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High-Throughput GoMiner, an 'industrial-strength' integrative gene ontology tool for interpretation of multiple-microarray experiments, with application to studies of Common Variable Immune Deficiency (CVID).
Zeeberg BR, Qin H, Narasimhan S, Sunshine M, Cao H, Kane DW, Reimers M, Stephens RM, Bryant D, Burt SK, Elnekave E, Hari DM, Wynn TA, Cunningham-Rundles C, Stewart DM, Nelson D, Weinstein JN
BMC Bioinformatics
2005,
6
:168
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BioMed Central articles that cite the above article:
1.
Research article
Glucocorticoids with different chemical structures but similar glucocorticoid receptor potency regulate subsets of common and unique genes in human trabecular meshwork cells
Nehmé A, Lobenhofer EK, Stamer WD, Edelman JL
BMC Medical Genomics
2009,
2
:58
(10 September 2009)
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Interactome and Gene Ontology provide congruent yet subtly different views of a eukaryotic cell
Marco A, Marín I
BMC Systems Biology
2009,
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(15 July 2009)
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3.
Software
Seeking unique and common biological themes in multiple gene lists or datasets: pathway pattern extraction pipeline for pathway-level comparative analysis
Yi M, Mudunuri U, Che A, Stephens RM
BMC Bioinformatics
2009,
10
:200
(29 June 2009)
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MicroRNA and gene expression patterns in the differentiation of human embryonic stem cells
Ren J, Jin P, Wang E, Marincola FM, Stroncek DF
Journal of Translational Medicine
2009,
7
:20
(23 March 2009)
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An Open Access Database of Genome-wide Association Results
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2009,
10
:6
(22 January 2009)
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6.
Short Report
Advanced spot quality analysis in two-colour microarray experiments
Yatskou M, Novikov E, Vetter G, Muller A, Barillot E, Vallar L, Friederich E
BMC Research Notes
2008,
1
:80
(17 September 2008)
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7.
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Gene expression response in target organ and whole blood varies as a function of target organ injury phenotype
Lobenhofer EK, Auman JT, Blackshear PE, Boorman GA, Bushel PR, Cunningham ML, Fostel JM, Gerrish K, Heinloth AN, Irwin RD, Malarkey DE, Merrick BA, Sieber SO, Tucker CJ, Ward SM, Wilson RE, Hurban P, Tennant RW, Paules RS
Genome Biology
2008,
9
:R100
(20 June 2008)
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Genes related to apoptosis predict necrosis of the liver as a phenotype observed in rats exposed to a compendium of hepatotoxicants
Huang L, Heinloth AN, Zeng ZB, Paules RS, Bushel PR
BMC Genomics
2008,
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:288
(16 June 2008)
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9.
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VennMaster: Area-proportional Euler diagrams for functional GO analysis of microarrays
Kestler HA, Müller A, Kraus JM, Buchholz M, Gress TM, Liu H, Kane DW, Zeeberg BR, Weinstein JN
BMC Bioinformatics
2008,
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:67
(29 January 2008)
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10.
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A general strategy to determine the congruence between a hierarchical and a non-hierarchical classification
Marco A, Marín I
BMC Bioinformatics
2007,
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:442
(15 November 2007)
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11.
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The LeFE algorithm: embracing the complexity of gene expression in the interpretation of microarray data
Eichler GS, Reimers M, Kane D, Weinstein JN
Genome Biology
2007,
8
:R187
(10 September 2007)
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The DAVID Gene Functional Classification Tool: a novel biological module-centric algorithm to functionally analyze large gene lists
Huang DW, Sherman BT, Tan Q, Collins JR, Alvord WG, Roayaei J, Stephens R, Baseler MW, Lane HC, Lempicki RA
Genome Biology
2007,
8
:R183
(4 September 2007)
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Gene expression changes associated with Barrett's esophagus and Barrett's-associated adenocarcinoma cell lines after acid or bile salt exposure
Hao Y, Sood S, Triadafilopoulos G, Kim JH, Wang Z, Sahbaie P, Omary MB, Lowe AW
BMC Gastroenterology
2007,
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:24
(27 June 2007)
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14.
Database
SpliceMiner: a high-throughput database implementation of the NCBI Evidence Viewer for microarray splice variant analysis
Kahn AB, Ryan MC, Liu H, Zeeberg BR, Jamison DC, Weinstein JN
BMC Bioinformatics
2007,
8
:75
(5 March 2007)
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Prüfer K, Muetzel B, Do HH, Weiss G, Khaitovich P, Rahm E, Pääbo S, Lachmann M, Enard W
BMC Bioinformatics
2007,
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:41
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16.
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PageMan: An interactive ontology tool to generate, display, and annotate overview graphs for profiling experiments
Usadel B, Nagel A, Steinhauser D, Gibon Y, Bläsing OE, Redestig H, Sreenivasulu N, Krall L, Hannah MA, Poree F, Fernie AR, Stitt M
BMC Bioinformatics
2006,
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:535
(18 December 2006)
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Mining expressed sequence tags identifies cancer markers of clinical interest
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18.
Proceedings
GOFFA: Gene Ontology For Functional Analysis
A FDA Gene Ontology Tool for Analysis of Genomic and Proteomic Data
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BMC Bioinformatics
2006,
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(Suppl 2):S23
(26 September 2006)
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Cluster analysis of protein array results via similarity of Gene Ontology annotation
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BMC Bioinformatics
2006,
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STEM: a tool for the analysis of short time series gene expression data
Ernst J, Bar-Joseph Z
BMC Bioinformatics
2006,
7
:191
(5 April 2006)
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21.
Research
The molecular portrait of
in vitro
growth by meta-analysis of gene-expression profiles
Sandberg R, Ernberg I
Genome Biology
2005,
6
:R65
(27 July 2005)
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This article is also cited by a further
23 articles
in PubMed Central
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