RNA-seq of colorectal cancer cell line HCT116 and DLD-1 cells treated with PRIMA-1met or oxaliplatin or combination therapy
RNA-seq (gene expression) · human · 24 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
- 24 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
- Molecular Mechanisms of Synergistic Effect of PRIMA-1(met) and Oxaliplatin in Colorectal Cancer With Different p53 StatusCancer medicine · 2025
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 GSE254323_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 PRJNA1069741 and SRA study SRP486148. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 23 samples.
How we read this: 8 replicated groups read from 24 sample titles; they account for 23 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.
- GSM8037721 DLD1Combi_1 DLD1Combi
- GSM8037722 DLD1Combi_2 DLD1Combi
- GSM8037723 DLD1Combi_3 DLD1Combi
- GSM8037724 DLD1DMSO_1 DLD1DMSO
- GSM8037725 DLD1DMSO_2.
- GSM8037726 DLD1DMSO_3 DLD1DMSO
- GSM8037727 DLD1Oxa_1 DLD1Oxa
- GSM8037728 DLD1Oxa_2 DLD1Oxa
- GSM8037729 DLD1Oxa_3 DLD1Oxa
- GSM8037730 DLD1PRImet_1 DLD1PRImet
- GSM8037731 DLD1PRImet_2 DLD1PRImet
- GSM8037732 DLD1PRImet_3 DLD1PRImet
- GSM8037733 HCT116Combi1 HCT116Combi
- GSM8037734 HCT116Combi2 HCT116Combi
- GSM8037735 HCT116Combi3 HCT116Combi
- GSM8037736 HCT116DMSO_1 HCT116DMSO
- GSM8037737 HCT116DMSO_2 HCT116DMSO
- GSM8037738 HCT116DMSO_3 HCT116DMSO
- GSM8037739 HCT116Oxa_1 HCT116Oxa
- GSM8037740 HCT116Oxa_2 HCT116Oxa
- GSM8037741 HCT116Oxa_3 HCT116Oxa
- GSM8037742 HCT116PRI_1 HCT116PRI
- GSM8037743 HCT116PRI_2 HCT116PRI
- GSM8037744 HCT116PRI_3 HCT116PRI
- 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, rna-seq
- 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
- GSE306207 RNA-seq of A375 cells treated with I-BET726 alone and sequential combination of I-BET726 and Oxaliplatin 8 samples shares oxaliplatin, combination, rna-seq, treated
- GSE299428 RNA-seq of oxaliplatin resistant HCT116 and SW480 24 samples shares hct116, oxaliplatin, rna-seq
- GSE304295 Effect of adenoviral E1A on oxaliplatin response in oxaliplatin-sensitive and resistant human colorectal cancer HCT116 cells 24 samples shares hct116, oxaliplatin, colorectal
- GSE335198 RNA-seq and ONT full-length transcriptome profiling of HCT116 and WiDr cells treated with DMSO, GSK025, or GSK715 19 samples shares hct116, rna-seq, treated
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.