Development of mRNA expression signatures for Nao Yi Kang decoction in treating intracerebral hemorrhage
RNA-seq (gene expression) · mouse · 15 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
- 15 samples: 5 × brain_3d_sham vs 5 × brain_3d_ICH vs 5 × brain_3d_NYKDGroups 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 GSE279182_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 PRJNA1171321 and SRA study SRP537693. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 15 samples.
How we read this: 3 replicated groups read from 15 sample titles; they account for 15 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.
- GSM8563715 brain_3d_sham_rep1 brain_3d_sham
- GSM8563716 brain_3d_sham_rep2 brain_3d_sham
- GSM8563717 brain_3d_sham_rep3 brain_3d_sham
- GSM8563718 brain_3d_sham_rep4 brain_3d_sham
- GSM8563719 brain_3d_sham_rep5 brain_3d_sham
- GSM8563720 brain_3d_ICH_rep2 brain_3d_ICH
- GSM8563721 brain_3d_ICH_rep3 brain_3d_ICH
- GSM8563722 brain_3d_ICH_rep4 brain_3d_ICH
- GSM8563723 brain_3d_ICH_rep5 brain_3d_ICH
- GSM8563724 brain_3d_ICH_rep1 brain_3d_ICH
- GSM8563725 brain_3d_NYKD_rep1 brain_3d_NYKD
- GSM8563726 brain_3d_NYKD_rep2 brain_3d_NYKD
- GSM8563727 brain_3d_NYKD_rep3 brain_3d_NYKD
- GSM8563728 brain_3d_NYKD_rep4 brain_3d_NYKD
- GSM8563729 brain_3d_NYKD_rep5 brain_3d_NYKD
- GSE266602 Regulation of Microglia-Mediated Neuroinflammation Post-Intracerebral Hemorrhage by Gut Microbiota and Short-Chain Fatty Acid Metabolism 27 samples shares intracerebral, hemorrhage
- GSE225651 Brain changes in responses of mice to intracerebral hemorrhage at the acute stages 12 samples shares intracerebral, hemorrhage
- GSE295108 Fatty acid-binding protein 4 drives neuroinflammation after intracerebral hemorrhage 12 samples shares intracerebral, hemorrhage
- GSE255212 Transcriptomic Signatures of WNT-Driven Pathways and Granulosa Cell-Oocyte Interaction during Primordial Follicle Activation 762 samples shares signatures
- GSE272929 Transcriptomic and Epigenomic Signatures Distinguish High- and Low-Risk Endotypes for Liver Tumor Development [RNA-Seq liver] 75 samples shares signatures
- GSE291420 Deciphering the Transcriptomic Signatures of Aging Across Organs in Mice 270 samples shares signatures
- GSE239946 Signatures of IL1b, IL6 and TNFa in immune cell-types 209 samples shares signatures
- GSE288772 Genomic and Behavioral Signatures of Selection for Ethanol Preference from the Heterogeneous Stock Collaborative Cross Mice – The Central Nucleus of the Amygdala 200 samples shares signatures
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.