The NAD+-Dependent SIRT1 Deacetylase Translates a Metabolic Switch into Regulatory Epigenetics in Skeletal Muscle Stem Cells
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 28 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
- 28 samples: 8 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.
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 GSE64379_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 PRJNA270860 and SRA study SRP051387. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 22 samples.
How we read this: 8 replicated groups read from 28 sample titles; they account for 22 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.
- GSM1569848 WT FI_RNASeq1 WT FI_RNASeq
- GSM1569849 WT FI_RNASeq2 WT FI_RNASeq
- GSM1569850 WT FI_RNASeq3 WT FI_RNASeq
- GSM1569851 WT FI_RNASeq4 WT FI_RNASeq
- GSM1569852 WT FI_RNASeq5 WT FI_RNASeq
- GSM1569853 SIRT1mKO FI_RNASeq1 SIRT1mKO FI_RNASeq
- GSM1569854 SIRT1mKO FI_RNASeq2 SIRT1mKO FI_RNASeq
- GSM1569855 SIRT1mKO FI_RNASeq3 SIRT1mKO FI_RNASeq
- GSM1569856 WT Cul_RNASeq1 WT Cul_RNASeq
- GSM1569857 WT Cul_RNASeq2 WT Cul_RNASeq
- GSM1569858 WT Cul_RNASeq3 WT Cul_RNASeq
- GSM1569859 WT Cul_RNASeq4 WT Cul_RNASeq
- GSM1569860 SIRT1mKO Cul_RNASeq1 SIRT1mKO Cul_RNASeq
- GSM1569861 SIRT1mKO Cul_RNASeq2 SIRT1mKO Cul_RNASeq
- GSM1569862 WT Diff_RNASeq1 WT Diff_RNASeq
- GSM1569863 WT Diff_RNASeq2 WT Diff_RNASeq
- GSM1569864 SIRT1mKO Diff_RNASeq1 SIRT1mKO Diff_RNASeq
- GSM1569865 SIRT1mKO Diff_RNASeq2 SIRT1mKO Diff_RNASeq
- GSM1569866 WT FI_H4K16ac_ChIPSeq
- GSM1569867 SIRT1mKO FI_H4K16ac_ChIPSeq
- GSM1569868 WT Cul_H4K16ac_ChIPSeq
- GSM1569869 WT FI_SIRT1_ChIPSeq1 WT FI_SIRT1_ChIPSeq
- GSM1569870 WT FI_SIRT1_ChIPSeq2 WT FI_SIRT1_ChIPSeq
- GSM1569871 WT Cul_SIRT1_ChIPSeq1 WT Cul_SIRT1_ChIPSeq
- GSM1569872 WT Cul_SIRT1_ChIPSeq2 WT Cul_SIRT1_ChIPSeq
- GSM1569873 WT FI_Input_ChIPSeq
- GSM1569874 SIRT1mKO FI_Input_ChIPSeq
- GSM1569875 WT Cul_Input_ChIPSeq
- GSE306999 Vitamin B12 Ameliorates Diabetic complications: potential role of Circadian pathway and the NAMPT–NAD⁺–SIRT1 Pathway 16 samples shares sirt1, nad
- GSE55485 Defective Mitophagy in XPA via PARP1 activation and NAD+/SIRT1-depletion: Implications for neurodegeneration (mouse) 12 samples shares sirt1, nad
- GSE304351 NAD+ enhanced mesenchymal stromal cells effect on muscle atrophy by improving SIRT1/PGC-1α-mediated mitochondrial function via NAMPT 8 samples shares sirt1, nad
- GSE306603 NMN protects cisplatin induced AKI via NAD+/SIRT1 pathway 8 samples shares sirt1, nad
- GSE331168 NAD+ deficiency enhances mitochondria-endoplasmic reticulum contacts to promote stress urinary incontinence via the Sirt1-MFN2 axis 6 samples shares sirt1, nad
- GSE173543 Altering metabolism to program cell identity via NAD+ dependent deacetylation 141 samples shares nad, dependent
- GSE288206 Single-nucleus multiomics of murine gonads reveals gene-regulatory networks underlying sex determination 24 samples shares nad, regulatory
- GSE173532 Altering metabolism to program cell identity via NAD+ dependent deacetylation [RNA-seq] 30 samples shares nad, dependent
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.