Changes in global open chromatin structure caused by acute deletion of TERT in spermatogonial stem 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: 8 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.
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 GSE145658_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 PRJNA608530 and SRA study SRP250595. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 22 samples.
How we read this: 8 replicated groups read from 22 sample titles; they account for 22 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.
- GSM4338100 TERT-hetero US-h_rep1 TERT-hetero US-h
- GSM4338101 TERT-hetero US-m_rep1 TERT-hetero US-m
- GSM4338102 TERT-hetero DS_rep1 TERT-hetero DS
- GSM4338103 TERT-hetero US-h_rep2 TERT-hetero US-h
- GSM4338104 TERT-hetero US-m_rep2 TERT-hetero US-m
- GSM4338105 TERT-hetero DS_rep2 TERT-hetero DS
- GSM4338106 TERT-hetero US-h_rep3 TERT-hetero US-h
- GSM4338107 TERT-hetero DS_rep3 TERT-hetero DS
- GSM4338108 TERT-hetero_Spermatocytes_rep1 TERT-hetero_Spermatocyt…
- GSM4338109 TERT-hetero_Spermatocytes_rep2 TERT-hetero_Spermatocyt…
- GSM4338110 TERT-hetero_RoundSpermatids_rep1 TERT-hetero_RoundSperma…
- GSM4338111 TERT-hetero_RoundSpermatids_rep2 TERT-hetero_RoundSperma…
- GSM4338112 TERT-hetero_RoundSpermatids_rep3 TERT-hetero_RoundSperma…
- GSM4338113 TERT-deleted US-h_rep1 TERT-deleted US-h
- GSM4338114 TERT-deleted US-m_rep1 TERT-deleted US-m
- GSM4338115 TERT-deleted DS_rep1 TERT-deleted DS
- GSM4338116 TERT-deleted US-h_rep2 TERT-deleted US-h
- GSM4338117 TERT-deleted US-m_rep2 TERT-deleted US-m
- GSM4338118 TERT-deleted DS_rep2 TERT-deleted DS
- GSM4338119 TERT-deleted US-h_rep3 TERT-deleted US-h
- GSM4338120 TERT-deleted US-m_rep3 TERT-deleted US-m
- GSM4338121 TERT-deleted DS_rep3 TERT-deleted DS
- GSE302373 Nociceptive innervation limits tertiary lymphoid structures to promote lung cancer 10 samples shares tert, structure
- GSE264045 Changes in sites of open chromatin in muscle stem cells that occur upon knockout of TRF2 7 samples shares chromatin, changes
- GSE309545 Inflammatory signaling differentially changes chromatin accessibility and gene expression of the PD-associated kinase LRRK2 between human and mice [multiome mouse] 64 samples shares chromatin, changes
- GSE279796 Setdb1 regulates proper differentiation of adult intestinal stem cells via restraining permissive chromatin structure and transcriptional variability 18 samples shares chromatin, structure
- GSE241725 Evolutionarily conserved role of Telomerase reverse transcriptase (TERT) in programming the microenvironment via regulation of cGAS/STING pathway 15 samples shares tert
- GSE304211 H4K16ac contributes to chromatin compartment reorganization during mitotic and meiotic transitions [CUTnTAG] 128 samples shares chromatin
- GSE272524 Chromatin-dependent motif syntax defines differentiation trajectories [ChIP-seq] 76 samples shares chromatin
- GSE294085 SIRT6 Overexpression Counteracts Chromatin Aging [ChIP-Seq] 74 samples shares chromatin
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.