Acetyl-CoA production by Mediator-bound 2-ketoacid dehydrogenases boosts de novo histone acetylation and is regulated by nitric oxide [Chipseq_panAc_spikein]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 12 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Mus musculus (mouse)
- Samples
- 12 samples: 6 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Acetyl-CoA production by Mediator-bound 2-ketoacid dehydrogenases boosts de novo histone acetylation and is regulated by nitric oxideMolecular cell · 2024
Read the full summary ↓
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE245444_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1028522 and SRA study SRP466505. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 replicated groups read from 12 sample titles; they account for 12 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM7842863 BMDM_LPS_R1 BMDM_LPS
- GSM7842864 BMDM_LPS_R2 BMDM_LPS
- GSM7842865 BMDM_NO_LPS_R1 BMDM_NO_LPS
- GSM7842866 BMDM_NO_LPS_R2 BMDM_NO_LPS
- GSM7842867 BMDM_NO_R1 BMDM_NO
- GSM7842868 BMDM_NO_R2 BMDM_NO
- GSM7842869 BMDM_NO_TSA_R1 BMDM_NO_TSA
- GSM7842870 BMDM_NO_TSA_R2 BMDM_NO_TSA
- GSM7842871 BMDM_TSA_R1 BMDM_TSA
- GSM7842872 BMDM_TSA_R2 BMDM_TSA
- GSM7842873 BMDM_UT_R1 BMDM_UT
- GSM7842874 BMDM_UT_R2 BMDM_UT
- GSE245442 Acetyl-CoA production by Mediator-bound 2-ketoacid dehydrogenases boosts de novo histone acetylation and is regulated by nitric oxide [Chipseq_H3K27ac_spikein] 36 samples shares 2-ketoacid, mediator-bound, dehydrogenases, acetylation, acetyl-coa, production, histone, chipseq
- GSE227963 Acetyl-CoA production by Mediator-bound 2-ketoacid dehydrogenases boosts de novo histone acetylation and is regulated by nitric oxide [Med1_Chipseq] 4 samples shares 2-ketoacid, mediator-bound, dehydrogenases, acetylation, acetyl-coa, production, histone, chipseq
- GSE245579 Acetyl-CoA production by Mediator-bound 2-ketoacid dehydrogenases boosts de novo histone acetylation and is regulated by nitric oxide [Chipseq_MED1_RAW2647] 2 samples shares 2-ketoacid, mediator-bound, dehydrogenases, acetylation, acetyl-coa, production, histone, chipseq
- GSE245580 Acetyl-CoA production by Mediator-bound 2-ketoacid dehydrogenases boosts de novo histone acetylation and is regulated by nitric oxide [Chrom_RNAseq] 18 samples shares 2-ketoacid, mediator-bound, dehydrogenases, acetylation, acetyl-coa, production, histone
- GSE245445 Acetyl-CoA production by Mediator-bound 2-ketoacid dehydrogenases boosts de novo histone acetylation and is regulated by nitric oxide [Chrom_RNAseq_iNOS1400W] 18 samples shares 2-ketoacid, mediator-bound, dehydrogenases, acetylation, acetyl-coa, production, histone
- GSE76854 Acetyl-CoA metabolism by ACSS2 regulates neuronal histone acetylation and long-term memory 46 samples shares acetylation, acetyl-coa, histone
- GSE76853 Acetyl-CoA metabolism by ACSS2 regulates neuronal histone acetylation and long-term memory [RNA-seq] 16 samples shares acetylation, acetyl-coa, histone
- GSE311724 Effects of loss of KAT6A on histone acetylation and methylation levels, as well as MLL1 and POLR2A occupancy 134 samples shares acetylation, histone
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.