Gene expression clusters change and molecular correlation via STING pathway between orbital MALT lymphoma and orbital IgG4-related eye diseases
RNA-seq (gene expression) · human · 20 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
- Homo sapiens (human)
- Topic
- Marginal zone lymphomaThis series is part of our curated briefing on it.
- Samples
- 20 samples: 11 × IgG vs 9 × MALTGroups 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.
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 GSE276421_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 PRJNA1157331 and SRA study SRP530774. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 2 replicated groups read from 20 sample titles; they account for 20 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.
- GSM8498343 MALT1 MALT
- GSM8498344 MALT2 MALT
- GSM8498345 MALT3 MALT
- GSM8498346 MALT4 MALT
- GSM8498347 MALT5 MALT
- GSM8498348 MALT6 MALT
- GSM8498349 MALT7 MALT
- GSM8498350 MALT8 MALT
- GSM8498351 MALT9 MALT
- GSM8498352 IgG41 IgG
- GSM8498353 IgG42 IgG
- GSM8498354 IgG43 IgG
- GSM8498355 IgG44 IgG
- GSM8498356 IgG45 IgG
- GSM8498357 IgG46 IgG
- GSM8498358 IgG47 IgG
- GSM8498359 IgG48 IgG
- GSM8498360 IgG49 IgG
- GSM8498361 IgG410 IgG
- GSM8498362 IgG411 IgG
- GSE227833 A single cell RNA-Seq 5’ study of splenic marginal zone lymphomas (SMZL) and spleen healthy donors 8 samples same disease briefing · shares lymphoma
- GSE286927 Exploration of transcriptomic and proteomic profiles of the tumor microenvironment of marginal zone lymphoma 4 samples same disease briefing · shares lymphoma
- GSE283092 Distinct transcriptional changes distinguish efficient and poor remyelination in multiple sclerosis 96 samples shares sting, change
- GSE254174 Changes to the global transcriptome in human U2OS and BJ cell lines as a result of STING activation 48 samples shares sting, change
- GSE275395 Deciphering Pre-existing and Induced 3D Genome Architecture Changes involved in Constricted Melanoma Migration (RNA-Seq) 30 samples shares sting, change
- GSE279553 Longitudinally stable T cell and innate immune activity distinguish healthy adult immunotypes 1885 samples shares sting
- GSE279480 Longitudinally stable T cell and innate immune activity distinguish healthy adult immunotypes I 1021 samples shares sting
- GSE279552 Longitudinally stable T cell and innate immune activity distinguish healthy adult immunotypes [II] 864 samples shares sting
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.