caArray specifications

Information


Unique identifier OMICS_00864
Name caArray
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
License BSD 3-clause “New” or “Revised” License
Computer skills Advanced
Stability Stable
Maintained Yes

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Documentation


caArray in publications

 (94)
PMCID: 5820610
PMID: 29527288
DOI: 10.5256/f1000research.11813.r24330

[…] not fulfill these criteria and were therefore not annotated. of note, 115 cases of original meta-cohort used nagalla’s study (n=1954) were not shared within geo, but shared within other platforms (caarray and arrayexpress). for this reason, these samples were not included in our gxb collection ( )., the datasets that comprise our collection are listed in and can be searched interactively […]

PMCID: 5762571
PMID: 29348886
DOI: 10.18632/oncotarget.22958

[…] n-cadherin, fibronectin, and twist in the breast cancer cells lines mined from geo accession numbers gse10021, gse10843, gse3156, gse10890 and gsk's cell line project (https://array.nci.nih.gov/caarray/project/woost-00041/). we, however, did not see an inverse correlation between frk and fibronectin/vimentin in the breast tumor samples. we believe that this may be due to the heterogeneous […]

PMCID: 5762288
PMID: 29340020
DOI: 10.18632/oncotarget.22860

[…] a worse overall survival probability (figure ; p = 0.029). similarly, in the gse30219 dataset, high level of eya2 also conferred poor prognosis in lung cancer patients (figure ; p = 0.0083). in the caarray lung cancer dataset, there was trend toward inferior prognosis in patients with high expression of eya2, even it did not reach a statistical significance (figure ; p = 0.065). at last, […]

PMCID: 5675410
PMID: 29112949
DOI: 10.1371/journal.pone.0187246

[…] from the gene expression omnibus (http://www.ncbi.nlm.nih.gov/geo/) except for shedden et al. [] which was downloaded from the website of the national cancer institute (https://array.nci.nih.gov/caarray/). the raw data was normalized using frozen robust multiarray analysis (frma) [] apart from gse4573 and gse3141 for which only mas5 normalized data was available. normal (non-tumoral) samples […]

PMCID: 5592866
PMID: 28902361
DOI: 10.3892/ijo.2017.4108

[…] a published database was used for bioinformatic analysis. this database contains gene expression and copy number information for 51 breast cancer cell lines () (http://caarraydb.nci.nih.gov/caarray/publicex-perimentdetailaction.do?expid=1015897590151581 at http://cancer.lbl.gov/breastcancer/data.php). among these 51 cell lines, 13 cell lines contain pik3ca mutations. the other 38 […]


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