(Q33483788)

27 July 2017

title

Methods for interpreting lists of affected genes obtained in a DNA microarray experiment (English)

1 reference

27 July 2017

31

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27 July 2017

Christèle Robert-Granié

26

Christèle Robert-Granié

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Ina Hulsegge

13

Ina Hulsegge

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Gwenola Tosser-Klopp

30

Gwenola Tosser-Klopp

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Arun Kommadath

Arun Kommadath

16

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Sandrine Lagarrigue

Sandrine Lagarrigue

17

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Mari A Smits

Mari A Smits

28

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Laurence Liaubet

Laurence Liaubet

19

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Lene N. Conley

Lene N Conley

7

0 references

Martien Groenen

11

Martien Am Groenen

1 reference

27 July 2017

Jakob Hedegaard

1

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27 July 2017

Cristina Arce

2

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27 July 2017

Silvio Bicciato

3

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27 July 2017

Agnès Bonnet

4

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27 July 2017

Bart Buitenhuis

5

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27 July 2017

Melania Collado-Romero

6

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27 July 2017

Magali SanCristobal

8

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27 July 2017

Francesco Ferrari

9

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27 July 2017

Juan J Garrido

10

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27 July 2017

Henrik Hornshøj

12

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27 July 2017

Ina Hulsegge

13

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27 July 2017

Li Jiang

14

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27 July 2017

Ángeles Jiménez-Marín

15

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27 July 2017

Jack Am Leunissen

18

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27 July 2017

Pieter Bt Neerincx

20

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27 July 2017

Haisheng Nie

21

1 reference

27 July 2017

Jan van der Poel

22

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27 July 2017

Dennis Prickett

23

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27 July 2017

María Ramirez-Boo

24

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27 July 2017

Johanna Mj Rebel

25

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27 July 2017

Christèle Robert-Granié

26

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27 July 2017

Axel Skarman

27

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27 July 2017

Peter Sørensen

29

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27 July 2017

publication date

16 July 2009

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27 July 2017

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27 July 2017

volume

3 Suppl 4

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27 July 2017

page(s)

S5

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Creative Commons Attribution 2.0 Generic

27 July 2017

copyright license

start time

16 July 2009

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

describes a project that uses

limma

LIMMA

2 references

22 June 2022

https://europepmc.org/article/PMC/2712748

based on heuristic

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

cites work

Microarray data mining using Bioconductor packages.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Gene set analysis methods applied to chicken microarray expression data

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Use of GenMAPP and MAPPFinder to analyse pathways involved in chickens infected with the protozoan parasite Eimeria

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Biological pathway analysis by ArrayUnlock and Ingenuity Pathway Analysis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

OligoRAP - an Oligo Re-Annotation Pipeline to improve annotation and estimate target specificity

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

sigReannot: an oligo-set re-annotation pipeline based on similarities with the Ensembl transcripts and Unigene clusters

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

IMAD: flexible annotation of microarray sequences

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Pathway results from the chicken data set using GOTM, Pathway Studio and Ingenuity softwares

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Globaltest and GOEAST: two different approaches for Gene Ontology analysis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Comparison of three microarray probe annotation pipelines: differences in strategies and their effect on downstream analysis.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Microarray-based gene set analysis: a comparison of current methods

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

GOEAST: a web-based software toolkit for Gene Ontology enrichment analysis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Analysis of a simulated microarray dataset: comparison of methods for data normalisation and detection of differential expression (open access publication).

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Analysis of the real EADGENE data set: multivariate approaches and post analysis (open access publication)

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Analysis of the real EADGENE data set: comparison of methods and guidelines for data normalisation and selection of differentially expressed genes (open access publication)

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

The EADGENE Microarray Data Analysis Workshop (open access publication).

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Comparative evaluation of gene-set analysis methods

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

GenMAPP 2: new features and resources for pathway analysis

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Analyzing gene expression data in terms of gene sets: methodological issues

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Using GOstats to test gene lists for GO term association

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Improved scoring of functional groups from gene expression data by decorrelating GO graph structure

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Effects of threshold choice on biological conclusions reached during analysis of gene expression by DNA microarrays

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

GOTree Machine (GOTM): a web-based platform for interpreting sets of interesting genes using Gene Ontology hierarchies

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

A global test for groups of genes: testing association with a clinical outcome

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

MAPPFinder: using Gene Ontology and GenMAPP to create a global gene-expression profile from microarray data

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

GenMAPP, a new tool for viewing and analyzing microarray data on biological pathways

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

Gene ontology: tool for the unification of biology

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

KEGG: kyoto encyclopedia of genes and genomes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2712748

10.1186/1753-6561-3-S4-S5

21 June 2018

Identifiers

DOI

1 reference

Dimensions Publication ID

27 July 2017

1 reference

https://scigraph.springernature.com/pub.10.1186/1753-6561-3-s4-s5

9 September 2019

1 reference

27 July 2017

1 reference