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ATAC-Seq analysis of MC38 colon carcinoma cells and MC38 Bap1-knockout cells

ABSTRACT: ATAC-Seq analysis of MC38 colon carcinoma cells and MC38 Bap1-knockout cells

PROVIDER: PRJEB64236 | ENA |

REPOSITORIES: ENA

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Whole exome sequencing of MC38 colon carcinoma cells and MC38 Bap1-knockout cells

Project description:In recent years,Bap1 has been reported to be involved in the process of tumorigenesis. Bap1 gene mutations frequently occur in tumors such as uveal melanoma, mesothelioma, and kidney cancer. In our study,we found that Bap1 deletion in MC38 colon carcinoma cells can promote anti-tumor immune response. To investigate how the genetic mutational landscape,whole exome sequencing of MC38 colon carcinoma cells and MC38 Bap1-knockout cells were performed.

2025-06-30 | E-MTAB-10584 | biostudies-arrayexpress

ATAC-Seq analysis of MC38 colon carcinoma cells and MC38 Bap1-knockout cells

Project description:Genome-wide measurements of chromatin accessibility in MC38 colon carcinoma cells and MC38 Bap1-knockout cells.

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Bulk RNA-Seq analysis of MC38 colon carcinoma cells and MC38 Bap1-knockout cells in vitro

Project description:In order to find out which genes Bap1 regulates to affect the anti-tumor immune response in MC38 colon carcinoma cell linewe knocked out the Bap1 gene in the MC38 cell line through CRISPR-Cas9 technology, RNA was directly isolated for RNA seq and were able to investigate gene expression.

2025-07-06 | E-MTAB-10588 | biostudies-arrayexpress

Whole exome sequencing of MC38 colon carcinoma cells and MC38 Bap1-knockout cells

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Project description:Whole exome sequencing of MC38 colon carcinoma cells and MC38 Bap1-knockout cells

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Bulk RNA-Seq analysis of MC38 colon carcinoma cells isolated from Rag2-deficient mice

Project description:To assess the role of Bap1 genes in MC38 colon carcinoma cell linewe knocked out the Bap1 gene in the MC38 cell line through CRISPR-Cas9 technology, MC38-Bap1-Wildtype and MC38-Bap1-Knockout tumor cells expressing BFP fluorescent protein were injected into Rag2-deficient mice subcutaneously. On the 10th day of tumor growth, BFP positive tumor cells were isolated and sorted by flow Cytometer. Bulk RNA-seq was performed on MC38-Bap1-Wildtype and MC38-Bap1-Knockout tumor cells for different gene signatures.

2025-07-06 | E-MTAB-10587 | biostudies-arrayexpress

Bulk RNA-Seq analysis of MC38 colon carcinoma cells and MC38 Bap1-knockout cells in vitro

Project description:Bulk RNA-Seq analysis of MC38 colon carcinoma cells and MC38 Bap1-knockout cells in vitro

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CUT&Tag chromatin profiling of H2AK119Ub, H3K27me3, H3K27ac and H3K4me3 histone in MC38 colon carcinoma cell line

Project description:The deubiquitinating enzyme BAP1 can remove the ubiquitination modification of H2AK119. To reveal the mechanism by which Bap1 deletion in MC38 colon carcinoma cell line causes an anti-tumor immune response from the epigenetic level, we generated CUT&Tag data of H2AK119Ub, H3K27me3, H3K27ac and H3K4me3 histone in MC38-Bap1-Wildtype and MC38-Bap1-Knockout isolated from Rag2-deficient mice.

2025-07-06 | E-MTAB-10585 | biostudies-arrayexpress

Single cell analysis of CD45 positive cells isolated from MC38 colon carcinoma tumor-bearing C57BL/6 mice

Project description:Here, we used single cell RNA-sequencing (scRNA-seq) to profile the difference of the CD45 positive cells subgroups infiltrating in MC38-Bap1-Wildtype and MC38-Bap1-Knockout tumor microenvironment on the 10th day of tumor growth in C57BL/6 mice. Additionally, we used scRNA-seq to profile differential gene expression of CD8 T cells and the difference of related signal.

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Expression profile of Mgat5 knockout (CRISPR-Cas9) in murine colon adenocarcinoma cells (MC38)

Project description:mRNA samples from murine colon adenocarcinoma cells (MC38) (Control condition MC38 WT; Empty vector condition MC38 MOCK; Knockout condition 1: MC38 KO T5 clone 1 and Knockout condition 2: MC38 KO T5) were amplified, labeled, and hybridized to Clariom™ S Array mouse (Thermo Scientific, USA). Normalization and analysis of microarray data were performed using Transcriptome Analysis Console (TAC) software (Affymetrix, USA).

2026-05-25 | GSE332631 | GEO

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