Transcriptional shut-off of MAP kinase signaling enables pluripotency maintenance during diapause [ChIP-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 30 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
- 30 samples: 30 samples, each with a distinct title — no replicated groupsGroups 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
- The signaling cascade of induction and maintenance of ES cell diapauseResearch square · 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 GSE269920_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 PRJNA1124121 and SRA study SRP514003. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 30 sample titles: 30 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.
- GSM8330390 ChIPseq_Ctrl_60min_CIC_1_S3_R1_001.fastq.gz
- GSM8330391 ChIPseq_Ctrl_60min_CIC_2_S5_R1_001.fastq.gz
- GSM8330392 ChIPseq_Ctrl_60min_Input_S1_R1_001.fastq.gz
- GSM8330393 ChIPseq_Torin_60min_CIC_1_S4_R1_001.fastq.gz
- GSM8330394 ChIPseq_Torin_60min_CIC_2_S6_R1_001.fastq.gz
- GSM8330395 ChIPseq_Torin_60min_Input_S2_R1_001.fastq.gz
- GSM8330396 ChIPseq_Ctrl_2week_CIC_1_S3_R1_001.fastq.gz
- GSM8330397 ChIPseq_Ctrl_2week_CIC_2_S5_R1_001.fastq.gz
- GSM8330398 ChIPseq_Ctrl_2week_Input_S1_R1_001.fastq.gz
- GSM8330399 ChIPseq_Torin_2week_CIC_1_S4_R1_001.fastq.gz
- GSM8330400 ChIPseq_Torin_2week_CIC_2_S6_R1_001.fastq.gz
- GSM8330401 ChIPseq_Torin_2week_Input_S2_R1_001.fastq.gz
- GSM8330402 ChIPseq_Control_BRD4_abcam_Input_S1_R1_001.fastq.gz
- GSM8330403 ChIPseq_Control_BRD4_abcam_Rep1_S5_R1_001.fastq.gz
- GSM8330404 ChIPseq_Control_BRD4_abcam_Rep2_S9_R1_001.fastq.gz
- GSM8330405 ChIPseq_Torin_15min_BRD4_abcam_Input_S3_R1_001.fastq.gz
- GSM8330406 ChIPseq_Torin_15min_BRD4_abcam_Rep1_S7_R1_001.fastq.gz
- GSM8330407 ChIPseq_Torin_15min_BRD4_abcam_Rep2_S11_R1_001.fastq.gz
- GSM8330408 ChIPseq_Torin_30min_BRD4_abcam_Input_S4_R1_001.fastq.gz
- GSM8330409 ChIPseq_Torin_30min_BRD4_abcam_Rep1_S8_R1_001.fastq.gz
- GSM8330410 ChIPseq_Torin_30min_BRD4_abcam_Rep2_S12_R1_001.fastq.gz
- GSM8330411 ChIPseq_Control_H4AC_Input_S1_R1_001.fastq.gz
- GSM8330412 ChIPseq_Control_H4AC_Rep1_S5_R1_001.fastq.gz
- GSM8330413 ChIPseq_Control_H4AC_Rep2_S9_R1_001.fastq.gz
- GSM8330414 ChIPseq_Torin_15min_H4AC_Input_S3_R1_001.fastq.gz
- GSM8330415 ChIPseq_Torin_15min_H4AC_Rep1_S7_R1_001.fastq.gz
- GSM8330416 ChIPseq_Torin_15min_H4AC_Rep2_S11_R1_001.fastq.gz
- GSM8330417 ChIPseq_Torin_30min_H4AC_Input_S4_R1_001.fastq.gz
- GSM8330418 ChIPseq_Torin_30min_H4AC_Rep1_S8_R1_001.fastq.gz
- GSM8330419 ChIPseq_Torin_30min_H4AC_Rep2_S12_R1_001.fastq.gz
- GSE303384 Mechanism of maintenance and establishment of repression by the Mtg16 tumor suppressor [CUT&RUN, ChIP-Seq] 92 samples shares maintenance, chip-seq
- GSE268146 Integrator complex bridges TFIID and RNA polymerase II to maintain pluripotency during development (ChIP-Seq) 38 samples shares pluripotency, chip-seq
- GSE225240 Reevaluation by CRISPR-Cas9 approach reveals multiple lincRNAs dispensable for pluripotency maintenance and SNORA73 essential for pluripotency exit 13 samples shares pluripotency, maintenance
- GSE225237 Reevaluation by CRISPR-Cas9 approach reveals multiple lincRNAs dispensable for pluripotency maintenance and SNORA73 essential for pluripotency exit (RNA-Seq) 12 samples shares pluripotency, maintenance
- GSE310322 Mapping self-associating chromatin hubs identifies Id proteins as key determinants of exhausted T cell fate 37 samples shares map
- GSE264229 Mapping the male mouse chromatin accessibility landscape by UUATAC-seq 33 samples shares map
- GSE249077 Mapping the female mouse chromatin accessibility landscape by UUATAC-seq 23 samples shares map
- GSE305054 Mapping early PRC2 nucleation sites upon Suz12 reintroduction reveals features of de novo Polycomb recruitment 18 samples shares map
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.