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Gene expression signatures in GIST-T1 cells transfected with siRNA targeting HOTAIR

ABSTRACT: 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. Moreover, we found that 1424 genes were upregulated by siHOT (>2-fold), and Gene Ontology analysis revealed enrichment of genes related to “nucleus”, “chromosome” and “membrane-bounded organelle.”

ORGANISM(S): Homo sapiens

PROVIDER: GSE32064 | GEO | 2011/12/01

SECONDARY ACCESSION(S): PRJNA147601

REPOSITORIES: GEO

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Gene expression signatures in GIST-T1 cells transfected with siRNA targeting HOTAIR

Project description: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. Moreover, we found that 1424 genes were upregulated by siHOT (>2-fold), and Gene Ontology analysis revealed enrichment of genes related to “nucleus”, “chromosome” and “membrane-bounded organelle.” For RNAi-mediated knockdown of HOTAIR, three different Stealth siRNAs against HOTAIR were generated by Invitrogen, after which a mixture of the three was used for transfection. GIST-T1 cells in 6-well plates were transfected with 100 pmol of Stealth siRNA (Invitrogen) or a Stealth RNAi Negative Control Medium GC (Invitrogen) using Lipofectamine2000 (Invitrogen). Total RNA was extracted 48 h after transfection.

2011-12-01 | E-GEOD-32064 | biostudies-arrayexpress

Gene expression signatures in GIST-T1 cells transfected with a miR-186 inhibitor molecule

Project description:To clarify the role of miR-186 in GIST, we carried out a gene expression microarray analysis using GIST-T1 cells transfected with a miR-186 inhibitor or a negative control. We found that 253 probe sets (229 unique genes) were upregulated (>1.5-fold) by inhibition of miR-186 in GIST-T1 cells.

2017-01-01 | GSE85613 | GEO

Gene expression signatures in GIST-T1 cells transfected with a miR-335 mimic molecule

Project description: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 transfected with a mirVana miR-335 mimic (Ambion) or a mirVana miRNA mimic Negative Control #1 (Ambion). Forty-eight hours after transfection, total RNA extraction was carried out, and gene expression signatures were analyzed.

2015-05-25 | E-GEOD-68742 | biostudies-arrayexpress

mRNA profiles in gastrointestinal stromal tumor (GIST) cell lines and GIST-associated fibroblast

Project description:To identify mRNA profiles in GIST and CAFs, we performed RNA sequencing analysis (RNA-seq) using GIST cell lines, GIST-T1 and GIST882, and CAFs.

2020-01-14 | GSE143547 | GEO

Gene expression signatures in GIST-T1 cells transfected with a miR-34a mimic molecule

Project description: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 which was previously reported as a miR-34a target gene. GIST-T1 cells were transfected with a mirVana miR-34a mimic (Ambion) or mirVana miRNA mimic Negative Control #1 (Ambion). Forty-eight hours after transfection, total RNA extraction was carried out, and gene expression signatures were analyzed.

2015-05-25 | E-GEOD-68740 | biostudies-arrayexpress

Gene expression signatures in GIST-T1 cells transfected with a miR-335 mimic molecule

2015-05-25 | GSE68742 | GEO

Gene expression signatures in GIST-T1 cells transfected with a miR-34a mimic molecule

2015-05-25 | GSE68740 | GEO

Chromatin accessibility of GIST48, GIST882 and GIST-T1 cells with ETV1 or FOXF1 knockdown

Project description:Chromatin accessibility of GIST48, GIST882 and GIST-T1 cells with ETV1 or FOXF1 knockdown

| PRJNA417537 | ENA

ETV1 knockdown in GIST cell lines

Project description:ETV1 is highly expressed in GIST cells and required for their survival and growth. To identify genes and pathways regulated by ETV1 in GIST, we performed expression profiles of GIST cells after ETV1 knockdown.

2010-10-13 | GSE19396 | GEO

Effects of HOTAIR RNAi on Transcriptomes in H23 Cells

Project description:We profiled transcriptomes in human lung cancer cell line H23 when the expression of HOTAIR was knockdown by the siRNA specific to an HOTAIR isoform HOTAIR-N (NR_047517).

2018-09-06 | GSE119510 | GEO

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