The TET2 methylcytosine dioxygenase regulates early and late transitions in exhausted CD8+ T-cell differentiation
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 51 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
- Homo sapiens (human)
- Samples
- 51 samples: 50 distinct titles, 1 of them repeatedGroups 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
- TET2 regulates early and late transitions in exhausted CD8(+) T cell differentiation and limits CAR T cell functionScience advances · 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 GSE261093_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 PRJNA1085279 and SRA study SRP493938. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 51 sample titles: 50 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.
- GSM8134243 WT_Naive_A_S1
- GSM8134244 WT_Total_A_S2
- GSM8134245 WT_Ly108_A_S3
- GSM8134246 WT_Negative_A_S4
- GSM8134247 TET2_KO_Naive_A_S5
- GSM8134248 TET2_KO_Total_A_S6
- GSM8134249 TET2_KO_Ly108_A_S7
- GSM8134250 TET2_KO_Negative_A_S8
- GSM8134251 WT_Naive_B_S9
- GSM8134252 WT_Total_B_S10
- GSM8134253 WT_Ly108_B_S11
- GSM8134254 WT_Negative_A_S12
- GSM8134255 TET2_KO_Naive_B_S13
- GSM8134256 TET2_KO_Total_B_S14
- GSM8134257 TET2_KO_Ly108_B_S15
- GSM8134258 TET2_KO_Negative_B_S16
- GSM8134259 WT_Naive_C_S17
- GSM8134260 WT_Total_C_S18
- GSM8134261 WT_Ly108_C_S19
- GSM8134262 WT_Negative_C_S20
- GSM8134263 TET2_KO_Naive_C_S21
- GSM8134264 TET2_KO_Total_C_S22
- GSM8134265 TET2_KO_Ly108_C_S23
- GSM8134266 TET2_KO_Negative_C_S24
- GSM8134267 TET2KO-Ly108_pos-A
- GSM8134268 TET2KO-Ly108_pos-C
- GSM8134269 TET2KO-Naive-A
- GSM8134270 TET2KO-Naive-B
- GSM8134271 TET2KO-Naive-C
- GSM8134272 TET2KO-Ly108_neg-A
- GSM8134273 TET2KO-Ly108_neg-C
- GSM8134274 TET2KO-Total-A
- GSM8134275 TET2KO-Total-B
- GSM8134276 TET2KO-Total-C
- GSM8134277 WT-Ly108_pos-A
- GSM8134278 WT-Ly108_pos-C
- GSM8134279 WT-Naive-A
- GSM8134280 WT-Naive-B
- GSM8134281 WT-Naive-C
- GSM8134282 WT-Ly108_neg-A
+ 11 more — browse all 51 samples with per-sample file links →
- GSE255177 Inhibiting CXCR4 Attenuates TOX-Programmed Exhausted Phenotype of CD8+ T cells via Regulating JAK2/STAT3 Pathway [ChIP-Seq] 20 samples shares cd8, exhausted
- GSE241347 Chromatin-associated LTR RNA m5C oxidation by TET2 regulates leukemogenesis 291 samples shares tet2
- GSE333858 PD-1 regulates latent effector differentiation of thymic cytotoxic CD8+ T cells 74 samples shares cd8
- GSE89308 Epigenetic analysis of tumor-specific CD8 T cells in murine and solid tumors 59 samples shares cd8
- GSE269958 Chromatin-associated LTR RNA m5C oxidation by TET2 regulates chromatin state and leukemogenesis [seq_DNA-ATAC_set2] 54 samples shares tet2
- GSE309775 Metabolic control of innate immune activation in TET2-mutant clonal hematopoiesis [ChIP-seq] 44 samples shares tet2
- GSE269959 Chromatin-associated LTR RNA m5C oxidation by TET2 regulates chromatin state and leukemogenesis [seq_DNA-CUTandTag] 41 samples shares tet2
- GSE235246 Senescent cancer-associated fibroblasts in pancreatic adenocarcinoma impair CD8+ T cell activation and responsiveness to immunotherapy in mice 38 samples shares cd8
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.