Doxorubicin resistance involves modulation of interferon signaling, transcriptional bursting, and gene co-expression patterns of U-ISGF3-related genes
Single-cell RNA-seq · human · 10 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 10 samples: 3 × HCT_mRNA_UTR vs 3 × HCT_mRNA_DOX vs 2 × scRNA_HCT_UTR vs 2 × scRNA_HCT_DOXGroups 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
- Doxorubicin resistance involves modulation of interferon signaling, transcriptional bursting, and gene co-expression patterns of U-ISGF3-related genesNeoplasia (New York, N.Y.) · 2024
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 GSE275330_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1150261 and SRA study SRP527643. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 4 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.
- GSM8474980 scRNA_HCT_UTRr1 scRNA_HCT_UTR
- GSM8474981 scRNA_HCT_UTRr2 scRNA_HCT_UTR
- GSM8474982 scRNA_HCT_DOXr1 scRNA_HCT_DOX
- GSM8474983 scRNA_HCT_DOXr2 scRNA_HCT_DOX
- GSM8474984 HCT_mRNA_UTR_r1 HCT_mRNA_UTR
- GSM8474985 HCT_mRNA_UTR_r2 HCT_mRNA_UTR
- GSM8474986 HCT_mRNA_UTR_r3 HCT_mRNA_UTR
- GSM8474987 HCT_mRNA_DOX_r1 HCT_mRNA_DOX
- GSM8474988 HCT_mRNA_DOX_r2 HCT_mRNA_DOX
- GSM8474989 HCT_mRNA_DOX_r3 HCT_mRNA_DOX
- GSE294934 Epigenomic analysis of organoids from colorectal cancer peritoneal and liver metastases uncovers a mechanism of resistance to doxorubicin 15 samples shares doxorubicin, resistance
- GSE280381 Investigating therapy-induced senescence as a reversible escape mechanism of drug resistance in breast cancer cells using high-dose doxorubicin treatment 12 samples shares doxorubicin, resistance
- GSE325907 Placental gene co-expression networks and mediation analysis identifies pathways and genes associated with birthweight 319 samples shares co-expression
- GSE330399 Molecular and Structural Basis of Pan-Resistance to BTK Inhibitors and Degraders 100 samples shares resistance
- GSE273829 GABA promotes resistance to immunotherapy of patients with TLS-positive tumors [RNA-seq] 92 samples shares resistance
- GSE286827 4-1BB+ Tregs and inhibitory progenitor exhausted T cells confer resistance to anti-PD-L1 and anti-CTLA-4 combination therapy 87 samples shares resistance
- GSE211434 Diverse immune suppressing cancer communications with myeloid cells prevent T cell activation and recruitment and provide resistance to cell cycle inhibitor therapy 81 samples shares resistance
- GSE245948 A dynamic subcutaneous adipose transcriptome of human insulin resistance identifies a molecular predisposition shared with visceral adipose tissue 76 samples shares 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.