RNA sequencing - E12 mouse embryonic cortices Emx1-Cre Zbtb7a-flox cKO vs WT
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 5 × ZB1 vs 3 × ZB3 vs 2 × ZB5Groups 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 GSE294144_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 PRJNA1248452 and SRA study SRP577571. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 3 replicated groups read from 10 sample titles; they account for 10 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.
- GSM8899404 ZB1_2 ZB1
- GSM8899405 ZB1_3 ZB1
- GSM8899406 ZB1_6 ZB1
- GSM8899407 ZB1_7 ZB1
- GSM8899408 ZB1_8 ZB1
- GSM8899409 ZB3_1 ZB3
- GSM8899410 ZB3_2 ZB3
- GSM8899411 ZB3_4 ZB3
- GSM8899412 ZB5_2 ZB5
- GSM8899413 ZB5_3 ZB5
- GSE294107 CUT&RUN sequencing - E12 mouse embryonic cortices ZBTB7A - GATAD2B - H3K27ac… 18 samples shares e12, embryonic, cortices
- GSE213104 Gene expression profile at single cell level of Merkel cells from embryonic, neonatal and postnatal mouse skin 1057 samples shares embryonic
- GSE267870 Temporal effects of BMP4 on mouse embryonic and extraembryonic development 383 samples shares embryonic
- GSE202079 Short term perturbation of mouse embryonic stem cells with morphogens and small molecule compounds 208 samples shares embryonic
- GSE285231 Systems genetics reveals the influence of eQTLs in mouse embryonic stem cells on transcriptional variation later in differentiated neural progenitor cells 186 samples shares embryonic
- GSE272450 Generation of germinal-vesicle oocytes from mouse embryonic stem cells under an ovarian soma-free condition (SC3-Seq) 156 samples shares embryonic
- GSE252199 Quantification of subcellular mRNA kinetics in mouse embryonic stem cells 100 samples shares embryonic
- GSE250570 RNA-seq analysis of neuronal differentiation of KAT6A/B knockout mouse embryonic stem cells 48 samples shares embryonic
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.