Differential gene expression in breast cancer cell lines treated with a Baicalein at 100 uM concentration
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
- Breast cancerThis series is part of our curated briefing on it.
- Samples
- 12 samples: 3 × T47D.Control vs 3 × T47D.Baicalein vs 3 × MCF7.Control vs 3 × MCF7.BaicaleinGroups 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.
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 GSE232322_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 PRJNA971609 and SRA study SRP437248. 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.
- GSM7328321 T47D.Control.1 T47D.Control
- GSM7328322 T47D.Control.2 T47D.Control
- GSM7328323 T47D.Control.3 T47D.Control
- GSM7328324 T47D.Baicalein.1 T47D.Baicalein
- GSM7328325 T47D.Baicalein.2 T47D.Baicalein
- GSM7328326 T47D.Baicalein.3 T47D.Baicalein
- GSM7328327 MCF7.Control.1 MCF7.Control
- GSM7328328 MCF7.Control.2 MCF7.Control
- GSM7328329 MCF7.Control.3 MCF7.Control
- GSM7328330 MCF7.Baicalein.1 MCF7.Baicalein
- GSM7328331 MCF7.Baicalein.2 MCF7.Baicalein
- GSM7328332 MCF7.Baicalein.3 MCF7.Baicalein
- GSE104193 Hypoxia-mediated translational activation of ITGB3 in breast cancer cells enhances TGF-β signalling and malignant features in vitro and in vivo 32 samples same disease briefing · shares breast
- GSE104675 Role for the Transcriptional Activator ZRF1 in Breast Cancer Progression and Endocrine Resistance 6 samples same disease briefing · shares breast
- GSE10886 A Supervised Risk Predictor of Breast Cancer Based on Biological Subtypes 226 samples same disease briefing · shares breast
- GSE11121 The humoral immune system has a key prognostic impact in node-negative breast cancer 200 samples same disease briefing · shares breast
- GSE10885 An integromic analysis reveals that metaplastic carcinomas are distinct from basal-like tumors. 244 samples same disease briefing
- GSE281511 RNA seq of liver cancer cells treated with different concentration gradients of Thapsigargin (TG), Tunicamycin (TM), and FCCP 44 samples shares concentration, treated
- GSE317345 Genomic accesssment of patients with HR+/HER2- metastatic breast cancer treated with palbociclib (PROMISE study) 39 samples shares treated, breast
- GSE283388 Gene Expression Profiling in Diffuse Large B-Cell Lymphoma (DLBCL) Cell Lines Treated with Selinexor 12 samples shares treated, lines
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.