Senescence defines a distinct subset of myofibroblasts that orchestrates immunosuppression in pancreatic cancer
RNA-seq (gene expression) · human · 30 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
- Pancreatic cancerThis series is part of our curated briefing on it.
- Samples
- 30 samples: 8 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.
- Paper
- Senescence Defines a Distinct Subset of Myofibroblasts That Orchestrates Immunosuppression in Pancreatic CancerCancer discovery · 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 GSE255978_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 PRJNA1075850 and SRA study SRP489448. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 8 replicated groups read from 30 sample titles; they account for 16 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.
- GSM8083650 Patient 1 Pretreatment #1 Patient 1 Pretreatment…
- GSM8083651 Patient 1 Pretreatment #2 Patient 1 Pretreatment…
- GSM8083652 Patient 1 Posttreatment #1 Patient 1 Posttreatmen…
- GSM8083653 Patient 1 Posttreatment #2 Patient 1 Posttreatmen…
- GSM8083654 Patient 2 Pretreatment #1 Patient 2 Pretreatment #
- GSM8083655 Patient 2 Pretreatment #2 Patient 2 Pretreatment #
- GSM8083656 Patient 3 Pretreatment #1 Patient 3 Pretreatment #
- GSM8083657 Patient 3 Pretreatment #2 Patient 3 Pretreatment #
- GSM8083658 Patient 4 Pretreatment
- GSM8083659 Patient 4 Posttreatment
- GSM8083660 Patient 6 Pretreatment
- GSM8083661 Patient 6 Posttreatment
- GSM8083662 Patient 7 Pretreatment
- GSM8083663 Patient 7 Posttreatment
- GSM8083664 Patient 8 Pretreatment
- GSM8083665 Patient 8 Posttreatment
- GSM8083666 Patient 9 Pretreatment
- GSM8083667 Patient 9 Posttreatment#1 Patient 9 Posttreatmen…
- GSM8083668 Patient 9 Posttreatment#2 Patient 9 Posttreatmen…
- GSM8083669 Patient 11 Pretreatment
- GSM8083670 Patient 11 Posttreatment#1 Patient 11 Posttreatme…
- GSM8083671 Patient 11 Posttreatment#2 Patient 11 Posttreatme…
- GSM8083672 Patient 12 Pretreatment
- GSM8083673 Patient 12 Posttreatment #1 Patient 12 Posttreatme…
- GSM8083674 Patient 12 Posttreatment #2 Patient 12 Posttreatme…
- GSM8083675 Patient 13 Pretreatment
- GSM8083676 Patient 13 Posttreatment
- GSM8083677 Patient 18 Pretreatment
- GSM8083678 Patient 18 Posttreatment #1 Patient 18 Posttreatme…
- GSM8083679 Patient 18 Posttreatment #2 Patient 18 Posttreatme…
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- GSE113616 Stromal Fibroblasts Drive Single Cell Heterogeneity in Pancreatic Cancer 189 samples same disease briefing · shares pancreatic
- GSE179351 Radiation Therapy Inhances Immunotherapy Response in Microsatellite-stable Colorectal and Pancreatic Adenocarcinoma in a Phase II Trial 54 samples same disease briefing · shares pancreatic
- GSE148188 NOXA dependent induction of apoptosis in pancreatic cancer cells 49 samples same disease briefing · shares pancreatic
- GSE288221 RNA sequencing human melanoma, glioblastoma and pancreatic adenocarcinoma cell lines 32 samples same disease briefing · shares pancreatic
- GSE111672 Integrating microarray-based spatial transcriptomics and single-cell RNA-seq reveals tissue architecture in pancreatic ductal adenocarcinomas 23 samples same disease briefing · shares pancreatic
- GSE150043 Deeper insight into Pancreatic Ductal Adenocarcinoma (PDAC) survival heterogeneity using integrative analyses of individual and global transcriptome based networks 19 samples same disease briefing · shares pancreatic
- GSE224502 RNA-Seq profiles of pancreatic adenocarcinoma PANC-1 and osteosarcoma U2OS cells with Pin1 knocking down 18 samples same disease briefing · shares pancreatic
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.