An atlas of small non-coding RNAs in Human Preimplantation Development (Mouse embryo RNA-seq)
RNA-seq (gene expression) · mouse · 132 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
- 132 samples: 132 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
- An atlas of small non-coding RNAs in human preimplantation developmentNature communications · 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 GSE272793_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 PRJNA1138744 and SRA study SRP521398. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 63 samples read as cases, 69 as controls.
How we read this: Read from 132 sample titles: 132 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.
- GSM8411224 mouse_mirmOTSTEO_sample_101_b (miR381mimic_treated)
- GSM8411225 mouse_mirmOTSTEO_sample_102_b (miR381mimic_treated)
- GSM8411226 mouse_mirmOTSTEO_sample_103_b (miR381mimic_treated)
- GSM8411227 mouse_mirmOTSTEO_sample_104_b (miR381mimic_treated)
- GSM8411228 mouse_mirmOTSTEO_sample_105_b (miR381mimic_treated)
- GSM8411229 mouse_mirmOTSTEO_sample_106_b (miR381mimic_treated)
- GSM8411230 mouse_mirmOTSTEO_sample_107_b (miR381mimic_treated)
- GSM8411231 mouse_mirmOTSTEO_sample_108_b (miR381mimic_treated)
- GSM8411232 mouse_mirmOTSTEO_sample_109_b (miR381mimic_treated)
- GSM8411233 mouse_mirmOTSTEO_sample_10_a (control)
- GSM8411234 mouse_mirmOTSTEO_sample_110_b (miR381mimic_treated)
- GSM8411235 mouse_mirmOTSTEO_sample_111_b (miR381mimic_treated)
- GSM8411236 mouse_mirmOTSTEO_sample_112_b (miR381mimic_treated)
- GSM8411237 mouse_mirmOTSTEO_sample_113_b (miR381mimic_treated)
- GSM8411238 mouse_mirmOTSTEO_sample_114_b (miR381mimic_treated)
- GSM8411239 mouse_mirmOTSTEO_sample_115_b (miR381mimic_treated)
- GSM8411240 mouse_mirmOTSTEO_sample_116_b (miR381mimic_treated)
- GSM8411241 mouse_mirmOTSTEO_sample_117_b (miR381mimic_treated)
- GSM8411242 mouse_mirmOTSTEO_sample_118_b (miR381mimic_treated)
- GSM8411243 mouse_mirmOTSTEO_sample_11_a (control)
- GSM8411244 mouse_mirmOTSTEO_sample_12_a (control)
- GSM8411245 mouse_mirmOTSTEO_sample_139_b (miR381mimic_treated)
- GSM8411246 mouse_mirmOTSTEO_sample_13_a (control)
- GSM8411247 mouse_mirmOTSTEO_sample_140_b (miR381mimic_treated)
- GSM8411248 mouse_mirmOTSTEO_sample_141_b (miR381mimic_treated)
- GSM8411249 mouse_mirmOTSTEO_sample_143_b (miR381mimic_treated)
- GSM8411250 mouse_mirmOTSTEO_sample_144_b (miR381mimic_treated)
- GSM8411251 mouse_mirmOTSTEO_sample_145_b (miR381mimic_treated)
- GSM8411252 mouse_mirmOTSTEO_sample_146_b (miR381mimic_treated)
- GSM8411253 mouse_mirmOTSTEO_sample_147_b (miR381mimic_treated)
- GSM8411254 mouse_mirmOTSTEO_sample_148_b (miR381mimic_treated)
- GSM8411255 mouse_mirmOTSTEO_sample_149_b (miR381mimic_treated)
- GSM8411256 mouse_mirmOTSTEO_sample_14_a (control)
- GSM8411257 mouse_mirmOTSTEO_sample_150_b (miR381mimic_treated)
- GSM8411258 mouse_mirmOTSTEO_sample_151_b (miR381mimic_treated)
- GSM8411259 mouse_mirmOTSTEO_sample_152_b (control)
- GSM8411260 mouse_mirmOTSTEO_sample_153_b (control)
- GSM8411261 mouse_mirmOTSTEO_sample_154_b (control)
- GSM8411262 mouse_mirmOTSTEO_sample_155_b (control)
- GSM8411263 mouse_mirmOTSTEO_sample_156_b (control)
+ 92 more — browse all 132 samples with per-sample file links →
- GSE329635 Single-cell RNA sequencing of small intestinal organoid self-organization [scRNA-Seq] 10 samples shares rna-seq, small
- GSE222656 RNA-seq and Cut & Tag analyses of mouse 2-cell embryos in which lamin B1 dissociation from the nuclear envelope is inhibited 40 samples shares rna-seq, embryo
- GSE263895 Both host and parasite non-coding RNAs co-ordinate the regulation of macrophage gene expression to reduce pro-inflammatory immune responses and promote tissue repair pathways during infection with fasciola hepatica 40 samples shares non-coding, rnas
- GSE264105 Plate-based scRNA-seq of plasma-positive microglia and plasma-negative microglia in young mice 1111 samples shares rna-seq
- GSE326100 scRNA-seq of mouse cochlea organoid cells 768 samples shares rna-seq
- GSE330728 Single-nucleus RNA-seq atlas of 17 ASD-risk mouse lines under early-postnatal fluoxetine or lithium exposure (4-plex On-Chip Multiplexed) 53 samples shares rna-seq
- GSE311449 Single cell RNA-seq of mouse brain vascular cells with Smart-seq2 method 391 samples shares rna-seq
- GSE255418 RNA-sequencing reveals novel molecular mechanisms of endometriosis lesion development in a mouse model 36 samples shares 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.