Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

Deciphering targets of CD271-dependent signaling processes


ABSTRACT: Genome-wide expression profiling of stably NGFR transfected melanoma cells was used to identify genes driven by expression of the nerve growth factor receptor CD271 (NGFR). Stable overexpression of NGFR (CD271): Generation of cell lines stably overexpressing CD271 (NGFR), melanoma cells were transfected with 2 µg of a plasmid expressing GFP-tagged human NGFR (RG207966, OriGene) and selected with G418 (100-300 µg/ml, PAA) over a period of two weeks followed by sub-cloning or FACS. Gene expression profiling: Whole genome expression profiling of T20/02 and A375 cells (NGFR) and control cells (Mock or GFP) was performed with three biological replicates. Illumina raw data of BeadChip HumanHT-12V4 platform were summarized via the BeadStudio without normalization and background correction. Follow-up processing was done via the R/Bioconductor environment employing packages lumi, limma and q-value. Data were normalized with quantile normalization. Genes were termed significantly differentially expressed when the average detection p-value of at least one case was < 0.05 the ratio was outside the interval [0.75,1.33], one of the p-values from limma test, Student's t-test, Welch test and Wilcoxon test was < 0.05. At least one of the q-values corresponding to one of these tests < 0.05.

ORGANISM(S): Homo sapiens

SUBMITTER: Christian Regenbrecht 

PROVIDER: E-GEOD-78155 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

Similar Datasets

2013-11-19 | E-GEOD-52456 | biostudies-arrayexpress
2014-09-05 | E-GEOD-48634 | biostudies-arrayexpress
2018-04-21 | E-MTAB-6246 | biostudies-arrayexpress
2013-11-24 | E-GEOD-25599 | biostudies-arrayexpress
2007-09-20 | E-GEOD-2116 | biostudies-arrayexpress
2010-10-26 | E-GEOD-24889 | biostudies-arrayexpress
2010-04-06 | E-GEOD-20508 | biostudies-arrayexpress
2013-11-07 | E-GEOD-48341 | biostudies-arrayexpress
2015-02-05 | E-GEOD-65663 | biostudies-arrayexpress
2012-08-30 | E-GEOD-37610 | biostudies-arrayexpress