Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Effect of knockdown LINC01089 on gene expression in SK-Hep-1 cells

ABSTRACT: To explore the effect of LINC01089 on gene expression and alternative splicing, we established stable LINC01089 knockdown cell lines in SK cells and perfromed RNA-seq.

ORGANISM(S): Homo sapiens

PROVIDER: GSE243537 | GEO | 2023/09/20

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Expression analysis of sk-hep-1(sk) cell and sk-hep-1-sh EZH2(sks) cell

Project description:Investigation of EZH2 knocking down on whole genome gene expression level changes in sk-hep-1 compared to sk-hep-1-sh EZH2.

2015-08-13 | GSE68863 | GEO

N6-methyladenosine (m6A) RIP-seq in SK-Hep-1 cells

Project description:To explore the m6a modification in SK-Hep-1 cells, we performed RNA immunoprecipitation with an antibody against m6a (SYSY), and sequencing was performed using Illumina NovaSeq 6000

2023-09-20 | GSE243538 | GEO

Genome-wide maps of H3K27me3 modification sites in sk-hep-1,sk-hep-1-shEZH2 and LO2 cells.

Project description:We report the application of chromatin immunoprecipitation coupled with high-throughput sequencing (ChIP-seq) for high-throughput profiling of H3K27me3 modifications in sk-hep-1(sk), sk-hep-1-shEZH2 (sks) and LO2 cells. Following standard ChIP procedure, 10 ng of each DNA sample was used for Illumina sequencing. Statistically significant ChIP-enriched regions (peaks) were identified by sk vs sks (p-value threshold of 10-2) or sk vs LO2 (p-value threshold of 10-3). Enriched peaks were annotated by the nearest gene using the newest UCSC RefSeq database. We identify genes modified by EZH2-mediated H3K27me3. This study provides insights into these down stream genes modified by EZH2 regulated H3K27me3 in HCC cell lines.

2015-08-13 | GSE68758 | GEO

Effect of knockdown LINC01089 on gene expression in SK-Hep-1 cells

Project description:Effect of knockdown LINC01089 on gene expression in SK-Hep-1 cells

| PRJNA1018883 | ENA

H3K27ac ChIP-seq of SK-Hep-1, Huh7, SNU387, and SNU182 cells

Project description:To investigate enhancers and super-enhancers in liver cancer cells, we performed H3K27ac ChIP-seq in SK-Hep-1, Huh7, SNU387, and SNU182 cells.

2023-09-20 | GSE243541 | GEO

The effect of IL-37 in HCC cell line Sk-hep1

Project description:We performed whole microarray expressiong prolife of Sk-hep1 cells which could over-express IL-37. This project is to explore the effect of interleukin-37 on hepatocellular carcinoma(HCC) development. We transfected human HCC cell line Sk-hep1 with lentiviral vector encoding IL-37 or control. The successfully transfected cells were sorted by FACS and the cells were further cultured for 24 hours. The cells were harvested and send for microarray analysis.

2020-02-06 | GSE144728 | GEO

ATAC-seq for SK-HEP-1 cell line with or without sirolimus treatment

Project description:The openness of chromatin affects the expression and regulation of genes. In order to figure out the changes of transcriptional factors after sirolimus treatment in hepatocellular carcinoma, ATAC-seq was performed for human hepatocellular carcinoma cell line SK-HEP-1. Here, we found that a series of transcriptional factors, including E2F1, SP1, M2F1, etc. enhanced binding to DNA after sirolimus treatment.

2023-12-06 | GSE239926 | GEO

Next-generation sequencing identifies mRNAs targets that experience significant changes in alternative splicing upon PQBP1 knockdown in mouse embryonic cortical neurons

Project description:PQBP1 is a highly conserved protein closely related to neurodegenerative disorders. We identified PQBP1 as an important alternative splicing effector necessary for maintaining normal neuron functions in the brain. In order to explore PQBP1's functions in alternative splicing regulation and neuronal activities, we systematically profiled the alternative splicing targets of PQBP1 in mouse embryonic cortical neurons by RNA-seq. The mRNAs whose alternative splicing are affected by PQBP1 showed tissue-specific functional enrichment especially in neurite outgrowth, with strong Gene Ontology (GO) enrichments for neuron projection development/morphogenesis, dendrite development and axonogenesis. PQBP1's alternative splicing targets are also functionally enriched in RNA splicing, chromatin modification, and ARF signal transduction. We applied RNA-seq to compare the transcriptomes of mock and PQBP1 knockdown mouse embryonic cortical neuron samples.

2013-03-15 | E-GEOD-44402 | biostudies-arrayexpress

N6-methyladenosine (m6A) RIP-seq in SK-Hep-1 cells

Project description:N6-methyladenosine (m6A) RIP-seq in SK-Hep-1 cells

| PRJNA1018884 | ENA

ZRF1 knockdown with shRNA in SK-N-BE(2) cells

Project description:ZRF1 was silenced using two different shRNA in SK-N-BE(2) neuroblastoma cell line

2022-03-14 | GSE168939 | GEO