ArticleBMC bioinformatics2008
Integrative bioinformatics analysis of transcriptional regulatory programs in breast cancer cells.
Article in BMC bioinformatics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 42 citations in OpenAlex.
- Article
- Mechanistic Insights and Clinical Implications of ELK1 in Solid Tumors: A Narrative Review.Cells · 2025Review
- ELK1-induced up-regulation of KIF26B promotes cell cycle progression in breast cancer.Medical oncology (Northwood, London, England) · 2021Article
- YBX1 Enhances Metastasis and Stemness by Transcriptionally Regulating MUC1 in Lung Adenocarcinoma.Frontiers in oncology · 2021Article
- Epigenetic role of the nuclear factor NF-Y on ID gene family in endometrial tissues of women with endometriosis: a case control study.Reproductive biology and endocrinology : RB&E · 2019Article
- Nuclear Respiratory Factor 1 Acting as an Oncoprotein Drives Estrogen-Induced Breast Carcinogenesis.Cells · 2018Article
- Article
- Role of Y Box Protein-1 in cancer: As potential biomarker and novel therapeutic target.Journal of Cancer · 2017Review
- Targeting the RB-E2F pathway in breast cancer.Oncogene · 2016Review
- Redox signalling to nuclear regulatory proteins by reactive oxygen species contributes to oestrogen-induced growth of breast cancer cells.British journal of cancer · 2015Article
- Targeting the Y/CCAAT box in cancer: YB-1 (YBX1) or NF-Y?Cell death and differentiation · 2013Review
- In silico discovery of mitosis regulation networks associated with early distant metastases in estrogen receptor positive breast cancers.Cancer informatics · 2013Article
- The differential disease regulome.BMC genomics · 2011Article
- Motif-guided sparse decomposition of gene expression data for regulatory module identification.BMC bioinformatics · 2011Article
- Comparative analysis of cis-regulation following stroke and seizures in subspaces of conserved eigensystems.BMC systems biology · 2010Article
- Co-expression module analysis reveals biological processes, genomic gain, and regulatory mechanisms associated with breast cancer progression.BMC systems biology · 2010Article
- Estrogen receptor alpha controls a gene network in luminal-like breast cancer cells comprising multiple transcription factors and microRNAs.The American journal of pathology · 2010Article
- Influence of fatty acid diets on gene expression in rat mammary epithelial cells.Physiological genomics · 2009Article
- Systematic identification of transcription factors associated with patient survival in cancers.BMC genomics · 2009Article
- Gene set-based module discovery in the breast cancer transcriptome.BMC bioinformatics · 2009Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundMicroarray technology has unveiled transcriptomic differences among tumors of various phenotypes, and, especially, brought great progress in molecular understanding of phenotypic diversity of breast tumors. However, compared with the massive knowledge about the transcriptome, we have surprisingly little knowledge about regulatory mechanisms underling transcriptomic diversity.
resultsTo gain insights into the transcriptional programs that drive tumor progression, we integrated regulatory sequence data and expression profiles of breast cancer into a Bayesian Network, and searched for cis-regulatory motifs statistically associated with given histological grades and prognosis. Our analysis found that motifs bound by ELK1, E2F, NRF1 and NFY are potential regulatory motifs that positively correlate with malignant progression of breast cancer.
conclusionThe results suggest that these 4 motifs are principal regulatory motifs driving malignant progression of breast cancer. Our method offers a more concise description about transcriptome diversity among breast tumors with different clinical phenotypes.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.