Tumor cell intrinsic type I interferon signaling dictates CD47-SIRPα blockade immunotherapy via metabolic reprograming.
RNA-seq (gene expression) · mouse · 22 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
- 22 samples: 8 conditions, mostly in triplicateGroups 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.
- Paper
- Metabolic reprograming mediated by tumor cell-intrinsic type I IFN signaling is required for CD47-SIRPα blockade efficacyNature communications · 2024
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 GSE235113_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 PRJNA984607 and SRA study SRP444367. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 22 samples.
How we read this: 8 replicated groups read from 22 sample titles; they account for 22 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.
- GSM7495434 hIgG_rep2 hIgG
- GSM7495435 hIgG_rep3 hIgG
- GSM7495436 CV1_rep1 CV1
- GSM7495437 CV1_rep2 CV1
- GSM7495438 CV1_rep3 CV1
- GSM7495439 6h_Medium_rep1 6h_Medium
- GSM7495440 6h_Medium_rep2 6h_Medium
- GSM7495441 6h_Medium_rep3 6h_Medium
- GSM7495442 6h_IFNa_rep2 6h_IFNa
- GSM7495443 6h_IFNa_rep3 6h_IFNa
- GSM7495444 24h_Medium_rep1 24h_Medium
- GSM7495445 24h_Medium_rep2 24h_Medium
- GSM7495446 24h_Medium_rep3 24h_Medium
- GSM7495447 24h_IFNa_rep1 24h_IFNa
- GSM7495448 24h_IFNa_rep2 24h_IFNa
- GSM7495449 24h_IFNa_rep3 24h_IFNa
- GSM7495450 48h_Medium_rep1 48h_Medium
- GSM7495451 48h_Medium_rep2 48h_Medium
- GSM7495452 48h_Medium_rep3 48h_Medium
- GSM7495453 48h_IFNa_rep1 48h_IFNa
- GSM7495454 48h_IFNa_rep2 48h_IFNa
- GSM7495455 48h_IFNa_rep3 48h_IFNa
- GSE235112 Tumor cell intrinsic type I interferon signaling dictates CD47-SIRPα blockade immunotherapy via metabolic reprograming [dataset 2] 17 samples shares cd47-sirp, immunotherapy, reprograming, interferon, intrinsic, dictates, blockade, type
- GSE335309 Effect of keratinocyte-intrinsic VISTA deletion on UV-induced type I interferon and inflammatory gene expression in mouse epidermis 29 samples shares interferon, intrinsic, type
- GSE335221 Effect of keratinocyte-intrinsic VISTA deletion on UV-induced type I interferon and inflammatory gene expression in mouse epidermis [bulk RNA-seq] 28 samples shares interferon, intrinsic, type
- GSE290434 A stress response axis in tumor-associated macrophages dictates phenotype heterogeneity and immunotherapy evasion 21 samples shares immunotherapy, dictates, type
- GSE297709 STING agonists drive recruitment and intrinsic type I interferon responses in monocytic lineage cells for optimal anti-tumor immunity 18 samples shares interferon, intrinsic, type
- GSE285518 Inhibition of tumor-intrinsic NAT10 enhances antitumor immunity by triggering type I interferon responses via MYC/CDK2/DNMT1 pathway. 18 samples shares interferon, intrinsic, type
- GSE287098 Influenza virus-induced type I interferons disrupt alveolar epithelial repair and tight junction integrity in the developing lung 96 samples shares interferon, type
- GSE304521 SEX-DEPENDENT TYPE I INTERFERON SIGNALING EXACERBATES ALZHEIMER'S PATHOLOGY 82 samples shares interferon, 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.