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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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caArray citations

 (94)
library_books

A collection of annotated and harmonized human breast cancer transcriptome datasets, including immunologic classification

2018
F1000Res
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 […]

library_books

FRK inhibits breast cancer cell migration and invasion by suppressing epithelial mesenchymal transition

2017
Oncotarget
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 […]

library_books

EYA2 promotes lung cancer cell proliferation by downregulating the expression of PTEN

2017
Oncotarget
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, […]

library_books

Integrative analysis of genome wide gene copy number changes and gene expression in non small cell lung cancer

2017
PLoS One
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 […]

library_books

Cooperative oncogenic effect and cell signaling crosstalk of co occurring HER2 and mutant PIK3CA in mammary epithelial cells

2017
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 […]

library_books

DCYTB is a predictor of outcome in breast cancer that functions via iron independent mechanisms

2017
PMCID: 5341190
PMID: 28270217
DOI: 10.1186/s13058-017-0814-9

[…] are due to missing data in each of these categories er estrogen receptor, ln lymph node, her2 human epidermal growth factor 2, pr progesterone receptor, na not applicable aconstructed from data in caarray: mille-00271; geo: gse1456, gse6532, gse9195 bconstructed from data in geo: gse25055, gse25065, gse2043, gse42568 cnormal tissue samples are not included in the number of patients (n) dcohort […]


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