Non-CG DNA methylation and MeCP2 stabilize repeated tuning of long genes that distinguish closely related neuron types.
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 108 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
- 108 samples: 105 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.
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 GSE237089_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 PRJNA993677 and SRA study SRP448585. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 108 sample titles: 105 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.
- GSM7594495 L4, IP1, WT, Gabel, 156-1, GTACACCT, S2, R1, 001
- GSM7594496 L4, IP2, WT, Gabel, 178-3, TACATCGG, S5, R1, 001
- GSM7594497 L4, IP3, WT, Gabel, 244-4, CCAACACT, S7, R1, 001
- GSM7594498 L4, IP4, WT, Gabel, 338-6, TCTAGGAG, S8, R1, 001
- GSM7594499 L4, IP1, KO, Gabel, 156-3, ACGAGAAC, S3, R1, 001
- GSM7594500 L4, IP2, KO, Gabel, 178-1, CGACCTAA, S4, R1, 001
- GSM7594501 L4, IP3, KO, Gabel, 244-3, ATCGTCTC, S6, R1, 001
- GSM7594502 L4, IP4, KO, Gabel, 338-7, CTCGAACA, S9, R1, 001
- GSM7594503 L5, IP1, WT, Gabel, 653-7, IP, AACTCGGA, S5, R1, 001
- GSM7594504 L5, IP2, WT, Gabel, 653-5, IP, AATCCAGC, S3, R1, 001
- GSM7594505 L5, IP3, WT, Gabel, 676-4, IP, GCACACAA, S9, R1, 001
- GSM7594506 L5, IP4, WT, Gabel, 681-3, IP, CTCCTAGT, S10, R1, 001
- GSM7594507 L5, IP1, KO, Gabel, 653-4, IP, CGCTACAT, S2, R1, 001
- GSM7594508 L5, IP2, KO, Gabel, 653-6, IP, CGTCTAAC, S4, R1, 001
- GSM7594509 L5, IP3, KO, Gabel, 676-3, IP, ATGACAGG, S8, R1, 001
- GSM7594510 L5, IP4, KO, Gabel, 681-5, IP, TCTTCGAC, S11, R1, 001
- GSM7594511 L5, Input3, WT, Gabel, 676-4, N, ACTCCTAC, S13, R1, 001
- GSM7594512 L5, Input3, KO, Gabel, 676-3, N, GACTACGA, S12, R1, 001
- GSM7594513 PV, IP1, WT, 586, run, 2916, s, 1, withindex, sequence.txt, CGCTACAT
- GSM7594514 PV, IP2, WT, 594, run, 2916, s, 1, withindex, sequence.txt, CGTCTAAC
- GSM7594515 PV, IP3, 598, wt, run, 2916, s, 1, withindex, sequence.txt, GTCGAGAA
- GSM7594516 PV, IP4, WT, 602, run, 2916, s, 1, withindex, sequence.txt, ATGACAGG
- GSM7594517 PV, IP1, KO, 587, run, 2916, s, 1, withindex, sequence.txt, AATCCAGC
- GSM7594518 PV, IP2, KO, 597, run, 2916, s, 1, withindex, sequence.txt, AACTCGGA
- GSM7594519 PV, IP3, KO, 600, run, 2916, s, 1, withindex, sequence.txt, ACAACAGC
- GSM7594520 PV, IP4, KO, 603, run, 2916, s, 1, withindex, sequence.txt, GCACACAA
- GSM7594521 PV, Input3, WT, 598, run, 2916, s, 1, withindex, sequence.txt, CGTCCATT
- GSM7594522 PV, Input3, KO, 600, run, 2916, s, 1, withindex, sequence.txt, AACTTGCC
- GSM7594523 SST, IP1, WT, Gabel, 637, A01, CGCTACATAT, S2, R1, 001
- GSM7594524 SST, IP2, WT, Gabel, 734, D01, AACTCGGAAT, S5, R1, 001
- GSM7594525 SST, IP3, WT, Gabel, 796, F01, ACAACAGCAT, S7, R1, 001
- GSM7594526 SST, IP4, WT, Gabel, 333-5, H01, GCACACAAAT, S9, R1, 001
- GSM7594527 SST, IP1, KO, Gabel, 638, B01, AATCCAGCAT, S3, R1, 001
- GSM7594528 SST, IP2, KO, Gabel, 733, C01, CGTCTAACAT, S4, R1, 001
- GSM7594529 SST, IP3, KO, Gabel, 795, E01, GTCGAGAAAT, S6, R1, 001
- GSM7594530 SST, IP4, KO, Gabel, 333-4, G01, ATGACAGGAT, S8, R1, 001
- GSM7594531 run, 2916, s, 1, withindex, sequence.txt, ACGAGAAC
- GSM7594532 run, 2916, s, 1, withindex, sequence.txt, GTACACCT
- GSM7594533 H3K27ac, PV, WTko, B1, AAGGAGTC
- GSM7594534 H3K27ac, PV, WTKO, B2, AAGGAGTC
+ 68 more — browse all 108 samples with per-sample file links →
No close match found for this topic, so these are simply the most-viewed datasets of the same kind.
- GSE241708 Genomic context sensitizes regulatory elements to genetic disruption 154 samples
- GSE273615 In vivo armed macrophages curb liver metastasis through tumor reactive T cell rejuvenation 36 samples
- GSE314329 Inflammatory Monocytes Constrain YAP-Induced Cell Proliferation 34 samples
- GSE266690 Single cell approaches define neural stem cell niches and identify microglial ligands that enhance precursor-mediated remyelination 33 samples
- GSE102346 Regulation of m6A transcripts by the 3ʹ→5ʹ RNA helicase YTHDC2 is essential for a successful meiotic program in the mammalian germline 32 samples
- GSE60615 miRNAs in Treg-derived Exosomes 24 samples
- GSE260699 Spatially tuneable multi-omics sequencing using light-driven combinatorial barcoding of molecules in tissues 17 samples
- GSE274621 Single cell transcriptomes and spatial architecture of pancreatic pre-invasive lesions reveal acinar metaplastic cells' heterogeneity 2 samples
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.