Targeted degradation of CTCF decouples local insulation of chromosome domains from genomic compartmentalization
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 102 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
- 102 samples
- 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.
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 GSE98671_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 PRJNA385852 and SRA study SRP106652. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 102 more — browse all 102 samples with per-sample file links →
- GSE301303 Targeted KRAS G12V degradation elicits efficient and durable lung adenocarcinoma regression in vivo 65 samples shares degradation, targeted
- GSE301620 Targeted KRAS G12V degradation elicits efficient and durable lung adenocarcinoma regression in vivo [R_invivo_invitro] 23 samples shares degradation, targeted
- GSE277027 Lung-targeted lipid nanoparticle-delivered siUSP33 attenuates SARS-CoV-2 replication and virulence by promoting envelope degradation 18 samples shares degradation, targeted
- GSE301301 Targeted KRAS G12V degradation elicits efficient and durable lung adenocarcinoma regression in vivo [dTAG_expt1_RNAseq] 16 samples shares degradation, targeted
- GSE51685 Targeted degradation of sense and antisense C9orf72 RNA foci as therapy for amyotrophic lateral sclerosis and frontotemporal dementia (strand specific RNA-seq) 9 samples shares degradation, targeted
- GSE275003 CTCF tunes gene expression in a loop-dependent and -independent manner 172 samples shares ctcf
- GSE270669 Binding domain mutations provide insight into CTCF's relationship with chromatin and its contribution to gene regulation 130 samples shares ctcf
- GSE260914 ZNF143 is a transcriptional regulator of nuclear-encoded mitochondrial genes that acts independently of looping and CTCF 78 samples shares ctcf
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.