{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"submitter":["Mingxia Li"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["ChIP-seq"],"organism":["Mus musculus"],"species":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-10585"],"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."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sequencing - Then Illumina platform sequencing were accomplished according to Illumina instructions.","Nucleic Acid Extraction - CUT&Tag experiment was  performed according to the reaction system recommended by Vazyme #TD901-2 follow the instructions.","Library Construction - To stop the fragmentation reaction,  10 μl 0.5M EDTA,3 μl 10% SDS and 2.5 μl 20 mg/ml Proteinase K were incubated with mixture overnight at 37℃. 150 μl Tris saturated phenol and 150 μl chloroform were added and centrifuge for 5 min at 16,000 g to collect the supernatant. Add 300 μl chloroform and centrifuge to collect the supernatant, then which was added to 750 μl 100% ethanol in tube on ice, and centrifuge for 15 min at 1,6000 g at 4℃to collect the DNA. Last sample was washed using 100% ethanol, and dissolved in double-distilled water. For library construction, set up the PCR reaction as follows: for a total volume of 50 μL, add 24 μL of DNA,5 μL of ddH2O,10 μL of 5 × TAB buffer, 5μL P5 primer X, 5 μL P7 primer X, and 1 μL of TAE. Mix gently and spin briefly. Then PCR amplification program were carried out,","Sample Collection - Tumor cells expressing BFP fluorescent protein were isolated from Rag2-/- mice, Tumor Dissociation Kit (Miltenyi,130-096-730) was used to dissociate the tumor tissues into single cells as the manufacturer’s instructions. ACK lysis buffer (Gibco,492-01) was used to remove the red blood cell. Then Dead Cell Removal kit (Miltenyi,130-090-101) was used to remove dead cells by column in MACS Separator,then Then the tumor cells were resuspended with Facs buffer and BFP+ tumor were sorted at 4℃."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"pubmed_authors":["Mingxia Li"],"additional_accession":[]},"is_claimable":false,"name":"CUT&Tag chromatin profiling of H2AK119Ub, H3K27me3, H3K27ac and H3K4me3 histone in  MC38 colon carcinoma cell line","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.","dates":{"release":"2025-07-06T00:00:00Z","modification":"2023-07-10T15:48:17.372Z","creation":"2023-07-10T15:48:17.372Z"},"accession":"E-MTAB-10585","cross_references":{"ENA":["ERP149369"],"Biostudies":["E-MTAB-10588","E-MTAB-10610","E-MTAB-10587","E-MTAB-10593"],"EFO":["EFO_0002944","EFO_0004170","EFO_0002692","EFO_0005518","EFO_0004184"]}}