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Gene expression analysis of BRD4 knockdown in HT-29 and HCT116 cells

ABSTRACT: RNAseq is performed (50bp single end reads) on HT-29 and HCT-116 cell lines utilizing two independent shRNAs against BRD4 and a non-targeting control shRNA (NTC)

ORGANISM(S): Homo sapiens

PROVIDER: GSE73317 | GEO | 2016/01/26

SECONDARY ACCESSION(S): PRJNA296593

REPOSITORIES: GEO

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Gene expression analysis following JQ1 treatments in colon cancer lines

Project description:RNAseq is performed (50bp single end reads) on SW480, HT-29, HCT-15, HCT-116, COLO 205, and COLO 320 cell lines after DMSO or JQ1 treatment

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Barcode and Whole Exome Sequencing Data of Dabrafenib Resistant 3D-HT-29 and Irinotecan Resistant 3D-HCT-116 Spheroids

Project description:HT-29 and HCT-116 cells were barcoded using the CloneTracker lentiviral barcode library and then dabrafenib and irinotecan resistant derivatives of these cell lines were established, respectively.10 million barcoded HT-29 and HCT-116 cells were seeded equally onto poly-HEMA coated 4xT75 flask (DMSO Control, Replica A, B, C for each drug). After seeding, cells were allowed to form spheroids and barcoded 3D-HT-29 spheroids were treated with dabrafenib at increasing doses starting from IC50/10 dose until IC50/2 dose with monthly doubling of the dosing (16 weeks), and barcoded 3D-HCT-116 cells were treated with irinotecan at increasing doses starting from IC50/4 dose until IC50 dose with weekly doubling of the dosing (4 weeks). Following the end points of treatment for each cell line, DNA was isolated from harvested cell lines and barcode sequencing and whole exome sequencing were carried out.

2023-09-01 | E-MTAB-13216 | biostudies-arrayexpress

CDK8 knockdown in HT-29 human colon cancer cells

2012-03-05 | GSE30815 | GEO

CDK8 knockdown in HT-29 human colon cancer cells

Project description:Transcriptional profiling of HT-29 human colon cancer cells transfected with non-targeting control (NTC) siRNA and two different siRNA sequences against CDK8 (siCDK8-1 and siCDK8-2). Three condition experiment comparing siNTC versus siCDK8-1 and siCDK8-2 after 3 days (3 biological replicates each); in total 9 samples profiled.

2012-03-05 | E-GEOD-30815 | biostudies-arrayexpress

RNA-seq analysis of gene expression in scramble and GPR126 knockdown colon cancer cells (HT-29)

Project description:Purpose: Identify genes regulated by GPR126 in colon cancer cells by RNA-seq analysis Methods: Use shRNAs to knock down GPR126 in HT-29 cells, total RNAs from scramble group (NC) and GPR126 knockdown group (Sh1) were subjected to RNA-sequencing. Results: Around 700 transcriptomes were up-regulated in GPR126 knockdown HT-29 cells, and 14000 transcriptomes were down-regulated in GPR126 knockdown HT-29 cells.GPR126 mainly regualtes genes from DNA synthesis and cell cycle-related pathways. Conclusions: Our study firstly showed the function of GPR126 regulating colon cancer cell proliferation by targeting genes invovled in DNA synthesis and cell cycle-related pathways.

2017-11-09 | GSE106696 | GEO

TRAP1 silencing in HCT116 cells

Project description:Trascription profiling analysis was performed on HCT-116 cell lines transiently silenced with TRAP1 compared with scrumble

2014-11-15 | E-MTAB-2500 | biostudies-arrayexpress

miRNA expression in untreated HCT116, HT-29 and SW480 colon cancer cell lines

Project description:miRNA expression in untreated colon cancer cell lines Three colon cance cell lines, HCT116, HT-29, SW480

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Expression profiles of piRNAs in Colorectal Cancer (CRC) cell lines

Project description:To investigate the presence and abundance of piRNAs in Colorectal Cancer (CRC), we performed deep-sequencing of the small RNA transcriptome of eight human CRC cell lines (HT-115, Caco-2, SW-1417, SW 403, COLO 205, HT-29, HCT 116 and RKO).

2020-08-06 | E-MTAB-8117 | biostudies-arrayexpress

ChIP-seq from HCT116 (ENCSR000EUX)

Project description:Control ChIP-seq on human HCT-116 For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

2016-10-14 | GSE86662 | GEO

long read RNA-seq from HCT116 (ENCSR388RWE)

Project description:HCT 116 cell line For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

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