Nucleotide metabolism in cancer cells fuels a UDP-driven macrophage cross-talk promoting immunosuppression and immunotherapy resistance [RNAseq_Panc02_sgNT_sgCda_tumor]
RNA-seq (gene expression) · mouse · 10 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
- 10 samples: 5 × Tumor_sgNT vs 5 × Tumor_sgCdaGroups 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 GSE196788_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 PRJNA807314 and SRA study SRP359959. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 2 replicated groups read from 10 sample titles; they account for 10 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.
- GSM5901046 Tumor_sgNT_1 Tumor_sgNT
- GSM5901047 Tumor_sgCda_1 Tumor_sgCda
- GSM5901048 Tumor_sgNT_2 Tumor_sgNT
- GSM5901049 Tumor_sgCda_2 Tumor_sgCda
- GSM5901050 Tumor_sgNT_3 Tumor_sgNT
- GSM5901051 Tumor_sgCda_3 Tumor_sgCda
- GSM5901052 Tumor_sgNT_4 Tumor_sgNT
- GSM5901053 Tumor_sgCda_4 Tumor_sgCda
- GSM5901054 Tumor_sgNT_5 Tumor_sgNT
- GSM5901055 Tumor_sgCda_5 Tumor_sgCda
- GSE196790 Nucleotide metabolism in cancer cells fuels a UDP-driven macrophage cross-talk promoting immunosuppression and immunotherapy resistance 54 samples shares immunosuppression, immunotherapy, nucleotide, udp-driven, macrophage, cross-talk, resistance
- GSE302715 A tumor-associated macrophage-targeted immunocytokine leveraging T and NK cell synergy for potent cancer immunotherapy [scRNA-seq] 187 samples shares immunotherapy, macrophage
- GSE266110 7aaRGD - a novel SPP1/integrin signaling-blocking peptide reverses immunosuppression and improves anti-PD-1 immunotherapy outcomes in experimental gliomas 40 samples shares immunosuppression, immunotherapy
- GSE212259 Whole-course Taming of Tumor-associated Macrophages from Central to Peripheral using Engineered Outer Membrane Vesicle Nanohybrids for Improved Immunotherapy [part 1: RNA-seq] 36 samples shares immunotherapy, macrophage
- GSE281467 Coactivation of innate immune suppressive cells induces acquired resistance against cancer immunotherapy targeting the innate immune system [TIICs RNA-seq] 30 samples shares immunotherapy, resistance
- GSE267544 Classically activated macrophages undergo functionally significant nucleotide metabolism remodelling driven by nitric oxide 21 samples shares nucleotide, macrophage
- GSE281466 Coactivation of innate immune suppressive cells induces acquired resistance against cancer immunotherapy targeting the innate immune system [TME RNA-seq] 18 samples shares immunotherapy, resistance
- GSE275780 Dual Targeting of STING and PI3Kγ Eliminates Regulatory B Cells to Overcome STING Resistance for Pancreatic Cancer Immunotherapy [RNA-seq] 17 samples shares immunotherapy, resistance
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.