Hominoid-specific transposable elements reshaped neural crest migration in craniofacial development
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 17 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
- 17 samples: 17 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
- Hominoid-specific transposable elements reshaped neural crest migration in craniofacial developmentMolecular systems biology · 2025
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 GSE292478_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 PRJNA1238839 and SRA study SRP571904. 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 17 sample titles: 17 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.
- GSM8859703 MT938_NCC d5 NOG rep5
- GSM8859704 MT939_NCC d5 HSTE rep5
- GSM8859705 MT940_NCC d5 NOG rep6
- GSM8859706 MT941_NCC d5 HSTE rep6
- GSM8859707 MT838_C2277 no gRNA D18 rep1
- GSM8859708 MT839_C2277 SVA gRNA D18 rep1
- GSM8859709 MT840_C2277 no gRNA D18 rep2
- GSM8859710 MT841_C2277 SVA gRNA D18 rep2
- GSM8859711 MT936_NCC d5 NOG rep1
- GSM8859712 MT937_NCC d5 HSTE rep1
- GSM8859713 MT942_NCC d5 NOG rep1
- GSM8859714 MT943_NCC d5 HSTE rep1
- GSM8859715 MT944_NCC d5 NOG rep2
- GSM8859716 MT946_NCC d5 NOG rep3
- GSM8859717 MT947_NCC d5 HSTE rep3
- GSM9256409 NCC d5 NOG rep10
- GSM9256410 NCC d5 HSTE rep10
- GSE145327 Loss of extreme long-range enhancers in human neural crest drives a craniofacial disorder 80 samples shares craniofacial, neural, crest
- GSE234237 Transposable Elements Shape Stemness in Normal and Leukemic Hematopoiesis 215 samples shares transposable, elements
- GSE270454 Epigenetic dysregulation of transposable elements in cognitive impairment and Alzheimer’s disease 135 samples shares transposable, elements
- GSE254244 Cancer cell type-specific derepression of transposable elements by inhibition of chromatin modifier enzymes 112 samples shares transposable, elements
- GSE254242 Cancer cell type-specific derepression of transposable elements by inhibition of chromatin modifier enzymes [RNA-Seq] 99 samples shares transposable, elements
- GSE283600 LINE-1 transposable elements regulate the exit of human pluripotency and early brain development 83 samples shares transposable, elements
- GSE275738 METTL3-dependent m6A RNA methylation represses transposable elements derived enhancers to suppress naïve pluripotency in human pluripotent stem cells 72 samples shares transposable, elements
- GSE262053 Charting the regulatory landscape of TP53 on transposable elements in cancer [RNA-seq] 72 samples shares transposable, elements
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.