Transcriptional Effects of 6-Shogaol and 6-Gingerol in LPS-Stimulated BV2 Microglial Cells
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: 6 conditions, mostly in duplicateGroups 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 GSE336398_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 PRJNA1481526 and SRA study SRP712202. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 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.
- GSM9834148 BV2, untreated, Rep1 BV2, untreated,
- GSM9834149 BV2, untreated, Rep2 BV2, untreated,
- GSM9834150 BV2, LPS, Rep1 BV2, LPS,
- GSM9834151 BV2, LPS, Rep2 BV2, LPS,
- GSM9834152 BV2, 6-Gingerol 10 µM + LPS, Rep1 BV2, 6-Gingerol 10 µM +…
- GSM9834153 BV2, 6-Gingerol 10 µM + LPS, Rep2 BV2, 6-Gingerol 10 µM +…
- GSM9834154 BV2, 6-Gingerol 30 µM + LPS, Rep1 BV2, 6-Gingerol 30 µM +…
- GSM9834155 BV2, 6-Gingerol 30 µM + LPS, Rep2 BV2, 6-Gingerol 30 µM +…
- GSM9834156 BV2, 6-Shogaol 10 µM + LPS, Rep1 BV2, 6-Shogaol 10 µM + …
- GSM9834157 BV2, 6-Shogaol 10 µM + LPS, Rep2 BV2, 6-Shogaol 10 µM + …
- GSM9834158 BV2, 6-Shogaol 30 µM + LPS, Rep1 BV2, 6-Shogaol 30 µM + …
- GSM9834159 BV2, 6-Shogaol 30 µM + LPS, Rep2 BV2, 6-Shogaol 30 µM + …
- GSE328236 Transcriptomic profiling of Carfilzomib (CFZ) treatment in HSV-1 infected BV2 microglial cells 12 samples shares bv2, microglial
- GSE201985 RNA-seq study of curcumin transforming phenotype of PRV-infected BV2 cells 9 samples shares bv2
- GSE230636 Effect of a synthetic steroid 5α-androst-3β, 5α, 6β-triol on gene expression in irradiated BV2 cells 9 samples shares bv2
- GSE197871 RNA-seq analysis of differentiated noradrenergic neurons (1C11NE) and microglia (BV2) following exposure to acrylamide (ACR) 21 samples shares bv2
- GSE307044 Optineurin Shapes Basal and LPS-Induced Transcriptomes in BV2 Microglia 12 samples shares bv2
- GSE327586 Status Epilepticus Alters the Function of Brain-Derived Extracellular Vesicles [BV2-RNA-seq] 9 samples shares bv2
- GSE319239 YY1 and ZFP384 CUT&Tag of BV2 cells and microglia after ischemic stroke 13 samples shares bv2
- GSE102257 Combined analysis of oligonucleotide microarray data from transgenic and knockout mice identifies direct SREBP target genes [MG_U74Bv2] 10 samples shares bv2
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.