Fetal Sex Does Not Influence Rates of Gastrulation-Stage Alcohol-Induced Craniofacial Malformations in C57BL/6J Mice
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 7 × E7_embryo_male_WT vs 5 × E7_embryo_female_WTGroups 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
- Gastrulation-stage alcohol exposure induces similar rates of craniofacial malformations in male and female C57BL/6J miceBirth defects research · 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 GSE239355_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 PRJNA998893 and SRA study SRP451601. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 2 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.
- GSM7663570 E7_embryo_male_WT_rep1 E7_embryo_male_WT
- GSM7663571 E7_embryo_male_WT_rep2 E7_embryo_male_WT
- GSM7663572 E7_embryo_male_WT_rep3 E7_embryo_male_WT
- GSM7663573 E7_embryo_female_WT_rep1 E7_embryo_female_WT
- GSM7663574 E7_embryo_female_WT_rep2 E7_embryo_female_WT
- GSM7663575 E7_embryo_male_WT_rep4 E7_embryo_male_WT
- GSM7663576 E7_embryo_male_WT_rep5 E7_embryo_male_WT
- GSM7663577 E7_embryo_male_WT_rep6 E7_embryo_male_WT
- GSM7663578 E7_embryo_female_WT_rep3 E7_embryo_female_WT
- GSM7663579 E7_embryo_female_WT_rep4 E7_embryo_female_WT
- GSM7663580 E7_embryo_male_WT_rep7 E7_embryo_male_WT
- GSM7663581 E7_embryo_female_WT_rep5 E7_embryo_female_WT
- GSE288224 Transient Pharmacological Inhibition of SUMOylation during Pregnancy Induces Craniofacial Malformations in Offspring Mice 18 samples shares malformations, craniofacial
- GSE260990 Investigating the Etiology of Craniofacial and Cardiac Malformations in a Mouse Model of SF3B4-Related Syndromes 6 samples shares malformations, craniofacial
- GSE228455 Gene expression profile at single cell level of monocytes sorted from C57BL/6J mouse ear tissue at 3 weeks post Leishmania major infection [scRNA-seq] 218 samples shares c57bl
- GSE228456 Cell-intrinsic effect of IL-7R signaling of monocytes within C57BL/6J mouse ears infected with Leishmania major [bulk RNA-seq] 87 samples shares c57bl
- GSE291439 C57BL6 Substrain Differences in Hippocampal-Dependent Learning and Transcriptome 72 samples shares c57bl
- GSE269129 Alcohol and fear conditioning produce strain-specific changes in the dorsal hippocampal transcriptome of adolescent C57BL/6J and DBA/2J mice 63 samples shares c57bl
- GSE305103 RNA-seq of liver, kidney, and quadriceps muscle from corylin-treated and control C57BL/6J mice 54 samples shares c57bl
- GSE315893 Characterization of Subchronic Lung and Brain Consequences Caused by Mouse-Adapted SARS-CoV-2 and Influenza A Infection of C57BL6 mice 44 samples shares c57bl
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.