Whole transcriptome sequencing of HCT116 cells with altered DNA repair capacities treated with RTX or 5FdUR
Non-coding RNA profiling · human · 36 samples
- What it is
- Non-coding RNA profilingLevels of RNAs that do not code for proteins, such as miRNA or lncRNA.
- Organism
- Homo sapiens (human)
- Samples
- 36 samples: 36 samples, each with a distinct title — no replicated groupsGroups 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
- Thymidylate synthase inhibitory drugs induce p53-dependent pathways differentlyPloS one · 2026
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 GSE318306_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.
Also filed as BioProject PRJNA1418580 and SRA study SRP674429. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 36 sample titles: 36 distinct titles with little repetition. 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.
- GSM9492041 HCT116_UGI, non-treated, replicate 1, longRNA
- GSM9492042 HCT116_UGI, non-treated, replicate 2, long RNA
- GSM9492043 HCT116_UGI, treated with 100 nM RTX, replicate 1, long RNA
- GSM9492044 HCT116_UGI, treated with 100 nM RTX, replicate 2, long RNA
- GSM9492045 HCT116_UGI, treated with 20 µM 5FdUR, replicate 1, long RNA
- GSM9492046 HCT116_UGI, treated with 20 µM 5FdUR, replicate 2, long RNA
- GSM9492047 HCT116_UGI, non-treated, replicate 1, short RNA
- GSM9492048 HCT116_UGI, non-treated, replicate 2, short RNA
- GSM9492049 HCT116_UGI, treated with 100 nM RTX, replicate 1, short RNA
- GSM9492050 HCT116_UGI, treated with 100 nM RTX, replicate 2, short RNA
- GSM9492051 HCT116_UGI, treated with 20 µM 5FdUR, replicate 1, short RNA
- GSM9492052 HCT116_UGI, treated with 20 µM 5FdUR, replicate 2,short RNA
- GSM9492053 HCT116_MMR_UGI, non-treated, replicate 1, longRNA
- GSM9492054 HCT116_MMR_UGI, non-treated, replicate 2, long RNA
- GSM9492055 HCT116_MMR_UGI, treated with 100 nM RTX, replicate 1, long RNA
- GSM9492056 HCT116_MMR_UGI, treated with 100 nM RTX, replicate 2, long RNA
- GSM9492057 HCT116_MMR_UGI, treated with 20 µM 5FdUR, replicate 1, long RNA
- GSM9492058 HCT116_MMR_UGI, treated with 20 µM 5FdUR, replicate 2, long RNA
- GSM9492059 HCT116_MMR_UGI, non-treated, replicate 1, short RNA
- GSM9492060 HCT116_MMR_UGI, non-treated, replicate 2, short RNA
- GSM9492061 HCT116_MMR_UGI, treated with 100 nM RTX, replicate 1, short RNA
- GSM9492062 HCT116_MMR_UGI, treated with 100 nM RTX, replicate 2, short RNA
- GSM9492063 HCT116_MMR_UGI, treated with 20 µM 5FdUR, replicate 1, short RNA
- GSM9492064 HCT116_MMR_UGI, treated with 20 µM 5FdUR, replicate 2,short RNA
- GSM9492065 HCT116, non-treated, replicate 1, longRNA
- GSM9492066 HCT116, non-treated, replicate 2, long RNA
- GSM9492067 HCT116, treated with 100 nM RTX, replicate 1, long RNA
- GSM9492068 HCT116, treated with 100 nM RTX, replicate 2, long RNA
- GSM9492069 HCT116, treated with 20 µM 5FdUR, replicate 1, long RNA
- GSM9492070 HCT116, treated with 20 µM 5FdUR, replicate 2, long RNA
- GSM9492071 HCT116, non-treated, replicate 1, short RNA
- GSM9492072 HCT116, non-treated, replicate 2, short RNA
- GSM9492073 HCT116, treated with 100 nM RTX, replicate 1, short RNA
- GSM9492074 HCT116, treated with 100 nM RTX, replicate 2, short RNA
- GSM9492075 HCT116, treated with 20 µM 5FdUR, replicate 1, short RNA
- GSM9492076 HCT116, treated with 20 µM 5FdUR, replicate 2,short RNA
- GSE249009 RNA sequencing analysis of isoginkgetin and thapsigargin treated HCT116 and HCT116 ATF4 deficient cells 48 samples shares hct116, treated
- GSE254323 RNA-seq of colorectal cancer cell line HCT116 and DLD-1 cells treated with PRIMA-1met or oxaliplatin or combination therapy 24 samples shares hct116, treated
- GSE335198 RNA-seq and ONT full-length transcriptome profiling of HCT116 and WiDr cells treated with DMSO, GSK025, or GSK715 19 samples shares hct116, treated
- GSE306466 RNA-seq of dTAG-NUDT21 HCT116 cells treated with DMSO+JTE-607 or dTAGV1+JTE-607. 8 samples shares hct116, treated
- GSE262938 ChIP-seq of BRD4 of HCT116 cells treated with MZ1 or PDD00017273 6 samples shares hct116, treated
- GSE324253 RNA-seq in HCT116 cells treated with coptisine 6 samples shares hct116, treated
- GSE324343 Analysis of ER stress-induced three-dimensional enhancer network in wild-type and transcription facotr-knockout HCT116 cells [ChIP-Seq] 94 samples shares hct116
- GSE324345 Analysis of ER stress-induced three-dimensional enhancer network in wild-type and transcription facotr-knockout HCT116 cells [RNA-Seq] 66 samples shares hct116
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.