THAP1 is a master regulator of zinc finger transcription factors guiding gastrulation of murine embryos [RNA-seq_mESC]
RNA-seq (gene expression) · mouse · 18 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 18 samples: 9 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.
- Paper
- ZSCAN10 deficiency causes a neurodevelopmental disorder with characteristic oto-facial malformationsBrain : a journal of neurology · 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 GSE234677_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA982752 and SRA study SRP442864. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 9 replicated groups read from 18 sample titles; they account for 18 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.
- GSM7473184 mESC_WT_day0_C1 mESC_WT_day0_C
- GSM7473185 mESC_WT_day0_C2 mESC_WT_day0_C
- GSM7473186 mESC_WT_day4_C1 mESC_WT_day4_C
- GSM7473187 mESC_WT_day4_C2 mESC_WT_day4_C
- GSM7473188 mESC_THAP1_day0_C1 mESC_THAP1_day0_C
- GSM7473189 mESC_THAP1_day0_C2 mESC_THAP1_day0_C
- GSM7473190 mESC_THAP1_day4_C1 mESC_THAP1_day4_C
- GSM7473191 mESC_THAP1_day4_C2 mESC_THAP1_day4_C
- GSM7473192 mESC_ZFP764_day0_C1 mESC_ZFP764_day0_C
- GSM7473193 mESC_ZFP764_day0_C2 mESC_ZFP764_day0_C
- GSM7473194 mESC_ZFP764_day4_C1 mESC_ZFP764_day4_C
- GSM7473195 mESC_ZFP764_day4_C2 mESC_ZFP764_day4_C
- GSM7473196 mESC_ZFP524_day0_C1 mESC_ZFP524_day0_C
- GSM7473197 mESC_ZFP524_day0_C2 mESC_ZFP524_day0_C
- GSM7473198 mESC_ZFP524_day4_C1 mESC_ZFP524_day4_C
- GSM7473199 mESC_ZFP524_day4_C2 mESC_ZFP524_day4_C
- GSM7979524 mESC_Zscan10_day0_C1 mESC_Zscan10_day0_C
- GSM7979525 mESC_Zscan10_day0_C2 mESC_Zscan10_day0_C
- GSE282096 Diminished transcriptional activity and splicing changes drive gene length-biased rewiring in the aging transcriptome (RNA-Seq) 94 samples shares transcription, rna-seq
- GSE281037 Large-scale transcriptomic analyses reveal downstream target genes of ZFY1 and ZFY2 transcription factors in male germ cells 48 samples shares transcription, factors
- GSE268774 Lymph node macrophages drive immune tolerance and resistance to cancer therapy by expression of the immune-regulatory cytokine IL-33 [RNA-seq] 48 samples shares regulator, rna-seq
- GSE248585 A conserved epithelial wound-like transcriptional program driven by FOSL1 underlies malignant progression of pancreatic ductal adenocarcinoma (ssRNA-Seq) 46 samples shares transcription, rna-seq
- GSE267967 Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for functional differentiation of Treg cells [RNA-seq] 26 samples shares regulator, rna-seq
- GSE245648 The Heme-regulated transcriptional repressor, BACH1 safeguards macrophage enhancer selection, activation andtissue adaptation [RNA-seq_BMDM] 24 samples shares transcription, rna-seq
- GSE245838 Anchored screening identifies transcription factor blueprints underlying dendritic cell diversity and subset-specific anti-tumor immunity [mouse scRNA-seq] 21 samples shares transcription, rna-seq
- GSE269808 The antiviral nuclear body protein SP140 represses Ifnb1 transcript stabilization by the novel regulator RESIST [WT and SP140 KO RNA-seq] 12 samples shares regulator, rna-seq
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.