TT-Seq captures the human transient transcriptome
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 12 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
- 12 samples: 6 conditions, mostly in duplicateGroups 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.
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 GSE75792_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 PRJNA305363 and SRA study SRP067119. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 replicated groups read from 12 sample titles; they account for 12 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.
- GSM1967863 TT-Seq rep1 TT-Seq
- GSM1967864 TT-Seq rep2 TT-Seq
- GSM1967865 4sU-Seq rep1 4sU-Seq
- GSM1967866 4sU-Seq rep2 4sU-Seq
- GSM1967867 Total RNA-Frag-Seq rep1 Total RNA-Frag-Seq
- GSM1967868 Total RNA-Frag-Seq rep2 Total RNA-Frag-Seq
- GSM1967869 Total RNA-Seq rep1 Total RNA-Seq
- GSM1967870 Total RNA-Seq rep2 Total RNA-Seq
- GSM1967871 S2P ChIP rep1 S2P ChIP
- GSM1967872 S2P ChIP rep2 S2P ChIP
- GSM1967873 N20 ChIP rep1 N20 ChIP
- GSM1967874 N20 ChIP rep2 N20 ChIP
- GSE159984 Persistent or Transient Human β-cell Dysfunction Induced by Metabolic Stress Associated with Specific Signatures and Shared Gene Expression of Type 2 Diabetes 131 samples shares transient
- GSE46604 Xenografting of advanced stage breast cancer preserves the genomic and clonal architecture and captures luminal tumors harboring mutations and gene rearrangements in ESR1 272 samples shares captures
- GSE248366 Simulated Lunar Microgravity Transiently Arrests Growth and Induces Osteocyte-Chondrocyte Lineage Differentiation in Human Wharton’s jelly stem cells. 26 samples shares transient
- GSE251718 Robust differentiation of human pluripotent stem cells into mural progenitor cells via transient activation of NKX3.1 22 samples shares transient
- GSE338003 Transcriptomic Analysis Identifies Transient Mesendodermal State and Lineage Divergence in Human Pluripotent Stem Cell Differentiation 21 samples shares transient
- GSE287212 Transient SP140 inhibition unlocks hematopoietic stem cell fate from human pluripotent stem cells [CUT&Tag] 20 samples shares transient
- GSE272196 Transposable element activity captures human pluripotent cell states. 16 samples shares captures
- GSE287211 Transient SP140 inhibition unlocks hematopoietic stem cell fate from human pluripotent stem cells [ATAC-seq] 15 samples shares transient
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.