Literature DB >> 24387988

Annotating DNA variants is the next major goal for human genetics.

Garry R Cutting1.   

Abstract

Clinical genetic testing has undergone a dramatic transformation in the past two decades. Diagnostic laboratories that previously tested for well-established disease-causing DNA variants in a handful of genes have evolved into sequencing factories identifying thousands of variants of known and unknown medical consequence. Sorting out what does and does not cause disease in our genomes is the next great challenge in making genetics a central feature of healthcare. I propose that closing the gap in our ability to interpret variation responsible for Mendelian disorders provides a grand and unprecedented opportunity for geneticists. Human geneticists are well placed to coordinate a systematic evaluation of variants in collaboration with basic scientists and clinicians. Sharing of knowledge, data, methods, and tools will aid both researchers and healthcare workers in achieving their common goal of defining the pathogenic potential of variants. Generation of variant annotations will inform genetic testing and will deepen our understanding of gene and protein function, thereby aiding the search for molecular targeted therapies.
Copyright © 2014 The American Society of Human Genetics. Published by Elsevier Inc. All rights reserved.

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Year:  2014        PMID: 24387988      PMCID: PMC3882730          DOI: 10.1016/j.ajhg.2013.12.008

Source DB:  PubMed          Journal:  Am J Hum Genet        ISSN: 0002-9297            Impact factor:   11.025


  53 in total

1.  Triallelic inheritance: a bridge between Mendelian and multifactorial traits.

Authors:  Erica R Eichers; Richard Alan Lewis; Nicholas Katsanis; James R Lupski
Journal:  Ann Med       Date:  2004       Impact factor: 4.709

2.  Protein-protein interaction sites are hot spots for disease-associated nonsynonymous SNPs.

Authors:  Alessia David; Rozami Razali; Mark N Wass; Michael J E Sternberg
Journal:  Hum Mutat       Date:  2011-12-27       Impact factor: 4.878

3.  Microattribution and nanopublication as means to incentivize the placement of human genome variation data into the public domain.

Authors:  George P Patrinos; David N Cooper; Erik van Mulligen; Vassiliki Gkantouna; Giannis Tzimas; Zuotian Tatum; Erik Schultes; Marco Roos; Barend Mons
Journal:  Hum Mutat       Date:  2012-07-23       Impact factor: 4.878

4.  Open to interpretation.

Authors: 
Journal:  Nat Biotechnol       Date:  2013-08       Impact factor: 54.908

Review 5.  Needles in stacks of needles: finding disease-causal variants in a wealth of genomic data.

Authors:  Gregory M Cooper; Jay Shendure
Journal:  Nat Rev Genet       Date:  2011-08-18       Impact factor: 53.242

Review 6.  Deep phenotyping for precision medicine.

Authors:  Peter N Robinson
Journal:  Hum Mutat       Date:  2012-05       Impact factor: 4.878

7.  Human Variome Project country nodes: documenting genetic information within a country.

Authors:  George P Patrinos; Timothy D Smith; Heather Howard; Fahd Al-Mulla; Lotfi Chouchane; Andreas Hadjisavvas; Sherifa A Hamed; Xi-Tao Li; Makia Marafie; Rajkumar S Ramesar; Feliciano J Ramos; Thomy de Ravel; Mona O El-Ruby; Tilak Ram Shrestha; María-Jesús Sobrido; Ghazi Tadmouri; Martina Witsch-Baumgartner; Bin Alwi Zilfalil; Arleen D Auerbach; Kevin Carpenter; Garry R Cutting; Vu Chi Dung; Wayne Grody; Julia Hasler; Lynn Jorde; Jim Kaput; Milan Macek; Yoichi Matsubara; Carmancita Padilla; Helen Robinson; Augusto Rojas-Martinez; Graham R Taylor; Mauno Vihinen; Tom Weber; John Burn; Ming Qi; Richard G H Cotton; David Rimoin
Journal:  Hum Mutat       Date:  2012-07-18       Impact factor: 4.878

8.  Deleterious- and disease-allele prevalence in healthy individuals: insights from current predictions, mutation databases, and population-scale resequencing.

Authors:  Yali Xue; Yuan Chen; Qasim Ayub; Ni Huang; Edward V Ball; Matthew Mort; Andrew D Phillips; Katy Shaw; Peter D Stenson; David N Cooper; Chris Tyler-Smith
Journal:  Am J Hum Genet       Date:  2012-12-07       Impact factor: 11.025

9.  A systematic survey of loss-of-function variants in human protein-coding genes.

Authors:  Daniel G MacArthur; Suganthi Balasubramanian; Adam Frankish; Ni Huang; James Morris; Klaudia Walter; Luke Jostins; Lukas Habegger; Joseph K Pickrell; Stephen B Montgomery; Cornelis A Albers; Zhengdong D Zhang; Donald F Conrad; Gerton Lunter; Hancheng Zheng; Qasim Ayub; Mark A DePristo; Eric Banks; Min Hu; Robert E Handsaker; Jeffrey A Rosenfeld; Menachem Fromer; Mike Jin; Xinmeng Jasmine Mu; Ekta Khurana; Kai Ye; Mike Kay; Gary Ian Saunders; Marie-Marthe Suner; Toby Hunt; If H A Barnes; Clara Amid; Denise R Carvalho-Silva; Alexandra H Bignell; Catherine Snow; Bryndis Yngvadottir; Suzannah Bumpstead; David N Cooper; Yali Xue; Irene Gallego Romero; Jun Wang; Yingrui Li; Richard A Gibbs; Steven A McCarroll; Emmanouil T Dermitzakis; Jonathan K Pritchard; Jeffrey C Barrett; Jennifer Harrow; Matthew E Hurles; Mark B Gerstein; Chris Tyler-Smith
Journal:  Science       Date:  2012-02-17       Impact factor: 47.728

10.  Cystic fibrosis testing 8 years on: lessons learned from carrier screening and sequencing analysis.

Authors:  Charles M Strom; Beryl Crossley; Arlene Buller-Buerkle; Michael Jarvis; Franklin Quan; Mei Peng; Kasinathan Muralidharan; Victoria Pratt; Joy B Redman; Weimin Sun
Journal:  Genet Med       Date:  2011-02       Impact factor: 8.822

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  17 in total

Review 1.  The current state of clinical interpretation of sequence variants.

Authors:  Derick C Hoskinson; Adrian M Dubuc; Heather Mason-Suares
Journal:  Curr Opin Genet Dev       Date:  2017-01-31       Impact factor: 5.578

Review 2.  When is it MODY? Challenges in the Interpretation of Sequence Variants in MODY Genes.

Authors:  Sara Althari; Anna L Gloyn
Journal:  Rev Diabet Stud       Date:  2016-02-10

Review 3.  Cystic fibrosis genetics: from molecular understanding to clinical application.

Authors:  Garry R Cutting
Journal:  Nat Rev Genet       Date:  2014-11-18       Impact factor: 53.242

4.  Expert Knowledge Influences Decision-Making for Couples Receiving Positive Prenatal Chromosomal Microarray Testing Results.

Authors:  M A Rubel; A Werner-Lin; F K Barg; B A Bernhardt
Journal:  Cult Med Psychiatry       Date:  2017-09

Review 5.  In Silico Functional Annotation of Genomic Variation.

Authors:  Mariusz Butkiewicz; William S Bush
Journal:  Curr Protoc Hum Genet       Date:  2016-01-01

6.  Parents' Perspectives on Variants of Uncertain Significance from Chromosome Microarray Analysis.

Authors:  Lesli A Kiedrowski; Kailey M Owens; Beverly M Yashar; Jane L Schuette
Journal:  J Genet Couns       Date:  2015-05-19       Impact factor: 2.537

7.  Proactive functional classification of all possible missense single-nucleotide variants in KCNQ4.

Authors:  Honglan Zheng; Xinhao Yan; Guanluan Li; Hengwei Lin; Siqi Deng; Wenhui Zhuang; Fuqiang Yao; Yu Lu; Xin Xia; Huijun Yuan; Li Jin; Zhiqiang Yan
Journal:  Genome Res       Date:  2022-06-27       Impact factor: 9.438

8.  The challenge of comprehensive and consistent sequence variant interpretation between clinical laboratories.

Authors:  Melanie G Pepin; Mitzi L Murray; Samuel Bailey; Dru Leistritz-Kessler; Ulrike Schwarze; Peter H Byers
Journal:  Genet Med       Date:  2015-04-02       Impact factor: 8.822

Review 9.  Basic and Preclinical Research for Personalized Medicine.

Authors:  Wanda Lattanzi; Cristian Ripoli; Viviana Greco; Marta Barba; Federica Iavarone; Angelo Minucci; Andrea Urbani; Claudio Grassi; Ornella Parolini
Journal:  J Pers Med       Date:  2021-04-29

10.  Response to Biesecker et al.

Authors:  Ada Hamosh; Joanna S Amberger; Carol A Bocchini; Joann Bodurtha; Carol J Bult; Christopher G Chute; Garry R Cutting; Harry C Dietz; Helen V Firth; Richard A Gibbs; Wayne W Grody; Melissa A Haendel; James R Lupski; Jennifer E Posey; Peter N Robinson; Lynn M Schriml; Alan F Scott; Nara L Sobreira; David Valle; Nan Wu; Sonja A Rasmussen
Journal:  Am J Hum Genet       Date:  2021-09-02       Impact factor: 11.025

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