Literature DB >> 14611663

Expressionview: visualization of quantitative trait loci and gene-expression data in Ensembl.

Gertrud Fischer1, Saleh M Ibrahim, Gudrun A Brockmann, Jens Pahnke, Ezio Bartocci, Hans-Jürgen Thiesen, Pablo Serrano-Fernández, Steffen Möller.   

Abstract

We present here a software tool for combined visualization of gene-expression data and quantitative trait loci (QTL). The application is implemented as an extension to the Ensembl project and caters for a direct transition from microarray experiments of gene or protein expression levels to the genomic context of individual genes and QTL. It supports the visualization of gene clusters and the selection of functional candidate genes in the context of research on complex traits.

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Mesh：

Year:  2003        PMID： 14611663      PMCID： PMC329133          DOI： 10.1186/gb-2003-4-11-r77

Source DB:  PubMed          Journal:  Genome Biol        ISSN： 1474-7596            Impact factor:   13.583


  19 in total

1.  Gene-expression profile of collagen-induced arthritis.

Authors:  Saleh Mohamed Ibrahim; Dirk Koczan; Hans-Jürgen Thiesen
Journal:  J Autoimmun       Date:  2002-03       Impact factor: 7.094

2.  Ensembl 2002: accommodating comparative genomics.

Authors:  M Clamp; D Andrews; D Barker; P Bevan; G Cameron; Y Chen; L Clark; T Cox; J Cuff; V Curwen; T Down; R Durbin; E Eyras; J Gilbert; M Hammond; T Hubbard; A Kasprzyk; D Keefe; H Lehvaslaiho; V Iyer; C Melsopp; E Mongin; R Pettett; S Potter; A Rust; E Schmidt; S Searle; G Slater; J Smith; W Spooner; A Stabenau; J Stalker; E Stupka; A Ureta-Vidal; I Vastrik; E Birney
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

3.  DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions.

Authors:  Ioannis Xenarios; Lukasz Salwínski; Xiaoqun Joyce Duan; Patrick Higney; Sul-Min Kim; David Eisenberg
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

4.  Interval-specific congenic strains (ISCS): an experimental design for mapping a QTL into a 1-centimorgan interval.

Authors:  A Darvasi
Journal:  Mamm Genome       Date:  1997-03       Impact factor: 2.957

5.  Comparison of human genetic and sequence-based physical maps.

Authors:  A Yu; C Zhao; Y Fan; W Jang; A J Mungall; P Deloukas; A Olsen; N A Doggett; N Ghebranious; K W Broman; J L Weber
Journal:  Nature       Date:  2001-02-15       Impact factor: 49.962

6.  Combining mouse congenic strains and microarray gene expression analyses to study a complex trait: the NOD model of type 1 diabetes.

Authors:  Iain A Eaves; Linda S Wicker; Ghassan Ghandour; Paul A Lyons; Laurence B Peterson; John A Todd; Richard J Glynne
Journal:  Genome Res       Date:  2002-02       Impact factor: 9.043

Review 7.  MINT: a Molecular INTeraction database.

Authors:  Andreas Zanzoni; Luisa Montecchi-Palazzi; Michele Quondam; Gabriele Ausiello; Manuela Helmer-Citterich; Gianni Cesareni
Journal:  FEBS Lett       Date:  2002-02-20       Impact factor: 4.124

8.  The map problem: a comparison of genetic and sequence-based physical maps.

Authors:  Andrew T DeWan; Antonio R Parrado; Tara C Matise; Suzanne M Leal
Journal:  Am J Hum Genet       Date:  2001-11-09       Impact factor: 11.025

9.  Cluster analysis and display of genome-wide expression patterns.

Authors:  M B Eisen; P T Spellman; P O Brown; D Botstein
Journal:  Proc Natl Acad Sci U S A       Date:  1998-12-08       Impact factor: 11.205

Review 10.  Congenic mice: cutting tools for complex immune disorders.

Authors:  Ute C Rogner; Philip Avner
Journal:  Nat Rev Immunol       Date:  2003-03       Impact factor: 53.106
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  5 in total

Review 1.  Molecular markers from the transcribed/expressed region of the genome in higher plants.

Authors:  P K Gupta; S Rustgi
Journal:  Funct Integr Genomics       Date:  2004-04-17       Impact factor: 3.410

Review 2.  An integrated strategy for the optimization of microarray data interpretation.

Authors:  Xinmin Li; Richard J Quigg
Journal:  Gene Expr       Date:  2005

3.  Cytoskeletal rearrangements in synovial fibroblasts as a novel pathophysiological determinant of modeled rheumatoid arthritis.

Authors:  Vassilis Aidinis; Piero Carninci; Maria Armaka; Walter Witke; Vaggelis Harokopos; Norman Pavelka; Dirk Koczan; Christos Argyropoulos; Maung-Maung Thwin; Steffen Möller; Kazunori Waki; Waki Kazunori; Ponnampalam Gopalakrishnakone; Paola Ricciardi-Castagnoli; Hans-Jürgen Thiesen; Yoshihide Hayashizaki; George Kollias
Journal:  PLoS Genet       Date:  2005-10-28       Impact factor: 5.917

4.  Comparison of array-based comparative genomic hybridization with gene expression-based regional expression biases to identify genetic abnormalities in hepatocellular carcinoma.

Authors:  Kyle A Furge; Karl J Dykema; Coral Ho; Xin Chen
Journal:  BMC Genomics       Date:  2005-05-09       Impact factor: 3.969

5.  Comparing quantitative trait Loci and gene expression data.

Authors:  Bing Han; Naomi S Altman; Jessica A Mong; Laura Cousino Klein; Donald W Pfaff; David J Vandenbergh
Journal:  Adv Bioinformatics       Date:  2008-09-16
  5 in total

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