Genotyping with TaqMAMA.

Abstract:

:TaqMAMA combines the quantitative strengths of TaqMan with the allele-specific PCR of MAMA. In this article we develop TaqMAMA as a technique for screening human DNA samples for known genetic polymorphisms. In the first set of experiments, plasmids that model all types of genetic polymorphisms were used to understand the relationship between TaqMAMA primer/template mismatches and their strength of allelic discrimination. These data can be used to improve allelic discrimination of other primer extension genotyping methodologies through directed use of nucleotide mismatches. We used the data to derive a guide for TaqMAMA primer design and DNA strand selection for TaqMAMA genotyping assays. The guide was then used to develop assays for 11 known and novel human genetic polymorphisms. Genotypes were assigned quickly and accurately in all cases. TaqMAMA genotyping assays require minimal development time, have a high probability of success, produce reliable data that are straightforward to analyze, and are very cost-competitive.

journal_name

Genomics

journal_title

Genomics

authors

Li B,Kadura I,Fu DJ,Watson DE

doi

10.1016/j.ygeno.2003.08.005

subject

Has Abstract

pub_date

2004-02-01 00:00:00

pages

311-20

issue

2

eissn

0888-7543

issn

1089-8646

pii

S0888754303002441

journal_volume

83

pub_type

杂志文章

相关文献

GENOMICS文献大全
  • Human repeat element-mediated PCR: cloning and mapping of chromosome 10 DNA markers.

    abstract::Repeat element-mediated PCR can facilitate rapid cloning and mapping of human chromosomal region-specific DNA markers from somatic cell hybrid DNA. PCR primers directed to human repeat elements result in human-specific DNA synthesis; template DNA derived from a somatic cell hybrid containing the human chromosomal regi...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(92)90261-p

    authors: Brooks-Wilson AR,Smailus DE,Weier HU,Goodfellow PJ

    更新日期:1992-06-01 00:00:00

  • Isolation and characterization of a rat delta-aminolevulinate dehydratase processed pseudogene.

    abstract::Southern blot analysis of genomic DNA from different strains of rat indicated that there were multiple copies of the gene encoding the second enzyme of the heme biosynthetic pathway, delta-aminolevulinate dehydratase (ALA-D). Two types of genomic clones were isolated from a Sprague-Dawley rat library. One appears to b...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(90)90210-l

    authors: Bishop TR,Frelin LP,Boyer SH

    更新日期:1990-08-01 00:00:00

  • An extended genetic linkage map and an "index" map for human chromosome 17.

    abstract::Our previous genetic map for chromosome 17 has been expanded to include 72 loci defined by 90 RFLP markers and four microsatellite markers assayed by the polymerase chain reaction. Forty-one of these loci were ordered with odds greater than 1000:1 against local inversion, and the other 31 were ordered within 95% confi...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1993.1007

    authors: O'Connell P,Plaetke R,Matsunami N,Odelberg S,Jorde L,Chance P,Leppert M,Lalouel JM,White R

    更新日期:1993-01-01 00:00:00

  • Genomic analysis of racial differences in triple negative breast cancer.

    abstract::Triple negative breast cancer (TNBC) is more prevalent in African Americans (AAs), has a more aggressive clinical course including a higher mortality rate and an increased occurrence of metastases. This study was designed to determine if racial differences at the molecular level might explain the more aggressive pheno...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2018.10.010

    authors: Chang CS,Kitamura E,Johnson J,Bollag R,Hawthorn L

    更新日期:2019-12-01 00:00:00

  • Physical mapping of genetic markers on the short arm of chromosome 5.

    abstract::The deletion of the short arm of chromosome 5 is associated with the cri-du-chat syndrome. In addition, loss of this portion of a chromosome is a common cytogenetic marker in a number of malignancies. However, to date, no genes associated with these disorders have been identified. Physical maps are the first step in i...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1994.1668

    authors: Gersh M,Goodart SA,Overhauser J

    更新日期:1994-12-01 00:00:00

  • Characterization of MAD2B and other mitotic spindle checkpoint genes.

    abstract::Aneuploidy is a characteristic of the majority of human cancers, and recent work has suggested that mitotic checkpoint defects play a role in its development. To further explore this issue, we isolated a novel human gene, MAD2B (MAD2L2), which is homologous to the spindle checkpoint gene MAD2 (MAD2L1). We determined t...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1999.5831

    authors: Cahill DP,da Costa LT,Carson-Walter EB,Kinzler KW,Vogelstein B,Lengauer C

    更新日期:1999-06-01 00:00:00

  • Effect of selenocystine on gene expression profiles in human keloid fibroblasts.

    abstract::In this study, selenocystine, a nutritionally available selenoamino acid, was identified for the first time as a novel agent with anti proliferative activity on human keloids. The 20 μM concentration after 48 h treatment used here was the most effective to reduce keloid fibroblast growth. We analyzed the gene expressi...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2011.02.009

    authors: De Felice B,Garbi C,Wilson RR,Santoriello M,Nacca M

    更新日期:2011-05-01 00:00:00

  • Physical mapping and YAC contig analysis of the region surrounding Xist on the mouse X chromosome.

    abstract::The Xist sequence has been proposed as a potential candidate for the X-inactivation center based both on its localization within the candidate region for the X-inactivation center in man and mouse and on its unique pattern of expression from the inactive X chromosome. We have cloned 550 kb of DNA surrounding the mouse...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1993.1108

    authors: Heard E,Simmler MC,Larin Z,Rougeulle C,Courtier B,Lehrach H,Avner P

    更新日期:1993-03-01 00:00:00

  • Molecular cloning and chromosomal localization of the human alpha 7-nicotinic receptor subunit gene (CHRNA7).

    abstract::We have isolated cDNA and genomic clones coding for the human alpha 7 neuronal nicotinic receptor subunit, the major component of brain nicotinic receptors that are blocked by alpha-bungarotoxin. The human alpha 7 neuronal nicotinic cDNA encodes a mature protein of 479 amino acids that is highly homologous to the rat ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1994.1075

    authors: Chini B,Raimond E,Elgoyhen AB,Moralli D,Balzaretti M,Heinemann S

    更新日期:1994-01-15 00:00:00

  • Assignment of the human pulmonary surfactant protein D gene (SFTP4) to 10q22-q23 close to the surfactant protein A gene cluster.

    abstract::Pulmonary surfactant consists of a complex mixture of phospholipids and several proteins essential to normal respiratory function. Two of the surfactant proteins, SP-A and SP-D, appear to have lectin-like activity relevant to the local phagocytic defense. Using polymerase chain reaction (PCR)-based somatic cell hybrid...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1993.1324

    authors: Kölble K,Lu J,Mole SE,Kaluz S,Reid KB

    更新日期:1993-08-01 00:00:00

  • Regional assignment of the human homeobox-containing gene EN1 to chromosome 2q13-q21.

    abstract::The human homeobox-containing genes EN1 and EN2 are closely related to the Drosophila pattern formation gene engrailed (en), which may be important in brain development, as shown by gene expression studies during mouse embryogenesis. Here, we have refined the localization of EN1 to human chromosome 2q13-q21 using a ma...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1993.1045

    authors: Köhler A,Logan C,Joyner AL,Muenke M

    更新日期:1993-01-01 00:00:00

  • Expression analysis, genomic structure, and mapping to 7q31 of the human sperm adhesion molecule gene SPAM1.

    abstract::During the course of systematic sequence tag analysis of clones isolated from an adult testis cDNA library, clones 296 and 576 were found to detect 71-74% sequence identity to the guinea pig sperm surface protein PH-20. This surface protein is involved in sperm-egg adhesion in the guinea pig. Nucleotide sequence for 1...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1995.9931

    authors: Jones MH,Davey PM,Aplin H,Affara NA

    更新日期:1995-10-10 00:00:00

  • Epigenetic suppression of iNOS expression in human endothelial cells: A potential role of Ezh2-mediated H3K27me3.

    abstract:OBJECTIVE:Cytokines strongly induce expression of the inducible nitric oxide synthase (iNOS) in rodent but not in human endothelial cells. We recently identified NOS2 as a potential target of the histone methyltransferase enhancer of zeste homolog 2 which mediates trimethylation of histone 3 at lysine 27 (H3K27me3). M...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2016.02.002

    authors: Dreger H,Ludwig A,Weller A,Baumann G,Stangl V,Stangl K

    更新日期:2016-04-01 00:00:00

  • Structure and evolution of the human prosaposin chromosomal gene.

    abstract::The gene for prosaposin was characterized by sequence analysis of chromosomal DNA to gain insight into the evolution of this locus that encodes four highly conserved sphingolipid activator proteins or saposins. The 13 exons ranged in size from 57 to 1200 bp, while the introns were from 91 to 3812 bp in length. The reg...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(92)90247-p

    authors: Rorman EG,Scheinker V,Grabowski GA

    更新日期:1992-06-01 00:00:00

  • Order and genomic distances among members of the carcinoembryonic antigen (CEA) gene family determined by fluorescence in situ hybridization.

    abstract::Fluorescence in situ hybridization was used to establish the order of, and to estimate genomic distances among, members of the carcinoembryonic antigen (CEA) and pregnancy-specific glycoprotein (PSG) subgroups on chromosome 19. Fluorescence in situ hybridization to metaphase chromosomes localized the PSG subgroup telo...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(92)90308-f

    authors: Brandriff BF,Gordon LA,Tynan KT,Olsen AS,Mohrenweiser HW,Fertitta A,Carrano AV,Trask BJ

    更新日期:1992-04-01 00:00:00

  • A first comparative map of copy number variations in the sheep genome.

    abstract::We carried out a cross species cattle-sheep array comparative genome hybridization experiment to identify copy number variations (CNVs) in the sheep genome analysing ewes of Italian dairy or dual-purpose breeds (Bagnolese, Comisana, Laticauda, Massese, Sarda, and Valle del Belice) using a tiling oligonucleotide array ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2010.11.005

    authors: Fontanesi L,Beretti F,Martelli PL,Colombo M,Dall'olio S,Occidente M,Portolano B,Casadio R,Matassino D,Russo V

    更新日期:2011-03-01 00:00:00

  • Paralogy mapping: identification of a region in the human MHC triplicated onto human chromosomes 1 and 9 allows the prediction and isolation of novel PBX and NOTCH loci.

    abstract::The human genome contains a group of gene families whose members map within the same regions of chromosomes 1, 6, and 9. The number of gene families involved and their pronounced clustering to the same areas of the genome indicate that their mapping relationship is nonrandom. By combining mapping data and sequence inf...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.0328

    authors: Katsanis N,Fitzgibbon J,Fisher EM

    更新日期:1996-07-01 00:00:00

  • The two-component signal system in rice (Oryza sativa L.): a genome-wide study of cytokinin signal perception and transduction.

    abstract::In this report we define the genes of two-component regulatory systems in rice through a comprehensive computational analysis of rice (Oryza sativa L.) genome sequence databases. Thirty-seven genes were identified, including 5 HKs (cytokinin-response histidine protein kinase) (OsHK1-4, OsHKL1), 5 HPs (histidine phosph...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2007.02.001

    authors: Du L,Jiao F,Chu J,Jin G,Chen M,Wu P

    更新日期:2007-06-01 00:00:00

  • Knockdown of Gh_A05G1554 (GhDHN_03) and Gh_D05G1729 (GhDHN_04) Dehydrin genes, Reveals their potential role in enhancing osmotic and salt tolerance in cotton.

    abstract::In this investigation, whole-genome identification and functional characterization of the cotton dehydrin genes was carried out. A total of 16, 7, and 7 dehydrin proteins were identified in G. hirsutum, G. arboreum and G. raimondii, respectively. Through RNA sequence data and RT-qPCR validation, Gh_A05G1554 (GhDHN_03)...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2019.11.003

    authors: Kirungu JN,Magwanga RO,Pu L,Cai X,Xu Y,Hou Y,Zhou Y,Cai Y,Hao F,Zhou Z,Wang K,Liu F

    更新日期:2020-03-01 00:00:00

  • Molecular characterization of Beckwith-Wiedemann syndrome (BWS) patients with partial duplication of chromosome 11p excludes the gene MYOD1 from the BWS region.

    abstract::The molecular characterization of two patients with features of Beckwith-Wiedemann syndrome (BWS) and chromosome abnormalities is consistent with the association of this phenotype with a duplication of a portion of chromosome 11. Quantitative Southern blot analysis of DNA from patient A defines a large inherited dupli...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(90)90256-t

    authors: Weksberg R,Glaves M,Teshima I,Waziri M,Patil S,Williams BR

    更新日期:1990-12-01 00:00:00

  • Comparative sequence analysis of the Gdf6 locus reveals a duplicon-mediated chromosomal rearrangement in rodents and rapidly diverging coding and regulatory sequences.

    abstract::Duplicated segments of genomic DNA can catalyze both gene evolution and chromosome evolution. Here we describe a rodent-specific duplication involving the Uqcrb gene, a cis-regulatory element for the Gdf6 gene, and a chromosomal rearrangement. Comparisons of Gdf6 sequences from several placental mammals and platypus r...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2004.07.009

    authors: Mortlock DP,Portnoy ME,Chandler RL,NISC Comparative Sequencing Program.,Green ED

    更新日期:2004-11-01 00:00:00

  • An efficient method for selecting unique-sequence clones from DNA libraries and its application to fluorescent staining of human chromosome 21 using in situ hybridization.

    abstract::This paper describes an efficient procedure for selecting large numbers of unique-sequence or very low repeat-sequence probes from recombinant phage libraries. Probes were selected from the Charon 21A library LL21NS02 (made from DNA from human chromosome 21) in a multistep process in which (1) inserts from LL21NS02 we...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/0888-7543(89)90092-x

    authors: Fuscoe JC,Collins CC,Pinkel D,Gray JW

    更新日期:1989-07-01 00:00:00

  • X-linked recessive atrophic macular degeneration from RPGR mutation.

    abstract::We mapped a new X-linked recessive atrophic macular degeneration locus to Xp21.1-p11.4 and show allelic involvement of the gene RPGR, which normally causes severe peripheral retinal degeneration leading to global blindness. Ten affected males whom we examined had primarily macular atrophy causing progressive loss of v...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.2002.6815

    authors: Ayyagari R,Demirci FY,Liu J,Bingham EL,Stringham H,Kakuk LE,Boehnke M,Gorin MB,Richards JE,Sieving PA

    更新日期:2002-08-01 00:00:00

  • Three murine cataract mutants (Cat2) are defective in different gamma-crystallin genes.

    abstract::A number of murine cataract mutations have been localized to chromosome 1 close to the gamma-crystallin gene cluster (Cryg) (Everett et al., 1994, Genomics 20: 429-434; Löster et al., 1994, Genomics 23: 240-242). Based on the size of the mapping or allelism tests they have not been shown to be genetically distinct and...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1998.5417

    authors: Klopp N,Favor J,Löster J,Lutz RB,Neuhäuser-Klaus A,Prescott A,Pretsch W,Quinlan RA,Sandilands A,Vrensen GF,Graw J

    更新日期:1998-09-01 00:00:00

  • Genomic structure and chromosomal localization of the mouse CDEI-binding protein CDEBP (APLP2) gene and promoter sequences.

    abstract::The genomic structure of the mouse gene encoding the CDEBP protein has been established. The protein was initially identified on the basis of its ability to bind the CDEI motif (GTCACATG). The same locus has been independently described under the name APLP2, on the basis of sequence similarities with the Amyloid Precu...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.0318

    authors: Yang Y,Martin L,Cuzin F,Mattei MG,Rassoulzadegan M

    更新日期:1996-07-01 00:00:00

  • Tandem repeats 3' of the IGHA genes in the human immunoglobulin heavy chain gene cluster.

    abstract::The human IGH constant region spans 350 kb and includes nine genes and two pseudogenes. All of the constant region gene cluster has been cloned except for sequences between the IGHD and IGHG3 genes, between the IGHA1 and IGHG2 genes, and the 3' region downstream of the IGHA2 gene. The regions 3' of the IGHA genes, whi...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1996.0338

    authors: Kang HK,Cox DW

    更新日期:1996-07-01 00:00:00

  • Microarray analysis of gene expression profile in resistant and susceptible Bombyx mori strains reveals resistance-related genes to nucleopolyhedrovirus.

    abstract::To investigate the molecular mechanism of silkworm resistance to BmNPV infection, we constructed a near-isogenic line (BC8) with BmNPV resistance using highly resistant (NB) and highly susceptible parental strains (306). We investigated variations in the gene expression in the midguts of BmNPV-infected BC8 and 306 at ...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2013.02.004

    authors: Zhou Y,Gao L,Shi H,Xia H,Gao L,Lian C,Chen L,Yao Q,Chen K,Liu X

    更新日期:2013-04-01 00:00:00

  • Gene expression changes in children with autism.

    abstract::The objective of this study was to identify gene expression differences in blood differences in children with autism (AU) and autism spectrum disorder (ASD) compared to general population controls. Transcriptional profiles were compared with age- and gender-matched, typically developing children from the general popul...

    journal_title:Genomics

    pub_type: 杂志文章,多中心研究

    doi:10.1016/j.ygeno.2007.09.003

    authors: Gregg JP,Lit L,Baron CA,Hertz-Picciotto I,Walker W,Davis RA,Croen LA,Ozonoff S,Hansen R,Pessah IN,Sharp FR

    更新日期:2008-01-01 00:00:00

  • Exonic SINE insertion in STK38L causes canine early retinal degeneration (erd).

    abstract::Fine mapping followed by candidate gene analysis of erd - a canine hereditary retinal degeneration characterized by aberrant photoreceptor development - established that the disease cosegregates with a SINE insertion in exon 4 of the canine STK38L/NDR2 gene. The mutation removes exon 4 from STK38L transcripts and is p...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1016/j.ygeno.2010.09.003

    authors: Goldstein O,Kukekova AV,Aguirre GD,Acland GM

    更新日期:2010-12-01 00:00:00

  • Genomic structure, promoter sequence, and revised translation of human homeobox gene HLX1.

    abstract::The human homeobox gene HLX1 appears to be involved in hemopoietic development and may represent a candidate gene for various developmental or hemopoietic disorders. We have isolated genomic clones for the gene, determined its intron-exon organization, and confirmed its map location on chromosome 1q41-q42. The transcr...

    journal_title:Genomics

    pub_type: 杂志文章

    doi:10.1006/geno.1994.1394

    authors: Kennedy MA,Rayner JC,Morris CM

    更新日期:1994-07-15 00:00:00