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ArrayXPath specifications


Unique identifier OMICS_09771
Name ArrayXPath
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publications for ArrayXPath

ArrayXPath citations


A Novel Approach for Discovering Condition Specific Correlations of Gene Expressions within Biological Pathways by Using Cloud Computing Technology

Biomed Res Int
PMCID: 3919110
PMID: 24579087
DOI: 10.1155/2014/763237

[…] ological significance of gene expression microarray data []. When pathways are extracted from Pathway Miner, the levels of gene expression can be discerned, but four samples could be shown at a time. ArrayXPath functions by focusing on mapping and visualizing microarray gene-expression data with biomedical ontologies and integrated biological pathway information and by displaying the results using […]


Chapter 8: Biological Knowledge Assembly and Interpretation

PLoS Comput Biol
PMCID: 3531281
PMID: 23300429
DOI: 10.1371/journal.pcbi.1002858

[…] rected Acyclic Graph), in which each term may be a child of one or more parents. Pathways have directed graph structures. Clusters may also be organized into a hierarchical tree or a graph structure. ArrayXPath , provides one of the most comprehensive collections of these structured features for annotation analysis .Differential expression analysis determines significantly down- or up-regulated g […]


State of the Art in Silico Tools for the Study of Signaling Pathways in Cancer

Int J Mol Sci
PMCID: 3397482
PMID: 22837650
DOI: 10.3390/ijms13066561

[…] MAPP/MAPPfinder [,] and Gene-Sifter use a standardized Z-score. PathwayProcessor [], PathMAPA [], Cytoscape [], and PathwayMine [] use Fisher’s exact test. MetaCore uses a hypergeometric model, while ArrayXPath [] offers both Fisher’s exact test and a false discovery rate. VitaPad [] and Pathway Studio [] focus on visualization approaches alone and do not offer any detailed analyses. Finally, the […]


Cytotoxic Effect of Recombinant Mycobacterium tuberculosis CFP 10/ESAT 6 Protein on the Crucial Pathways of WI 38 Cells

PMCID: 2702506
PMID: 19584916
DOI: 10.1155/2009/917084

[…] designed mainly for identification of important genes. Other tools like GenMAPP [], PharmGKB [], and KEGG [] only show the positions of the genes on a known pathway. Although some softwares such as ArrayXpath [] integrate the pathway resources and provide analysis and visualization tools for deciphering the important genes and pathway structures, no notion of chaining or aggregating regulatory e […]


miRGator: an integrated system for functional annotation of microRNAs

Nucleic Acids Res
PMCID: 2238850
PMID: 17942429
DOI: 10.1093/nar/gkm829

[…] combining the UCSC kgXref table (known gene to UniProt ID) and GOA association table (UniProt ID to GO nodes) from the GO web site (,). Genes in the KEGG/GenMAPP/BioCarta pathways were obtained from ArrayXPath database (). IPA's gene to disease mapping from Ingenuity Systems was used to test disease enrichment of miRNA targets. IPA's disease classification system consists of more than 7000 terms […]


Linking microarray reporters with protein functions

BMC Bioinformatics
PMCID: 2140066
PMID: 17897448
DOI: 10.1186/1471-2105-8-360

[…] fic Gene Ontology (GO) classification [,-]. A complementary approach is to interpret the data in a biological way by making use of pathway visualization tools, such as GenMAPP [,], MetaCore [] and/or ArrayXPath II []. These tools link an element in a pathway with a specific identifier, usually by an EnsEMBL, UniProt, UniGene, Entrez Gene or GO ID. Hence, to allow the biological interpretation in a […]

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ArrayXPath institution(s)
Seoul National University Biomedical Informatics (SNUBI); Human Genome Research Institute, Seoul National University College of Medicine, Seoul, Korea

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