Bulk-RNA seq in PC3shTIMP cell treated with Vehicle, Docetaxel , Adapelene or their combination (Combo)
RNA-seq (gene expression) · human · 13 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)
- Samples
- 13 samples: 4 × PC3shTIMP1_Doce vs 3 × PC3shTIMP1_Veh vs 3 × PC3shTIMP1_Adapalene vs 3 × PC3shTIMP1_ComboGroups 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
- Retinoic acid receptor activation reprograms senescence response and enhances anti-tumor activity of natural killer cellsCancer cell · 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 GSE253331_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 PRJNA1065313 and SRA study SRP483972. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 13 samples.
How we read this: 4 replicated groups read from 13 sample titles; they account for 13 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.
- GSM8018837 PC3shTIMP1_Veh3 PC3shTIMP1_Veh
- GSM8018838 PC3shTIMP1_Adapalene1 PC3shTIMP1_Adapalene
- GSM8018839 PC3shTIMP1_Adapalene2 PC3shTIMP1_Adapalene
- GSM8018840 PC3shTIMP1_Adapalene3 PC3shTIMP1_Adapalene
- GSM8018841 PC3shTIMP1_Combo1 PC3shTIMP1_Combo
- GSM8018842 PC3shTIMP1_Combo2 PC3shTIMP1_Combo
- GSM8018843 PC3shTIMP1_Combo3 PC3shTIMP1_Combo
- GSM8018844 PC3shTIMP1_Doce1 PC3shTIMP1_Doce
- GSM8018845 PC3shTIMP1_Doce2 PC3shTIMP1_Doce
- GSM8018846 PC3shTIMP1_Doce3 PC3shTIMP1_Doce
- GSM8018847 PC3shTIMP1_Doce4 PC3shTIMP1_Doce
- GSM8018848 PC3shTIMP1_Veh1 PC3shTIMP1_Veh
- GSM8018849 PC3shTIMP1_Veh2 PC3shTIMP1_Veh
- GSE248014 RNA sequensing data of a phase 2 clinical trial of pancreatic ductal adenocarcinoma treated with entinostat in combination with nivolumab 45 samples shares combination, treated
- GSE303975 Transcriptomic profiling of LNCaP cells treated with enzalutamide, olaparib, or combination across multiple time points 36 samples shares combination, treated
- GSE251710 MDA-MB-468 cells treated with docetaxel or EZH2i+AKTi 36 samples shares docetaxel, 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 combination, treated
- GSE251708 MDA-MB-468 cells treated with docetaxel or EZH2i+AKTi II 24 samples shares docetaxel, treated
- GSE272626 ALS molecular subtypes are a combination of cellular and pathological features learned by deep multiomics classifiers (postmortem spinal cord) 266 samples shares combination
- GSE308462 ALS molecular subtypes are a combination of cellular, genetic, and pathological features learned by deep multiomics classifiers (post-mortem cortex) 260 samples shares combination
- GSE234519 NSABP B-41: A Study of AC Followed by a Combination of Paclitaxel Plus Trastuzumab or Lapatinib or Both Given Before Surgery to Patients With Operable HER2 Positive Invasive Breast Cancer 245 samples shares combination
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.