Next-generation sequencing: ready for the clinics?

Abstract:

:Next-generation sequencing (NGS) has transformed genomic research by decreasing the cost of sequencing and increasing the throughput. Now, the focus is on using NGS technology for diagnostics and therapeutics. In this review, we discuss the possible clinical applications of NGS and the potential of some of the current systems to transition to the clinic. Clinical use of NGS technologies will enable the identification of causative mutations for rare genetic disorders through whole-genome or targeted genome resequencing, rapid pathogen screening and cancer diagnosis along with the identification of appropriate therapy. Routine clinical use of NGS technologies is appealing, but mandates high accuracy, simple assays, small inexpensive instruments, flexible throughput, short run times and most importantly, easy data analysis as well as interpretation. A number of NGS systems launched recently have least some of these characteristics, namely, small instruments, flexible throughput and short run time, but still face a few challenges. Moreover, simplified data analysis tools will need to be developed to minimize the requirement of sophisticated bioinformatics support in clinics. In summary, for successful transition of NGS to clinic, a sustained collaboration between research labs, clinical practitioners and vendors offering sequencing based genetic tests is required.

journal_name

Clin Genet

journal_title

Clinical genetics

authors

Desai AN,Jere A

doi

10.1111/j.1399-0004.2012.01865.x

subject

Has Abstract

pub_date

2012-06-01 00:00:00

pages

503-10

issue

6

eissn

0009-9163

issn

1399-0004

journal_volume

81

pub_type

杂志文章,评审
  • Determining zygosity in the Vietnam Era Twin Registry: an approach using questionnaires.

    abstract::The Vietnam Era Twin Registry (VETR) is a registry of 7375 American male veteran twin pairs born between 1939 and 1955 who served in the armed forces of the United States between 1964 and 1975. Optimal use of registry data requires the determination of zygosity. Two approaches are available: analysis of blood genetic ...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.1989.tb02967.x

    authors: Eisen S,Neuman R,Goldberg J,Rice J,True W

    更新日期:1989-06-01 00:00:00

  • Presymptomatic molecular diagnosis of autosomal dominant polycystic kidney disease using PKD1- and PKD2-linked markers in Cypriot families.

    abstract::Autosomal dominant polycystic kidney disease (ADPKD), is a heterogeneous disorder, primarily characterized by the formation of cysts in the kidneys, and the late development in life of progressive chronic kidney failure. Three genes are implicated in causing ADPKD. One on chromosome 16, PKD1, accounts for 85-90% of al...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.1996.tb02339.x

    authors: Deltas CC,Christodoulou K,Tjakouri C,Pierides A

    更新日期:1996-07-01 00:00:00

  • Inherited association of breast and colorectal cancer: limited role of CHEK2 compared with high-penetrance genes.

    abstract::We assessed the association between breast cancer (BC) and colorectal cancer (CRC) from referral pattern to the Regional Genetics Service including molecular analysis. Hospital computer records and/or department referral books were used to identify cases referred to the Regional Genetic Service during a 16-year period...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.2006.00698.x

    authors: Naseem H,Boylan J,Speake D,Leask K,Shenton A,Lalloo F,Hill J,Trump D,Evans DG

    更新日期:2006-11-01 00:00:00

  • Strategies for exome and genome sequence data analysis in disease-gene discovery projects.

    abstract::In whole-exome sequencing (WES), target capture methods are used to enrich the sequences of the coding regions of genes from fragmented total genomic DNA, followed by massively parallel, 'next-generation' sequencing of the captured fragments. Since its introduction in 2009, WES has been successfully used in several di...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.2011.01713.x

    authors: Robinson PN,Krawitz P,Mundlos S

    更新日期:2011-08-01 00:00:00

  • Clinical applications of next-generation sequencing-based gene panel in patients with muscular dystrophy: Korean experience.

    abstract::Muscular dystrophy (MD) is a genetically and clinically heterogeneous group of disorders. Here, we performed targeted sequencing of 18 limb-girdle MD (LGMD)-related genes in 35 patients who were highly suspected of having MD. We identified one or more pathogenic variants in 23 of 35 patients (65.7%), and a genetic dia...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/cge.12621

    authors: Seong MW,Cho A,Park HW,Seo SH,Lim BC,Seol D,Cho SI,Park SS,Chae JH

    更新日期:2016-04-01 00:00:00

  • The secretor status of the foetus.

    abstract::One hundred amniotic fluids were tested for the presence of ABH blood group substances. Gestation at amniocentesis ranged from 12 to 28 weeks, with a mean of 16.6 weeks. The secretor status of the fluid was correlated with the secretor status of the baby after birth as determined from a sample of saliva. Fluid and sal...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.1980.tb01018.x

    authors: Gibson SL,Ferguson-Smith MA

    更新日期:1980-08-01 00:00:00

  • Prenatal diagnosis of glycogenosis type II (Pompe's disease) using chorionic villi biopsy.

    abstract::Glycogenosis type II (Pompe's disease) has been diagnosed using cultured amniotic cells for several years. In this paper, we present three prenatal diagnoses based on chorionic villi biopsy in three families at risk for Pompe's disease juvenile form: a normal fetus that was diagnosed and confirmed by enzymatic assay o...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.1985.tb00235.x

    authors: Besançon AM,Castelnau L,Nicolesco H,Dumez Y,Poenaru L

    更新日期:1985-05-01 00:00:00

  • Partial paternal uniparental disomy of chromosome 6 in monozygotic twins with transient neonatal diabetes mellitus and macroglossia.

    abstract::Transient neonatal diabetes mellitus (TNDM) usually develops within the first few weeks of life and resolves at a median age of 3 months. In most of the cases, TNDM is caused by the over-expression of a paternally expressed imprinted PLAGL1 locus on chromosome 6q24. The most frequent manifestation other than TNDM is i...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.2010.01433.x

    authors: Suzuki S,Fujisawa D,Hashimoto K,Asano T,Maimaiti M,Matsuo K,Tanahashi Y,Mukai T,Fujieda K

    更新日期:2010-12-01 00:00:00

  • A new multiple malformation syndrome of Müllerian dysgenesis and conductive hearing loss with facial hypoplasia, bilateral forearm deformity, brachydactyly, spinal stenosis and scoliosis.

    abstract::Multiple congenital malformations in a young girl with bilateral conductive hearing loss are described. Facial dysmorphic features include prominent supraorbital ridges, facial hypoplasia, facial asymmetry, downward-slanting palpebral fissures, high prominent nasal bridge with bifid nasal tip and a small lower jaw, an...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.1997.tb02511.x

    authors: Kumar D,Masel JP

    更新日期:1997-07-01 00:00:00

  • Skoura - a genetic island for congenital insensitivity to pain and anhidrosis among Moroccan Jews, as determined by a novel mutation in the NTRK1 gene.

    abstract::Congenital insensitivity to pain with anhidrosis (CIPA) or hereditary sensory and autonomic neuropathy type IV is a rare, autosomal recessive neurologic disorder, characterized by absence of reaction to painful stimuli, mental retardation, self- mutilating behavior, anhidrosis, and recurrent episodes of hyperthermia. ...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.2008.01143.x

    authors: Suriu C,Khayat M,Weiler M,Kfir N,Cohen C,Zinger A,Aslanidis C,Schmitz G,Falik-Zaccai TC

    更新日期:2009-03-01 00:00:00

  • STK11/LKB1 germline mutations are not identified in most Peutz-Jeghers syndrome patients.

    abstract::Germline mutations of the STK11 gene mapped to chromosome 19p13.3 are responsible for Peutz Jeghers syndrome (PJS), a dominant disorder associated with characteristic gastrointestinal hamartomatous polyps and a predisposition to various cancers. We conducted a detailed investigation of germline STK11 alterations by pr...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1034/j.1399-0004.1999.560207.x

    authors: Jiang CY,Esufali S,Berk T,Gallinger S,Cohen Z,Tobi M,Redston M,Bapat B

    更新日期:1999-08-01 00:00:00

  • A supernumerary microchromosome in amniotic cell cultures and talipes equinovarus in a live born female.

    abstract::Amniocentesis for advanced maternal age resulted in the demonstration of a supernumerary microchromosome in the amniotic fluid cells. Cytogenetic analysis of peripheral blood from the female infant revealed a mosaic karyotype 46,XX/47,XX, + marker. The only anomaly noted in the infant was talipes equinovarus. ...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.1984.tb01092.x

    authors: Muneer RS,Himes JR,Payne-Howell RM,Thompson LM,Rennert OM

    更新日期:1984-11-01 00:00:00

  • Frequency of three BRCA1 gene founder mutations in breast/ovarian cancer families from the Pomerania-Kujawy region of Poland.

    abstract::A group of 63 families from the Pomerania-Kujawy region were analyzed for three BRCA1 gene Polish founder mutations, 5382insC, 300T>G, and 4153delA, because of breast (BrCa) and/or ovarian cancer (OvCa) history. The analysis was carried out by multiplex polymerase chain reaction method. BRCA1 mutation was revealed in ...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1046/j.1399-0004.2003.00178.x

    authors: Janiszewska H,Haus O,Lauda-Swieciak A,Pasińska M,Laskowski R,Szymański W,Górski B,Lubiński J

    更新日期:2003-12-01 00:00:00

  • Abnormal extracellular matrix in Ehlers-Danlos syndrome type IV due to the substitution of glycine 934 by glutamic acid in the triple helical domain of type III collagen.

    abstract::A unique substitution of glycine 934 by glutamic acid in the triple helical domain of type III collagen was identified in a proband with Ehlers-Danlos syndrome type IV. The substitution was due to the transition of G 3302 to A in alpha 1(III) cDNA which is encoded by exon 46 of COL3A1. It resulted in a severe deficien...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.1996.tb02709.x

    authors: McGrory J,Weksberg R,Thorner P,Cole WG

    更新日期:1996-12-01 00:00:00

  • Dominant variants in PRR12 result in unilateral or bilateral complex microphthalmia.

    abstract::Complex microphthalmia is characterized by small eyes with additional abnormalities that may include anterior segment dysgenesis. While many genes are known, a genetic cause is identified in only 4-30% of microphthalmia, with the lowest rate in unilateral cases. We identified four novel pathogenic loss-of-function all...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/cge.13897

    authors: Reis LM,Costakos D,Wheeler PG,Bardakjian T,Schneider A,Fung SSM,University of Washington Center for Mendelian Genomics.,Semina EV

    更新日期:2020-12-13 00:00:00

  • Cutis laxa: A comprehensive overview of clinical characteristics and pathophysiology.

    abstract::Cutis laxa (CL) syndromes comprise a rare group of multisystem disorders that share loose redundant skin folds as hallmark clinical feature. CL results from impaired elastic fiber assembly and homeostasis, and the known underlying gene defects affect different extracellular matrix proteins, intracellular trafficking, ...

    journal_title:Clinical genetics

    pub_type: 杂志文章,评审

    doi:10.1111/cge.13865

    authors: Beyens A,Boel A,Symoens S,Callewaert B

    更新日期:2021-01-01 00:00:00

  • Anthropometric and craniofacial patterns in mentally retarded males with emphasis on the fragile X syndrome.

    abstract::Anthropometric and craniofacial profile patterns indicating the percent difference from the overall mean were developed on 34 physical parameters with 31 white, mentally retarded males (23 adults and 8 children) with the fra(X) syndrome matched for age with 31 white, mentally retarded males without a known cause of th...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.1993.tb03863.x

    authors: Butler MG,Pratesi R,Watson MS,Breg WR,Singh DN

    更新日期:1993-09-01 00:00:00

  • Structure, origin and effects of a supernumerary marker chromosome 15.

    abstract::A de novo supernumerary small marker chromosome 15 was observed in a female infant with mental and statomotoric retardation as well as minor facial dysmorphia. The marker chromosome was analyzed by ten different staining techniques and 5-azacytidine treatment of lymphocyte cultures. It is shown that the supernumerary ...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.1986.tb00570.x

    authors: Schmid M,Schindler D,Haaf T

    更新日期:1986-07-01 00:00:00

  • WNT10A gene is the second molecular candidate in a cohort of young Italian subjects with ectodermal derivative impairment (EDI).

    abstract::Ectodermal dysplasias are a group of genetic disorders defined by ectodermal derivative impairment (EDI). To test the impact of the Wnt/beta-catenin pathway in the genetic screening of EDI, we performed a molecular gene study of WNT10A in 60 subjects from a population of 133 young Italian patients referred for the imp...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/cge.13147

    authors: Guazzarotti L,Tadini G,Mancini GE,Sani I,Pisanelli S,Galderisi F,D'Auria E,Secondi R,Bottero A,Zuccotti GV

    更新日期:2018-03-01 00:00:00

  • Refining the phenotype associated with biallelic DNAJC21 mutations.

    abstract::Inherited bone marrow failure syndromes (IBMFS) are caused by mutations in genes involved in genomic stability. Although they may be recognized by the association of typical clinical features, variable penetrance and expressivity are common, and clinical diagnosis is often challenging. DNAJC21, which is involved in ri...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/cge.13370

    authors: D'Amours G,Lopes F,Gauthier J,Saillour V,Nassif C,Wynn R,Alos N,Leblanc T,Capri Y,Nizard S,Lemyre E,Michaud JL,Pelletier VA,Pastore YD,Soucy JF

    更新日期:2018-08-01 00:00:00

  • Molecular analysis of 30 Niemann-Pick type C patients from Spain.

    abstract::Mutations in the NPC1 or NPC2 gene are responsible for Niemann-Pick type C (NPC) disease (OMIM #257220), an autosomal recessive neurodegenerative lysosomal storage disorder caused by an incorrect regulation of intracellular lipid trafficking. A molecular analysis carried out in 30 unrelated patients identified 43 dist...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.2010.01504.x

    authors: Macías-Vidal J,Rodríguez-Pascau L,Sánchez-Ollé G,Lluch M,Vilageliu L,Grinberg D,Coll MJ,Spanish NPC Working Group.

    更新日期:2011-07-01 00:00:00

  • Genetics of sudden cardiac death in the young.

    abstract::Sudden cardiac death (SCD) has an enormous impact on those who are left behind, evoking strong feelings of anxiety and incomprehension because such a dramatic event was not anticipated. Moreover, over the last decade a prominent genetic contribution to the pathogenesis of SCD has been unveiled. As many inherited cardi...

    journal_title:Clinical genetics

    pub_type: 杂志文章,评审

    doi:10.1111/cge.12519

    authors: Saenen JB,Van Craenenbroeck EM,Proost D,Marchau F,Van Laer L,Vrints CJ,Loeys BL

    更新日期:2015-08-01 00:00:00

  • Interaction between SREBP-1a and APOB polymorphisms influences total and low-density lipoprotein cholesterol levels in patients with coronary artery disease.

    abstract::In this study, we examined the insertion/deletion (Ins/Del) and XbaI polymorphisms of the apolipoprotein B (APOB) gene and the -36delG polymorphism in the sterol regulatory element binding protein-1a (SREBP-1a) gene in 298 patients with non-diabetic angiographically assessed coronary artery disease (CAD), and 188 heal...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1034/j.1399-0004.2003.00057.x

    authors: Rios DL,Vargas AF,Torres MR,Zago AJ,Callegari-Jacques SM,Hutz MH

    更新日期:2003-05-01 00:00:00

  • Dural ectasia in individuals with Marfan-like features but exclusion of mutations in the genes FBN1, TGFBR1 and TGFBR2.

    abstract::Mutations in the genes FBN1, TGFBR1, and TGFBR2 can result in heritable connective tissue disorders comprising the Marfan syndrome and the Loeys-Dietz syndrome. Dural ectasia is a characteristic manifestation of both syndromes. However, dural ectasia has not yet been investigated in connective tissue disorders that ar...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.2010.01494.x

    authors: Sheikhzadeh S,Rybczynski M,Habermann CR,Bernhardt AM,Arslan-Kirchner M,Keyser B,Kaemmerer H,Mir TS,Staebler A,Oezdal N,Robinson PN,Berger J,Meinertz T,von Kodolitsch Y

    更新日期:2011-06-01 00:00:00

  • Silver-Russell syndrome due to maternal uniparental disomy 7 and a familial reciprocal translocation t(7;13).

    abstract::Silver-Russell syndrome (SRS) is a genetically heterogeneous disorder characterized by intrauterine and postnatal growth retardation, typical facial features and a spectrum of additional features including body and limb asymmetry and clinodactyly. Maternal uniparental disomy for chromosome 7 (upd(7)mat) was shown to o...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.2011.01792.x

    authors: Behnecke A,Hinderhofer K,Jauch A,Janssen JW,Moog U

    更新日期:2012-11-01 00:00:00

  • A prospective evaluation of the angiotensin-converting enzyme D/I polymorphism and left ventricular remodeling in the 'Healing and Early Afterload Reducing Therapy' study.

    abstract::The D/I (deletion, D, insertion, I) polymorphism of the angiotensin-converting enzyme (ACE) gene has been extensively studied for its association with a number of cardiovascular and other disease states. However, its potential association with differential clinical efficacy of ACE inhibitors (ACE-I) administered to pa...

    journal_title:Clinical genetics

    pub_type: 临床试验,杂志文章

    doi:10.1034/j.1399-0004.2002.610104.x

    authors: Zee RY,Solomon SD,Ajani UA,Pfeffer MA,Lindpaintner K,Heart investigators.

    更新日期:2002-01-01 00:00:00

  • NR4A2 haploinsufficiency is associated with intellectual disability and autism spectrum disorder.

    abstract::NR4A2, a member of the nuclear receptor superfamily, is involved in modulation of target gene transcription, regulating several developmental processes such as regulation of cellular homeostasis, neuronal development, inflammation and carcinogenesis. 2q24.1 deletions are extremely rare, and only 1 patient with a de no...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/cge.13383

    authors: Lévy J,Grotto S,Mignot C,Maruani A,Delahaye-Duriez A,Benzacken B,Keren B,Haye D,Xavier J,Heulin M,Charles E,Verloes A,Dupont C,Pipiras E,Tabet AC

    更新日期:2018-08-01 00:00:00

  • Image quality in digital chromosome analysis systems.

    abstract::This paper reports on an investigation into the differences in image quality of different components used in a digital image processing system for chromosome analysis. As chromosome aberrations are important tools in the cloning of genes, it is important to know if the introduction of computerized analysis systems inc...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.1995.tb04096.x

    authors: Nivall S,Holmquist D,Gustavsson T,Wahlström J

    更新日期:1995-11-01 00:00:00

  • Urinary tract malformation in the XYY male.

    abstract::Phenotypic expression of the 47,XYY chromosome complement in man has been investigated mostly in terms of the central nervous system. Evidence is presented here to suggest that urinary tract malformation may be a component of the XYY syndrome; this should be taken into account when counselling parents of children wit...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/j.1399-0004.1978.tb02104.x

    authors: Machin GA

    更新日期:1978-12-01 00:00:00

  • Cell-free DNA noninvasive prenatal screening for aneuploidy versus conventional screening: A systematic review of economic evaluations.

    abstract::Although noninvasive prenatal testing (NIPT) for aneuploidies using cell-free fetal DNA in maternal blood has been reported to have a high accuracy, only little evidence about its cost-effectiveness is available. We systematically reviewed and assessed quality of economic evaluation studies published between January 1...

    journal_title:Clinical genetics

    pub_type: 杂志文章

    doi:10.1111/cge.13155

    authors: Nshimyumukiza L,Menon S,Hina H,Rousseau F,Reinharz D

    更新日期:2018-07-01 00:00:00