Differential unfolded protein response regulation in KRAS silencing sensitive versus innately resistant colorectal cancer cells [SW480 and SW837]
RNA-seq (gene expression) · human · 12 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
- Colorectal cancerThis series is part of our curated briefing on it.
- Samples
- 12 samples: 3 × SW480 cells, siControl, vs 3 × SW480 cells, siKRAS, vs 3 × SW837 cells, siControl, vs 3 × SW837 cells, siKRAS,Groups 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
- Differential unfolded protein response regulation in KRAS silencing sensitive and innately resistant colorectal cancer cellsScientific reports · 2025
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 GSE283752_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 PRJNA1195348 and SRA study SRP549987. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8671613 SW480 cells, siControl, replicate1 SW480 cells, siControl,
- GSM8671614 SW480 cells, siControl, replicate2 SW480 cells, siControl,
- GSM8671615 SW480 cells, siControl, replicate3 SW480 cells, siControl,
- GSM8671616 SW480 cells, siKRAS, replicate1 SW480 cells, siKRAS,
- GSM8671617 SW480 cells, siKRAS, replicate2 SW480 cells, siKRAS,
- GSM8671618 SW480 cells, siKRAS, replicate3 SW480 cells, siKRAS,
- GSM8671619 SW837 cells, siControl, replicate1 SW837 cells, siControl,
- GSM8671620 SW837 cells, siControl, replicate2 SW837 cells, siControl,
- GSM8671621 SW837 cells, siControl, replicate3 SW837 cells, siControl,
- GSM8671622 SW837 cells, siKRAS, replicate1 SW837 cells, siKRAS,
- GSM8671623 SW837 cells, siKRAS, replicate2 SW837 cells, siKRAS,
- GSM8671624 SW837 cells, siKRAS, replicate3 SW837 cells, siKRAS,
- GSE250000 Bulk RNA-sequencing of transduced colorectal cancer cell line HCT-116 and breast cancer cell line MCF-7 overexpressing full-lenght p53β or p53β-stop-lost. 4 samples same disease briefing · shares colorectal
- GSE12032 Inherent gene signature of stage II and III colorectal cancer leads in individual recurrence 198 samples same disease briefing · shares colorectal
- GSE109308 Single-cell transcriptomic survey of adenomatous polyposis patients with germline APC mutations 97 samples same disease briefing
- GSE110009 Single cell transcriptome landscape of primary and metastatic tumor in colon cancer 76 samples same disease briefing
- GSE299428 RNA-seq of oxaliplatin resistant HCT116 and SW480 24 samples shares sw480, resistant
- GSE265906 Epigenetic and oncogenic inhibitors cooperatively drive differentiation and kill KRAS-mutant colorectal cancers [LOVO_BCat] 24 samples shares kras, colorectal
- GSE273769 The PLK1 Inhibitor Onvansertib in Combination with FOLFIRI and Bevacizumab in Second-line Treatment of KRAS-mutant Metastatic Colorectal Cancer: A Single-Arm, Phase II Trial. 24 samples shares kras, colorectal
- GSE306560 Differential m6A methylation between parental and temozolomide resistant U87 MG cells 16 samples shares differential, resistant
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.