Long-term multi-modal recording reveals epigenetic adaptation routes in dormant breast cancer cells
RNA-seq (gene expression) · human · 491 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
- 491 samples: 131 conditions, mostly in duplicateGroups 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
- Long-term Multimodal Recording Reveals Epigenetic Adaptation Routes in Dormant Breast Cancer CellsCancer discovery · 2024
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 GSE234185_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 PRJNA980241 and SRA study SRP441248. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 350 samples.
How we read this: 131 replicated groups read from the first 400 of 491 sample titles; they account for 350 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.
- GSM7451128 POT.1 POT
- GSM7451129 POT.2 POT
- GSM7451130 POT.3 POT
- GSM7451131 T7.1 T7
- GSM7451132 T7.2 T7
- GSM7451134 AI7.1 AI7
- GSM7451135 AI7.2 AI7
- GSM7451136 T14.1 T14
- GSM7451137 T14.2 T14
- GSM7451138 AI14.1 AI14
- GSM7451139 AI14.2 AI14
- GSM7451141 UT30.1 UT30
- GSM7451142 UT30.2 UT30
- GSM7451143 T30.1 T30
- GSM7451144 T30.2 T30
- GSM7451145 AI30.1 AI30
- GSM7451147 AI30.2 AI30
- GSM7451148 T60.1 T60
- GSM7451149 T60.2 T60
- GSM7451151 AI60.1 AI60
- GSM7451152 AI60.2 AI60
- GSM7451153 T.theta
- GSM7451154 T.eta
- GSM7451156 AI90.1 AI90
- GSM7451157 AI90.2 AI90
- GSM7451158 UT120.1 UT120
- GSM7451159 UT120.2 UT120
- GSM7451160 T.epsilon
- GSM7451162 T.zeta
- GSM7451163 AI.delta
- GSM7451164 T.gamma
- GSM7451165 T.delta
- GSM7451166 T.alpha
- GSM7451167 T.beta
- GSM7451168 AI.alpha
- GSM7451170 AI.gamma
- GSM7451171 AI.beta
- GSM7451172 AI.epsilon
- GSM7451173 U170.1 U170
- GSM7451174 U170.2 U170
+ 451 more — browse all 491 samples with per-sample file links →
- 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
- 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
- GSE10885 An integromic analysis reveals that metaplastic carcinomas are distinct from basal-like tumors. 244 samples same disease briefing
- GSE234181 Long-term multi-modal recording reveals epigenetic adaptation routes in dormant breast cancer cells [scRNA-Seq] 184 samples shares multi-modal, epigenetic, adaptation, long-term, recording, dormant, routes, breast
- GSE243526 Defining the Regulatory Logic of Breast Cancer Using Single-Cell Epigenetic and Transcriptome Profiling 40 samples shares epigenetic, breast
- GSE312393 Transcriptomic adaptations of human muscle after short- and long-term exercise 13 samples shares adaptation, long-term
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.