoffman; Wonhee Jang; Kuljeet Kaur; Chunlei Liu; Vitaly Lyoshin; Zenith Maddipatla; Rama Maiti; Joseph Mitchell; Nuala O'Leary; George R Riley; Wenyao Shi; George Zhou; Valerie Schneider; Donna Maglott; J Bradley Holmes; Brandi L Kattman
Journal:  Nucleic Acids Res       Date:  2020-01-08       Impact factor: 16.971

6.  Integrating structural and evolutionary data to interpret variation and pathogenicity in adapter protein complex 4.

Authors:  John E Gadbery; Abin Abraham; Carli D Needle; Christopher Moth; Jonathan Sheehan; John A Capra; Lauren P Jackson
Journal:  Protein Sci       Date:  2020-04-25       Impact factor: 6.725

Review 7.  A Systematic Literature Review of Whole Exome and Genome Sequencing Population Studies of Genetic Susceptibility to Cancer.

Authors:  Alisa M Goldstein; Elizabeth M Gillanders; Melissa Rotunno; Rolando Barajas; Mindy Clyne; Elise Hoover; Naoko I Simonds; Tram Kim Lam; Leah E Mechanic
Journal:  Cancer Epidemiol Biomarkers Prev       Date:  2020-05-28       Impact factor: 4.254

Review 8.  The Clinical Pharmacogenetics Implementation Consortium: 10 Years Later.

Authors:  Mary V Relling; Teri E Klein; Roseann S Gammal; Michelle Whirl-Carrillo; James M Hoffman; Kelly E Caudle
Journal:  Clin Pharmacol Ther       Date:  2019-11-05       Impact factor: 6.875

9.  Radiation Treatment, ATM, BRCA1/2, and CHEK2*1100delC Pathogenic Variants and Risk of Contralateral Breast Cancer.

Authors:  Anne S Reiner; Mark E Robson; Lene Mellemkjær; Marc Tischkowitz; Esther M John; Charles F Lynch; Jennifer D Brooks; John D Boice; Julia A Knight; Sharon N Teraoka; Xiaolin Liang; Meghan Woods; Ronglai Shen; Roy E Shore; Daniel O Stram; Duncan C Thomas; Kathleen E Malone; Leslie Bernstein; Nadeem Riaz; Wendy Woodward; Simon Powell; David Goldgar; Patrick Concannon; Jonine L Bernstein
Journal:  J Natl Cancer Inst       Date:  2020-12-14       Impact factor: 13.506

Review 10.  A pediatric perspective on genomics and prevention in the twenty-first century.

Authors:  Bimal P Chaudhari; Kandamurugu Manickam; Kim L McBride
Journal:  Pediatr Res       Date:  2019-10-02       Impact factor: 3.756

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