DAB2IP Loss in Luminal A Breast Cancer Leads to NF-kB- Associated Aggressive Oncogenic Phenotypes
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 22 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Homo sapiens (human)
- Topic
- Breast cancerThis series is part of our curated briefing on it.
- Samples
- 22 samples: 10 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
- DAB2IP loss in luminal a breast cancer leads to NF-κB-associated aggressive oncogenic phenotypesJCI insight · 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 GSE227877_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA947218 and SRA study SRP428481. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 22 samples.
How we read this: 10 replicated groups read from 22 sample titles; they account for 22 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.
- GSM7110052 DAB2IP KD_Input_Rep1 DAB2IP KD_Input
- GSM7110053 DAB2IP KD_P65_Rep1 DAB2IP KD_P65
- GSM7110054 DAB2IP KD_RelB_Rep1 DAB2IP KD_RelB
- GSM7110055 DAB2IP KD_NFkB2_Rep1 DAB2IP KD_NFkB2
- GSM7110056 DAB2IP KD_Input_Rep2 DAB2IP KD_Input
- GSM7110057 DAB2IP KD_P65_Rep2 DAB2IP KD_P65
- GSM7110058 DAB2IP KD_RelB_Rep2 DAB2IP KD_RelB
- GSM7110059 DAB2IP KD_NFkB2_Rep2 DAB2IP KD_NFkB2
- GSM7110060 Control_Input_Rep1 Control_Input
- GSM7110061 Control_P65_Rep1 Control_P65
- GSM7110062 Control_RelB_Rep1 Control_RelB
- GSM7110063 Control_NFkB2_Rep1 Control_NFkB2
- GSM7110064 Control_Input_Rep2 Control_Input
- GSM7110065 Control_P65_Rep2 Control_P65
- GSM7110066 Control_RelB_Rep2 Control_RelB
- GSM7110067 Control_NFkB2_Rep2 Control_NFkB2
- GSM7110068 MCF10A cells, siControl_Rep1 MCF10A cells, siControl
- GSM7110069 MCF10A cells, siDAB2IP_Rep1 MCF10A cells, siDAB2IP
- GSM7110070 MCF10A cells, siControl_Rep2 MCF10A cells, siControl
- GSM7110071 MCF10A cells, siDAB2IP_Rep2 MCF10A cells, siDAB2IP
- GSM7110072 MCF10A cells, siControl_Rep3 MCF10A cells, siControl
- GSM7110073 MCF10A cells, siDAB2IP_Rep3 MCF10A cells, siDAB2IP
- 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
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- GSE310672 Progesterone receptors drive advanced breast cancer phenotypes including circulating tumor- and stem-like cell expansion in the context of ESR1 mutation [RNA-seq] 48 samples shares phenotypes, breast
- GSE283103 A Histone-Centric Multi-Omics Study Shows that Increased H3K4 Methylation Sustains Triple Negative Breast Cancer Phenotypes 14 samples shares phenotypes, breast
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.