E-MTAB-2610 - Expression profiling in four human bladder cancer cell lines

Status
Released on 30 August 2014, last updated on 29 June 2015
Organism
Homo sapiens
Samples (11)
Array (1)
Protocols (7)
Description
To identify miRNA-target interactions that are important in bladder cancer metastasis, we profiled miRNA and mRNA expression in poorly metastatic cell lines T24 and LUC, and their metastatic derivatives FL4 and LUL2, respectively. We reasoned that miRNAs and genes that expressed differently between parental and derivative cell lines could potentially contribute to their disparity in metastatic competence. We further hypothesized that interactions between these miRNAs and target genes may play an important role in metastatic competence. We have developed the multiMiR R pacakge and database for such integrated analysis of miRNA-target interactions. Here we demonstrate how multiMiR was used to generate testable hypotheses that could be pursued experimentally. The data set here is from the mRNA expression profiling experiment. Please see E-MTAB-2611 ( https://www.ebi.ac.uk/arrayexpress/experiments/E-MTAB-2611/ ) for the microRNA profiling data set.
Experiment types
transcription profiling by array, cell type comparison design, co-expression, in vitro
Contact
Citations
The multiMiR R package and database: integration of microRNA-target interactions along with their disease and drug associations. Ru Y, Kechris KJ, Tabakoff B, Hoffman P, Radcliffe RA, Bowler R, Mahaffey S, Rossi S, Calin GA, Bemis L, Theodorescu D. :e133 (2014), PMID:25063298
The multiMiR R package and database: Integration of microRNA-target interactions along with their disease and drug associations. Yuanbin Ru, Katerina Kechris, et al.
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-MTAB-2610.idf.txt
Sample and data relationshipE-MTAB-2610.sdrf.txt
Raw data (1)E-MTAB-2610.raw.1.zip
Processed data (1)E-MTAB-2610.processed.1.zip
Array designA-AFFY-33.adf.txt
Links