Wild-Type vs Orai1KO pTH17 and npTh17 cells_ 48h
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: 12 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.
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 GSE286880_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 PRJNA1210486 and SRA study SRP557213. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 12 sample titles: 12 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.
- GSM8733080 npTh17_cells, Control 1, biorep1
- GSM8733081 npTh17_cells, Control 2, biorep1
- GSM8733082 npTh17_cells, Control 3, biorep1
- GSM8733083 pTh1_cells, Control 1, biorep1
- GSM8733084 pTh1_cells, Control 2, biorep1
- GSM8733085 pTh1_cells, Control 3, biorep1
- GSM8733086 npTh1_cells, ORAI1KO 1, biorep1
- GSM8733087 npTh1_cells, ORAI1KO 2, biorep1
- GSM8733088 npTh1_cells, ORAI1KO 3, biorep1
- GSM8733089 pTh1_cells, ORAI1KO 1, biorep1
- GSM8733090 pTh1_cells, ORAI1KO 2, biorep1
- GSM8733091 pTh1_cells, ORAI1KO 3, biorep1
- GSE263080 RNA-sea of Smad4 wild-type or Smad4 knockout KPC PDAC organoids from monocultures or co-cultures with pancreatic stellate cells and RNA-seq of flow-sorted PSCs from the same co-cultures. 44 samples shares wild-type
- GSE263081 RNA-sea of Smad4 wild-type or Smad4 knockout KvPC PDAC organoids from monocultures or co-cultures with pancreatic stellate cells and RNA-seq of flow-sorted PSCs from the same co-cultures. 35 samples shares wild-type
- GSE276797 Gene expression profile at single cell level of immune cells from the deep cervical lymph nodes (dCLNs), superficial cervical lymph nodes (sCLNs), and inguinal lymph nodes (iLNs) of wild-type (WT) and Alzheimer's disease (AD) transgenic animals (5xFAD) 34 samples shares wild-type
- GSE282998 Comparison of phenotypic and transcriptomic profiles between HFPO-DA and prototypical PPARα, PPARγ, and cytotoxic agents in wild-type and PPARα knockout mouse livers 192 samples shares wild-type
- GSE293931 RNA-seq of endothelial cells in wild-type and Shb iECKO mice 21 samples shares wild-type
- GSE225579 mRNA-seq of wild-type or p53-deficient B cells expressing MHV68 M2 17 samples shares wild-type
- GSE307414 Bulk mRNA-seq analysis of mouse hematopoietic stem and progenitor cells expressing wild-type and mutant H2B during myeloid and megakaryocyte/erythroid differentiation 15 samples shares wild-type
- GSE312117 RNA-seq profiling of wild-type E-mu-Myc-cells cultivated in vitro and of E-mu-Myc-cells-derived B-cell lymphoma treated with Vehicle and ASNase in vivo. 14 samples shares wild-type
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.