Bojungikki-tang ameliorates psoriasis-like dermatitis: Network analysis and transcriptomics with experimental validation
RNA-seq (gene expression) · mouse · 24 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
- 24 samples: 6 conditions, mostly with about 4 replicates eachGroups 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 GSE309592_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 PRJNA1336304 and SRA study SRP629717. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 6 replicated groups read from 24 sample titles; they account for 24 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.
- GSM9269841 Normal1 Normal
- GSM9269842 Normal2 Normal
- GSM9269843 Normal3 Normal
- GSM9269844 Normal4 Normal
- GSM9269845 IMQ1 IMQ
- GSM9269846 IMQ2 IMQ
- GSM9269847 IMQ3 IMQ
- GSM9269848 IMQ4 IMQ
- GSM9269849 BJT250_1 BJT250
- GSM9269850 BJT250_2 BJT250
- GSM9269851 BJT250_3 BJT250
- GSM9269852 BJT250_4 BJT250
- GSM9269853 BJT500_1 BJT500
- GSM9269854 BJT500_2 BJT500
- GSM9269855 BJT500_3 BJT500
- GSM9269856 BJT500_4 BJT500
- GSM9269857 BJT1000_1 BJT1000
- GSM9269858 BJT1000_2 BJT1000
- GSM9269859 BJT1000_3 BJT1000
- GSM9269860 BJT1000_4 BJT1000
- GSM9269861 MTX1 MTX
- GSM9269862 MTX2 MTX
- GSM9269863 MTX3 MTX
- GSM9269864 MTX4 MTX
- GSE266962 Targeting Immunoproteasome in Macrophages Suppresses M1 Polarization and Ameliorates Experimental Emphysema via Activating NRF1 and NRF2-P62 Axis 24 samples shares experimental, ameliorates
- GSE223224 Thymopentin ameliorates experimental colitis by inhibiting neutrophil extracellular traps: an alternative way to restore immune balance in IBD? 12 samples shares experimental, ameliorates
- GSE298934 Activation of M3 muscarinic ameliorates experimental autoimmune encephalomyelitis by restoring microglial quiescence 9 samples shares experimental, ameliorates
- GSE227937 MicroRNA-150 controls experimental autoimmune encephalomyelitis by regulating CD4 T cell differentiation and function 69 samples shares experimental
- GSE272981 BAT and SAT Treg cells and of BAT tissue with or without Treg cells under different experimental conditions 62 samples shares experimental
- GSE298240 Inhibition of p38 MAPK after repetitive mild TBI ameliorates immune signaling and behavioral deficit 58 samples shares ameliorates
- GSE316703 Microbiota-Derived Isovalerate Ameliorates Sex-Specific Gut Barrier Dysfunction in Malnutrition [RNA-seq colon epithelium] 50 samples shares ameliorates
- GSE230078 Targeting the intestinal circadian clock by meal timing ameliorates gastrointestinal inflammation 48 samples shares ameliorates
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.