Identification of immunogenic double-stranded RNAs in human cell lines
RNA-seq (gene expression) · human · 28 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)
- Samples
- 28 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 GSE155964_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 PRJNA656373 and SRA study SRP277049. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 14 samples.
How we read this: 6 replicated groups read from 28 sample titles; they account for 14 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.
- GSM4717212 ADAR1KO_MDA5
- GSM4717213 DI_ADAR2_iMDA5
- GSM4717214 ADAR2KO_MDA5
- GSM4717215 DI_ADAR110_MDA5
- GSM4717216 DI_ADAR150_MDA5
- GSM4717217 DI_MDA5_MAVSKO_rep1 DI_MDA5_MAVSKO
- GSM4717218 DI_MDA5_MAVSKO_rep2 DI_MDA5_MAVSKO
- GSM4717219 DI_1allele
- GSM4717220 DI_2allele
- GSM4717221 DI_rep1 DI
- GSM4717222 DI_rep2 DI
- GSM4717223 DI_rep3 DI
- GSM4717224 DI_cytoADAR2_iMDA5
- GSM4717225 NPC110 NPC
- GSM4717226 NPC150 NPC
- GSM4717227 NPCKO15 NPCKO
- GSM4717228 NPCKO29 NPCKO
- GSM4717229 NPCWT15 NPCWT
- GSM4717230 NPCWT29 NPCWT
- GSM4717231 150KO_MDA5
- GSM4717232 RICWT
- GSM4717233 WT_Cytosolic
- GSM4717234 WTMDA5
- GSM4717235 WT_Nuclear
- GSM4717236 WTwoMDA5_rep1 WTwoMDA5
- GSM4717237 WTwoMDA5_rep2 WTwoMDA5
- GSM4717238 WTwoMDA5_rep3 WTwoMDA5
- GSM4717239 ADAR1p110 KD, +MDA5
- GSE226482 Single cell RNA sequencing of spinal motor neurons and interneurons differentiated from isogenic FUS and TARDBP human induced pluripotent stem cell lines harbouring ALS-causative mutations 1415 samples shares lines
- GSE336490 Comparative toxicogenomic profiling of human epithelial cell lines exposed to hazardous chemicals 120 samples shares lines
- GSE245986 Profiling circular RNAs across human embryonic stem cell differentiation identifies the role of circACVR2A(4-6) in neuroectoderm lineage differentiation. 54 samples shares rnas
- GSE281106 Single-cell RNA-seq of peripheral blood links cell-type-specific regulation of splicing to autoimmune and inflammatory diseases [scRNAseq_KR_SGI] 352 samples shares rnas
- GSE222196 Treatment of prostate cancer cell lines with Androgen Receptor and Receptor Tyrosine Kinase inhibitors 246 samples shares lines
- GSE288221 RNA sequencing human melanoma, glioblastoma and pancreatic adenocarcinoma cell lines 32 samples shares lines
- GSE336141 Systematic transcriptomic comparison of the time-serial interferon responses in two widely used human cell lines 30 samples shares lines
- GSE330188 Crnic Institute Human Trisome Project - Tofacitinib for Immune Skin Conditions in Down Syndrome: PolyA RNAseq from whole blood 194 samples shares rnas
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.