Serine enrichment in tumors promotes regulatory T cell accumulation through sphinganine mediated regulation of c-Fos
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 32 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
- 32 samples: 10 conditions, mostly in triplicateGroups 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
- Serine enrichment in tumors promotes regulatory T cell accumulation through sphinganine-mediated regulation of c-FosScience immunology · 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 GSE213756_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 PRJNA882398 and SRA study SRP398212. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 30 samples.
How we read this: 10 replicated groups read from 32 sample titles; they account for 30 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.
- GSM6593523 scRNA-seq Treg_DMSO
- GSM6593524 scRNA-seq Treg_SA
- GSM6593525 ATAC-seq Treg_DMSO rep1 ATAC-seq Treg_DMSO
- GSM6593526 ATAC-seq Treg_DMSO rep2 ATAC-seq Treg_DMSO
- GSM6593527 ATAC-seq Treg_DMSO rep3 ATAC-seq Treg_DMSO
- GSM6593528 ATAC-seq Treg_SA rep1 ATAC-seq Treg_SA
- GSM6593529 ATAC-seq Treg_SA rep2 ATAC-seq Treg_SA
- GSM6593530 ATAC-seq Treg_SA rep3 ATAC-seq Treg_SA
- GSM6593531 Cut&Run cFOS_DMSO_rep1 Cut&Run cFOS_DMSO
- GSM6593532 Cut&Run cFOS_DMSO_rep2 Cut&Run cFOS_DMSO
- GSM6593533 Cut&Run cFOS_DMSO_rep3 Cut&Run cFOS_DMSO
- GSM6593534 Cut&Run cFOS_SA_rep1 Cut&Run cFOS_SA
- GSM6593535 Cut&Run cFOS_SA_rep2 Cut&Run cFOS_SA
- GSM6593536 Cut&Run cFOS_SA_rep3 Cut&Run cFOS_SA
- GSM6593537 Cut&Run cJun_DMSO_rep1 Cut&Run cJun_DMSO
- GSM6593538 Cut&Run cJun_DMSO_rep2 Cut&Run cJun_DMSO
- GSM6593539 Cut&Run cJun_DMSO_rep3 Cut&Run cJun_DMSO
- GSM6593540 Cut&Run cJun_SA_rep1 Cut&Run cJun_SA
- GSM6593541 Cut&Run cJun_SA_rep2 Cut&Run cJun_SA
- GSM6593542 Cut&Run cJun_SA_rep3 Cut&Run cJun_SA
- GSM6593543 Cut&Run Input_DMSO_rep1 Cut&Run Input_DMSO
- GSM6593544 Cut&Run Input_DMSO_rep2 Cut&Run Input_DMSO
- GSM6593545 Cut&Run Input_DMSO_rep3 Cut&Run Input_DMSO
- GSM6593546 Cut&Run Input_SA_rep1 Cut&Run Input_SA
- GSM6593547 Cut&Run Input_SA_rep2 Cut&Run Input_SA
- GSM6593548 Cut&Run Input_SA_rep3 Cut&Run Input_SA
- GSM6593549 Cut&Run NFAT2_DMSO_rep1 Cut&Run NFAT2_DMSO
- GSM6593550 Cut&Run NFAT2_DMSO_rep2 Cut&Run NFAT2_DMSO
- GSM6593551 Cut&Run NFAT2_DMSO_rep3 Cut&Run NFAT2_DMSO
- GSM6593552 Cut&Run NFAT2_SA_rep1 Cut&Run NFAT2_SA
- GSM6593553 Cut&Run NFAT2_SA_rep2 Cut&Run NFAT2_SA
- GSM6593554 Cut&Run NFAT2_SA_rep3 Cut&Run NFAT2_SA
- GSE228457 IL-7 mediated immunoregulatory feedback loop promotes dampening of immune effector functions by hypoinflammatory monocytes. 305 samples shares regulatory, promotes, mediated
- GSE263892 Single-cell analysis reveals Mycobacterium tuberculosis ESX-1-mediated accumulation of permissive macrophages in infected mouse lungs 6078 samples shares accumulation, mediated
- GSE262131 Increased EZH2 function in regulatory T cells promotes their capacity to suppress autoimmunity by driving effector differentiation prior to activation. 36 samples shares regulatory, promotes
- GSE217664 Decoding Trp53 regulatory program in various tissues and organs 404 samples shares regulatory
- GSE223050 The activity of early-life gene regulatory elements is hijacked in aging through pervasive AP-1–linked chromatin opening 336 samples shares regulatory
- GSE254090 A cell type-aware framework for nominating non-coding variants in Mendelian regulatory disorders 87 samples shares regulatory
- GSE233057 A gene regulatory network of the endothelial-to-hematopoietic transition 63 samples shares regulatory
- GSE252463 Interpreting regulatory mechanisms of Hippo signaling through a deep learning sequence model 59 samples shares regulatory
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.