Comprehensive profiling of BRCA1 and BRCA2 variants in breast and ovarian cancer in Chinese patients.

Abstract:

:The identification and interpretation of germline BRCA1/2 variants become increasingly important in breast and ovarian cancer (OC) treatment. However, there is no comprehensive analysis of the germline BRCA1/2 variants in a Chinese population. Here we performed a systematic review and meta-analysis on such variants from 94 publications. A total of 2,128 BRCA1/2 variant records were extracted, including 601 from BRCA1 and 632 from BRCA2. In addition, 414, 734, 449, and 307 variants were also recorded in the BIC, ClinVar, ENIGMA, and UMD databases, respectively, and 579 variants were newly reported. Subsequent analysis showed that the overall germline BRCA1/2 pathogenic variant frequency was 5.7% and 21.8% in Chinese breast and OC, respectively. Populations with high-risk factors exhibited a higher pathogenic variant percentage. Furthermore, the variant profile in Chinese is distinct from that in other ethnic groups with no distinct founder pathogenic variants. We also tested our in-house American College of Medical Genetics-guided pathogenicity interpretation procedure for Chinese BRCA1/2 variants. Our results achieved a consistency of 91.2-97.6% (5-grade classification) or 98.4-100% (2-grade classification) with public databases. In conclusion, this study represents the first comprehensive meta-analysis of Chinese BRCA1/2 variants and validates our in-house pathogenicity interpretation procedure, thereby providing guidance for further PARP inhibitor development and companion diagnostics in the Chinese population.

journal_name

Hum Mutat

journal_title

Human mutation

authors

Gao X,Nan X,Liu Y,Liu R,Zang W,Shan G,Gai F,Zhang J,Li L,Cheng G,Song L

doi

10.1002/humu.23965

subject

Has Abstract

pub_date

2020-03-01 00:00:00

pages

696-708

issue

3

eissn

1059-7794

issn

1098-1004

journal_volume

41

pub_type

杂志文章
  • Combined NGS approaches identify mutations in the intraflagellar transport gene IFT140 in skeletal ciliopathies with early progressive kidney Disease.

    abstract::Ciliopathies are genetically heterogeneous disorders characterized by variable expressivity and overlaps between different disease entities. This is exemplified by the short rib-polydactyly syndromes, Jeune, Sensenbrenner, and Mainzer-Saldino chondrodysplasia syndromes. These three syndromes are frequently caused by m...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.22294

    authors: Schmidts M,Frank V,Eisenberger T,Al Turki S,Bizet AA,Antony D,Rix S,Decker C,Bachmann N,Bald M,Vinke T,Toenshoff B,Di Donato N,Neuhann T,Hartley JL,Maher ER,Bogdanović R,Peco-Antić A,Mache C,Hurles ME,Joksić I,G

    更新日期:2013-05-01 00:00:00

  • A nationwide genetic analysis of inherited retinal diseases in Israel as assessed by the Israeli inherited retinal disease consortium (IIRDC).

    abstract::Inherited retinal diseases (IRDs) cause visual loss due to dysfunction or progressive degeneration of photoreceptors. These diseases show marked phenotypic and genetic heterogeneity. The Israeli IRD consortium (IIRDC) was established in 2013 with the goal of performing clinical and genetic mapping of the majority of I...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.23903

    authors: Sharon D,Ben-Yosef T,Goldenberg-Cohen N,Pras E,Gradstein L,Soudry S,Mezer E,Zur D,Abbasi AH,Zeitz C,Cremers FPM,Khan MI,Levy J,Rotenstreich Y,Birk OS,Ehrenberg M,Leibu R,Newman H,Shomron N,Banin E,Perlman I

    更新日期:2020-01-01 00:00:00

  • An activated 5' cryptic splice site in the human ALG3 gene generates a premature termination codon insensitive to nonsense-mediated mRNA decay in a new case of congenital disorder of glycosylation type Id (CDG-Id).

    abstract::A defect of the dolichyl-P-Man:Man5GlcNAc2-PP-dolichyl mannosyltransferase encoded by the ALG3 gene (alias NOT56L) causes congenital disorder of glycosylation type Id (CDG-Id). In this work, a new mutation in the ALG3 gene causing atypical splicing is described with characterization of expression levels and transcript...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.20026

    authors: Denecke J,Kranz C,Kemming D,Koch HG,Marquardt T

    更新日期:2004-05-01 00:00:00

  • Discovery of genetic profiles impacting response to chemotherapy: application to gemcitabine.

    abstract::Chemotherapy is a major treatment modality for individuals affected by cancer. Currently, a number of genome-based technologies are being adopted to identify genes associated with drug response; however, large-scale genetic association applications are still limited. Here we describe a novel strategy based on the gene...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.20732

    authors: Jarjanazi H,Kiefer J,Savas S,Briollais L,Tuzmen S,Pabalan N,Ibrahim-Zada I,Mousses S,Ozcelik H

    更新日期:2008-04-01 00:00:00

  • CNGB3 mutation spectrum including copy number variations in 552 achromatopsia patients.

    abstract::Achromatopsia is a rare autosomal recessive cone disorder characterized by color vision defects, photophobia, nystagmus, and severely reduced visual acuity. The disease is caused by mutations in genes encoding crucial components of the cone phototransduction cascade (CNGA3, CNGB3, GNAT2, PDE6C, and PDE6H) or in ATF6, ...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.23311

    authors: Mayer AK,Van Cauwenbergh C,Rother C,Baumann B,Reuter P,De Baere E,Wissinger B,Kohl S,ACHM Study Group.

    更新日期:2017-11-01 00:00:00

  • Absence of exon 15 BRAF germline mutations in familial melanoma.

    abstract::We have analyzed DNA from peripheral blood of 42 cases of familial melanoma for germline mutations in exon 15 of the BRAF gene. No evidence of mutation was found. We have also analyzed DNA extracted from secondary melanoma from two members of these families. These results were also negative. In addition we have search...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.10188

    authors: Lang J,Boxer M,MacKie R

    更新日期:2003-03-01 00:00:00

  • Novel TMPRSS6 mutations associated with iron-refractory iron deficiency anemia (IRIDA).

    abstract::Mutations leading to abrogation of matriptase-2 proteolytic activity in humans are associated with an iron-refractory iron deficiency anemia (IRIDA) due to elevated hepcidin levels. In this paper we describe 12 IRIDA patients belonging to 7 unrelated families and identify 10 (9 novel) TMPRSS6 mutations spread along th...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.21243

    authors: De Falco L,Totaro F,Nai A,Pagani A,Girelli D,Silvestri L,Piscopo C,Campostrini N,Dufour C,Al Manjomi F,Minkov M,Van Vuurden DG,Feliu A,Kattamis A,Camaschella C,Iolascon A

    更新日期:2010-05-01 00:00:00

  • Retinitis pigmentosa mutations of SNRNP200 enhance cryptic splice-site recognition.

    abstract::Mutations in SNRP200 gene cause autosomal-dominant retinal disorder retinitis pigmentosa (RP). The protein product of SNRNP200 is BRR2, a DExD/H box RNA helicase crucial for pre-mRNA splicing. In this study, we prepared p.S1087L and p.R1090L mutations of human BRR2 using bacterial artificial chromosome recombineering ...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.22481

    authors: Cvačková Z,Matějů D,Staněk D

    更新日期:2014-03-01 00:00:00

  • Splice-site mutation in the PDS gene may result in intrafamilial variability for deafness in Pendred syndrome.

    abstract::Pendred syndrome is a recessive inherited disorder that consists of developmental abnormalities of the cochlea, sensorineural hearing loss, and diffuse thyroid enlargement (goiter). This disorder may account for up to 10% of cases of hereditary deafness. The disease gene (PDS) has been mapped to chromosome 7q22-q31, a...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/(SICI)1098-1004(199912)14:6<520::AID-HUMU1

    authors: López-Bigas N,Rabionet R,de Cid R,Govea N,Gasparini P,Zelante L,Arbonés ML,Estivill X

    更新日期:1999-01-01 00:00:00

  • Novel mutations and SNPs identified in CCR2 using a new comprehensive denaturing gradient gel electrophoresis assay.

    abstract::A single nucleotide polymorphism (SNP) at codon 64 in the CC chemokine receptor 2 gene (CCR2 V64I) has been associated with a dominant effect of delaying disease progression from human immunodeficiency virus-1 (HIV-1) infection to acquired immunodeficiency syndrome (AIDS). The objective of our study was to design a co...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.10111

    authors: Petersen DC,Laten A,Zeier MD,Grimwood A,Rensburg EJ,Hayes VM

    更新日期:2002-10-01 00:00:00

  • Clinical Interpretation of Variants from Next-Generation Sequencing: The 2016 Scientific Meeting of the Human Genome Variation Society.

    abstract::The 2016 scientific meeting of the Human Genome Variation Society (HGVS; http://www.hgvs.org) was held on the 20th of May in Barcelona, Spain, with the theme of "Clinical Interpretation of Variants from Next-Generation Sequencing." ...

    journal_title:Human mutation

    pub_type:

    doi:10.1002/humu.23059

    authors: Oetting WS,Brookes AJ,Béroud C,Taschner PE

    更新日期:2016-10-01 00:00:00

  • Identification of 16 novel mutations in the argininosuccinate synthetase gene and genotype-phenotype correlation in 38 classical citrullinemia patients.

    abstract::Classical citrullinemia (CTLN1), a rare autosomal recessive disorder, is caused by mutations of the argininosuccinate synthetase (ASS) gene, localized on chromosome 9q34.1. ASS functions as a rate-limiting enzyme in the urea cycle. Previously, we identified 32 mutations in the ASS gene of CTLN1 patients mainly in Japa...

    journal_title:Human mutation

    pub_type: 杂志文章,多中心研究

    doi:10.1002/humu.10230

    authors: Gao HZ,Kobayashi K,Tabata A,Tsuge H,Iijima M,Yasuda T,Kalkanoglu HS,Dursun A,Tokatli A,Coskun T,Trefz FK,Skladal D,Mandel H,Seidel J,Kodama S,Shirane S,Ichida T,Makino S,Yoshino M,Kang JH,Mizuguchi M,Barshop BA

    更新日期:2003-07-01 00:00:00

  • A recurrent loss-of-function alanyl-tRNA synthetase (AARS) mutation in patients with Charcot-Marie-Tooth disease type 2N (CMT2N).

    abstract::Charcot-Marie-Tooth (CMT) disease comprises a heterogeneous group of peripheral neuropathies characterized by muscle weakness and wasting, and impaired sensation in the extremities. Four genes encoding an aminoacyl-tRNA synthetase (ARS) have been implicated in CMT disease. ARSs are ubiquitously expressed, essential en...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.21635

    authors: McLaughlin HM,Sakaguchi R,Giblin W,NISC Comparative Sequencing Program.,Wilson TE,Biesecker L,Lupski JR,Talbot K,Vance JM,Züchner S,Lee YC,Kennerson M,Hou YM,Nicholson G,Antonellis A

    更新日期:2012-01-01 00:00:00

  • Mutations of the APC (adenomatous polyposis coli) gene.

    abstract::Several investigators have reported germline mutations of the APC gene in patients with familial adenomatous polyposis (FAP) as well as somatic mutations in tumors developed in digestive organs (stomach, pancreas, colon, and rectum). Those results provide evidence that inactivation of the APC gene plays a significant ...

    journal_title:Human mutation

    pub_type: 杂志文章,评审

    doi:10.1002/humu.1380020602

    authors: Nagase H,Nakamura Y

    更新日期:1993-01-01 00:00:00

  • Molecular basis of dihydropteridine reductase deficiency.

    abstract::The spectrum of mutations causing dihydropteridine reductase is reviewed. A total of 12 point mutations have been described that map in the DHPR cDNA, resulting in amino acid substitutions, insertions and premature terminations. A further two mutations are described which result in aberrant splicing of DHPR transcript...

    journal_title:Human mutation

    pub_type: 杂志文章,评审

    doi:10.1002/humu.1380050402

    authors: Smooker PM,Cotton RG

    更新日期:1995-01-01 00:00:00

  • A collection of 33 novel human mtDNA homoplasmic variants.

    abstract::Mitochondria are involved in cellular energy production via oxidative phosphorylation and this function may be damaged by any mutation in mitochondrial DNA (mtDNA). To identify novel mtDNA mutations, we have developed a program to systematically screen the entire mitochondrial genome in a large number of individuals w...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.9079

    authors: Crimi M,Sciacco M,Galbiati S,Bordoni A,Malferrari G,Del Bo R,Biunno I,Bresolin N,Comi GP

    更新日期:2002-11-01 00:00:00

  • An NTD-associated polymorphism in the 3' UTR of MTHFD1L can affect disease risk by altering miRNA binding.

    abstract::Maternal folate levels and polymorphisms in folate-related genes are known risk factors for neural tube defects (NTDs). SNPs in the mitochondrial folate gene MTHFD1L are associated with the risk of NTDs. We investigated whether different alleles of SNP rs7646 in the 3' UTR of MTHFD1L can be differentially regulated by...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.22459

    authors: Minguzzi S,Selcuklu SD,Spillane C,Parle-McDermott A

    更新日期:2014-01-01 00:00:00

  • MSeqDR: A Centralized Knowledge Repository and Bioinformatics Web Resource to Facilitate Genomic Investigations in Mitochondrial Disease.

    abstract::MSeqDR is the Mitochondrial Disease Sequence Data Resource, a centralized and comprehensive genome and phenome bioinformatics resource built by the mitochondrial disease community to facilitate clinical diagnosis and research investigations of individual patient phenotypes, genomes, genes, and variants. A central Web ...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.22974

    authors: Shen L,Diroma MA,Gonzalez M,Navarro-Gomez D,Leipzig J,Lott MT,van Oven M,Wallace DC,Muraresku CC,Zolkipli-Cunningham Z,Chinnery PF,Attimonelli M,Zuchner S,Falk MJ,Gai X

    更新日期:2016-06-01 00:00:00

  • Molecular diagnosis of inherited disorders: lessons from hemoglobinopathies.

    abstract::Hemoglobinopathies constitute a major health problem worldwide, with a high carrier frequency, particularly in certain regions where malaria has been endemic. These disorders are characterized by a vast clinical and hematological phenotypic heterogeneity. Over 1,200 different genetic alterations that affect the DNA se...

    journal_title:Human mutation

    pub_type: 杂志文章,评审

    doi:10.1002/humu.20225

    authors: Patrinos GP,Kollia P,Papadakis MN

    更新日期:2005-11-01 00:00:00

  • Genetic lesions of bilirubin uridine-diphosphoglucuronate glucuronosyltransferase (UGT1A1) causing Crigler-Najjar and Gilbert syndromes: correlation of genotype to phenotype.

    abstract::Uridine-diphosphoglucuronate glucuronosyltransferases (UGTs) are a family of enzymes that conjugate various endogenous and exogenous compounds with glucuronic acid and facilitate their excretion in the bile. Bilirubin-UGT(1) (UGT1A1) is the only isoform that significantly contributes to the conjugation of bilirubin. L...

    journal_title:Human mutation

    pub_type: 杂志文章,评审

    doi:10.1002/1098-1004(200010)16:4<297::AID-HUMU2>3.0.C

    authors: Kadakol A,Ghosh SS,Sappal BS,Sharma G,Chowdhury JR,Chowdhury NR

    更新日期:2000-10-01 00:00:00

  • The role of cathepsin C in Papillon-Lefèvre syndrome, prepubertal periodontitis, and aggressive periodontitis.

    abstract::We have previously reported that loss-of-function mutations in the cathepsin C gene (CTSC) result in Papillon-Lefèvre syndrome, an autosomal recessive condition characterized by palmoplantar keratosis and early-onset, severe periodontitis. Others have also reported CTSC mutations in patients with severe prepubertal pe...

    journal_title:Human mutation

    pub_type: 杂志文章,多中心研究

    doi:10.1002/humu.10314

    authors: Hewitt C,McCormick D,Linden G,Turk D,Stern I,Wallace I,Southern L,Zhang L,Howard R,Bullon P,Wong M,Widmer R,Gaffar KA,Awawdeh L,Briggs J,Yaghmai R,Jabs EW,Hoeger P,Bleck O,Rüdiger SG,Petersilka G,Battino M,Bre

    更新日期:2004-03-01 00:00:00

  • Screening practices for mutations in the CFTR gene ABCC7.

    abstract::Cystic fibrosis transmembrane conductance regulator (CFTR) gene studies are now one of the most frequent activities in clinical molecular genetics laboratories. The number of requests is growing, owing to the increasingly wide range of recognized CFTR gene diseases (cystic fibrosis, congenital bilateral absence of the...

    journal_title:Human mutation

    pub_type: 杂志文章,评审

    doi:10.1002/(SICI)1098-1004(200002)15:2<135::AID-HUMU2

    authors: Girodon-Boulandet E,Cazeneuve C,Goossens M

    更新日期:2000-01-01 00:00:00

  • Three novel mutations and twelve polymorphisms identified in the USH2A gene in Israeli USH2 families.

    abstract::The Usher syndromes are autosomal recessive hereditary disorders characterized by hearing impairment and progressive visual loss due to Retinitis Pigmentosa (RP). Moderate to severe sensorineural hearing loss and progressive RP characterizes Usher syndrome type IIa (USH2A), which maps to the long arm of chromosome 1q4...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/(SICI)1098-1004(200004)15:4<388::AID-HUMU2

    authors: Adato A,Weston MD,Berry A,Kimberling WJ,Bonne-Tamir A

    更新日期:2000-04-01 00:00:00

  • Predicting functional variants in enhancer and promoter elements using RegulomeDB.

    abstract::Here we present a computational model, Score of Unified Regulatory Features (SURF), that predicts functional variants in enhancer and promoter elements. SURF is trained on data from massively parallel reporter assays and predicts the effect of variants on reporter expression levels. It achieved the top performance in ...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.23791

    authors: Dong S,Boyle AP

    更新日期:2019-09-01 00:00:00

  • Mucolipidosis II-related mutations inhibit the exit from the endoplasmic reticulum and proteolytic cleavage of GlcNAc-1-phosphotransferase precursor protein (GNPTAB).

    abstract::Mucolipidosis (ML) II and MLIII alpha/beta are two pediatric lysosomal storage disorders caused by mutations in the GNPTAB gene, which encodes an α/β-subunit precursor protein of GlcNAc-1-phosphotransferase. Considerable variations in the onset and severity of the clinical phenotype in these diseases are observed. We ...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.22502

    authors: De Pace R,Coutinho MF,Koch-Nolte F,Haag F,Prata MJ,Alves S,Braulke T,Pohl S

    更新日期:2014-03-01 00:00:00

  • Deficiency in DNA mismatch repair increases the rate of telomere shortening in normal human cells.

    abstract::DNA mismatch repair (MMR) is essential for genome stability and inheritance of a mutated MMR gene, most frequently MSH2 or MLH1, results in cancer predisposition known as Lynch syndrome or hereditary nonpolyposis colorectal cancer (HNPCC). Tumors that arise through MMR deficiency show instability at simple tandem repe...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.21522

    authors: Mendez-Bermudez A,Royle NJ

    更新日期:2011-08-01 00:00:00

  • Five novel mutations in the lysosomal sialidase gene (NEU1) in type II sialidosis patients and assessment of their impact on enzyme activity and intracellular targeting using adenovirus-mediated expression.

    abstract::Sialidosis is an autosomal recessive disease resulting from a deficiency of lysosomal sialidase. Type II sialidosis is a rare disease characterized clinically by hydrops fetalis, hepatosplenomegaly, and severe psychomotor retardation. Genomic DNA from four unrelated sialidosis patients was screened for mutations withi...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.10278

    authors: Pattison S,Pankarican M,Rupar CA,Graham FL,Igdoura SA

    更新日期:2004-01-01 00:00:00

  • Assessing the relative importance of the biophysical properties of amino acid substitutions associated with human genetic disease.

    abstract::The inclusion of a mutation in a pathology-based database such as the Human Gene Mutation Database (HGMD) is a two-stage process: first, the mutation must occur at the DNA level, then it must cause a clinically detectable disease state. The likelihood of the latter step, termed the relative clinical observation likeli...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.10095

    authors: Terp BN,Cooper DN,Christensen IT,Jørgensen FS,Bross P,Gregersen N,Krawczak M

    更新日期:2002-08-01 00:00:00

  • Novel allele containing a 190C>T nonsynonymous substitution in the N-acetyltransferase (NAT2) gene.

    abstract::N-acetyltransferase (NAT2) is an enzyme involved in detoxification of various carcinogens. The gene is highly polymorphic with a number of alleles, and is also known as acetylator phenotypes: the fast, intermediate and slow acetylators. In this report, we describe a novel NAT2 allele, which was found in the allele typ...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/1098-1004(200006)15:6<581::AID-HUMU17>3.0.

    authors: Shishikura K,Hohjoh H,Tokunaga K

    更新日期:2000-06-01 00:00:00

  • Expanding the Molecular and Clinical Phenotype of SSR4-CDG.

    abstract::Congenital disorders of glycosylation (CDG) are a group of mostly autosomal recessive disorders primarily characterized by neurological abnormalities. Recently, we described a single CDG patient with a de novo mutation in the X-linked gene, Signal Sequence Receptor 4 (SSR4). We performed whole-exome sequencing to iden...

    journal_title:Human mutation

    pub_type: 杂志文章

    doi:10.1002/humu.22856

    authors: Ng BG,Raymond K,Kircher M,Buckingham KJ,Wood T,Shendure J,Nickerson DA,Bamshad MJ,University of Washington Center for Mendelian Genomics.,Wong JT,Monteiro FP,Graham BH,Jackson S,Sparkes R,Scheuerle AE,Cathey S,Kok F,Gib

    更新日期:2015-11-01 00:00:00