Microarray, RNA-seq, and ChIP-seq data of 3T3-L1 cells
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 22 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
- 22 samples: 19 distinct titles, 2 of them repeatedGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed expression table (series matrix) and the array files, from NCBI.
- Paper
- Glucose-activated JMJD1A drives visceral adipogenesis via α-ketoglutarate-dependent chromatin remodelingCell reports · 2025
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 GSE266318_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 PRJNA1106619 and SRA study SRP505074. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 22 sample titles: 19 distinct titles with little repetition. 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.
- GSM8244799 L1_25mM_Gluc_D0
- GSM8244800 L1_25mM_Gluc_D4
- GSM8244801 L1_25mM_Gluc_D8
- GSM8244802 L1_1mM_Gluc_D4
- GSM8244803 L1_1mM_Gluc_D8
- GSM8244804 L1_si-Ctr_D8
- GSM8244805 L1_si-Idh3b-1_D8
- GSM8244806 L1_si-Idh3b-2_D8
- GSM8244807 L1_D0_RNA-seq
- GSM8244808 L1_D4_RNA-seq
- GSM8244809 L1_D8_RNA-seq
- GSM8244810 L1_si-Ctr_D8_RNA-seq
- GSM8244811 L1_si-Jmjd1a_D8_RNA-seq
- GSM8244812 L1_D0_H3K9me2
- GSM8244813 L1_D6_H3K9me2
- GSM8244814 L1_D0_H3K27me3
- GSM8244815 L1_D6_H3K27me3
- GSM8244816 L1_D0_H3K27ac
- GSM8244817 L1_D6_H3K27ac
- GSM8244818 L1_D0_JMJD1A
- GSM8244819 L1_D4_JMJD1A
- GSM8923892 imSVF_D0_NFIC
- GSE266317 RNA-seq and ChIP-seq analysis of H3K27ac, H3K27me3, H3K9me2, and JMJD1A in 3T3-L1 cells and ChIP-seq analysis of NFIC in imSVF cells. 14 samples shares 3t3-l1, chip-seq, rna-seq
- GSE312302 NMuMG PBRM1 RNA-seq, ATAC-seq, and ChIP-seq 171 samples shares chip-seq, rna-seq
- GSE326100 scRNA-seq of mouse cochlea organoid cells 768 samples shares rna-seq
- GSE311449 Single cell RNA-seq of mouse brain vascular cells with Smart-seq2 method 391 samples shares rna-seq
- GSE299114 Endothelial Cells retain inflammatory memory through chromatin remodeling [RNA-Seq 2] 53 samples shares rna-seq
- GSE319614 Bulk RNA-seq transcriptome profiling of hippocampus across 17 autism spectrum disorder mouse models 269 samples shares rna-seq
- GSE325329 Transcriptomic profiling of macrophages that phagocytosed apoptotic Treg or conventional CD4⁺ T (Tconv) cells under different polarization conditions [RNA-Seq] 28 samples shares rna-seq
- GSE326452 Bulk RNA-seq of mouse brain following closed head injury: role of IL-1R1 signaling 200 samples shares rna-seq
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.