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TranscriptomicsGenes regulated by miR-34b/c and DAC
We found frequent epigenetic silencing of microRNA-34b/c in human colorectal cancer. Introduction of miR-34b/c into a colorectal cancer cell line induced significant changes in gene expression profile. We also found overlap between the genes downregulated by miR-34b/c and those downregulated by DAC....
ORGANISM(S): Homo sapiens 
2008-04-30 | E-GEOD-10455 | biostudies-arrayexpress
TranscriptomicsArray CGH analysis of human gastrointestinal stromal tumors
Gastrointestinal stromal tumors (GISTs) are the most important mesenchymal tumors of the gastrointestinal tract. The vast majority of GISTs exhibit activating mutations of KIT or PDGFRA, but epigenetic alteration of GISTs is largely unknown. In this study, we aimed to clarify the involvement of DN...
ORGANISM(S): Homo sapiens 
2010-06-20 | E-GEOD-22185 | biostudies-arrayexpress
TranscriptomicsGene expression signatures in GIST-T1 cells transfected with siRNA targeting HOTAIR
To analyze the effect of HOTAIR depletion in a gastrointestinal stromal tumor (GIST) cells, RNAi-mediated knockdown of HOTAIR was carried out using GIST-T1 cells. Gene expression microarray analysis revealed that a number of reported HOTAIR target genes were upregulated by knockdown of HOTAIR. Mor...
ORGANISM(S): Homo sapiens 
2011-12-01 | E-GEOD-32064 | biostudies-arrayexpress
TranscriptomicsmicroRNA expression signatures in colorectal cancer cell lines with demethylating treatment
To screen for epigenetically silenced miRNAs, wecarried out miRNA microarray analysis in three colorectal cancer (CRC) cell lines (HCT116, DLD-1 and RKO) treated with or without 5-aza-2'-deoxycytidine (aza). HCT116 and RKO cells were also treated with aza plus 4-phenylbutyric acid (PBA). In additi...
ORGANISM(S): Homo sapiens 
2011-07-01 | E-GEOD-29900 | biostudies-arrayexpress
TranscriptomicsMethylated CpG island amplification (MCA) microarray analysis of human gastric mucosa and cancer
Aberrant DNA methylation is implicated in the epigenetic field defect seen in gastric cancer (GC). Our aim in this study was to identify predictive biomarkers by screening for DNA methylation in noncancerous background gastric mucosa from GC patients. A total of 46 endoscopically obtained human gast...
ORGANISM(S): Homo sapiens 
2012-09-01 | E-GEOD-39175 | biostudies-arrayexpress
TranscriptomicsGene expression signatures in GIST-T1 cells transfected with a miR-335 mimic molecule
To clarify the effect of miRNAs, we carried out a gene expression microarray analysis using GIST-T1 cells transfected with a miR-335 mimic or a negative control. We found that 1,095 probe sets (853 unique genes) were downregulated (>1.5-fold) by ectopic miR-335 expression. GIST-T1 cells were transf...
ORGANISM(S): Homo sapiens 
2015-05-25 | E-GEOD-68742 | biostudies-arrayexpress
TranscriptomicsGene expression signatures in GIST-T1 cells transfected with a miR-34a mimic molecule
To clarify the effect of miRNAs, we carried out a gene expression microarray analysis using GIST-T1 cells transfected with a miR-34a mimic or a negative control. We found that 2,621 probe sets (1,933 unique genes) were downregulated (>1.5-fold) by ectopic miR-34a expression, including PDGFRA gene w...
ORGANISM(S): Homo sapiens 
2015-05-25 | E-GEOD-68740 | biostudies-arrayexpress
TranscriptomicsExpression signature in a human colorectal cancer cell line HCT116 transfected with miR-1 precursor molecule
We identified that miR-1 is silenced in association with CpG island hypermethylation in a colorectal cancer (CRC) cell line, HCT116. To determine whether miR-1 serves as a tumor suppressor in CRC, we transfected CRC cell lines with a miR-1 precursor molecule or a negative control, and carried then o...
ORGANISM(S): Homo sapiens 
2011-07-01 | E-GEOD-29760 | biostudies-arrayexpress
ProteomicsTM4SF1-AS1 inhibits apoptosis by promoting stress granule formation in cancer cells
Long noncoding RNAs (lncRNAs) play pivotal roles in tumor development, but little is known about their involvement in the early steps of tumorigenesis. To identify lncRNAs dysregulated in precancerous lesions, we analyzed genome-wide trimethylation of histone H3 lysine 4 (H3K4me3) to screen for tran...
ORGANISM(S): Homo Sapiens (human) 
2023-09-16 | PXD036766 | JPOST Repository
TranscriptomicsTranscription profiling of human CT116 cells and isogenic genetic knockouts rveals identity of the human cancer cell DNA hypermethylome
Altered gene expression is a hallmark of human cancers and arises in part through abnormal epigenetic regulation of gene transcription. The best characterized epigenetic alteration involves tumor suppressor gene inactivation via transcriptional repression associated with aberrant DNA hypermethylatio...
ORGANISM(S): Homo sapiens 
2008-06-13 | E-GEOD-4763 | biostudies-arrayexpress
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