Transcription profiling of human LNCaP and 22Rv1 prostate cancer cell lines to identify mutant genes via nonsense mediated decay

ABSTRACT: We used a modification of GINI analysis to identify genes containing premature translation termination codons (PTC) generated by nonsense or frameshift mutations in prostate cancer cell lines. The analysis was performed in two steps. In the first step nonsense mediated mRNA decay (NMD) was inhibited in prostate cancer cell lines using incubation with medium containing caffeine for 4 hours. Gene expression analysis of caffeine treated or untreated cells after this step detects mRNA accumulation that takes place for genes containing PTC and as well as for genes that show induction of transciption due to stress caused by NMD inhibition. In the second step either both transcription and NMD or transcription only are blocked by incubating cell in a medium containing either both actinomycin D

ORGANISM(S): Homo sapiens

SUBMITTER: Yurij Ionov 

PROVIDER: E-GEOD-16856 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress