ArticleNature communications2018
Genome-scale identification of transcription factors that mediate an inflammatory network during breast cellular transformation.
Article in Nature communications, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
19 citing papers in PubMed, 28 citations in OpenAlex.
- An Extracellular Matrix-Producing Subset of Cancer-Associated Fibroblasts Drives Chemoresistance in Breast Cancer via SRC Activation and G0S2 Upregulation.Cancer research · 2026Article
- TGFβ signaling promotes cell cycle progression and resistance to the CDK4/6 inhibitor palbociclib through SOX4 transcriptional modulation in breast cancer cells.Cell death & disease · 2026Article
- Role of the Receptor for Advanced Glycation End Products (RAGE) and Its Ligands in Inflammatory Responses.Biomolecules · 2024Review
- Comparative analyses of gene networks mediating cancer metastatic potentials across lineage types.Briefings in bioinformatics · 2024Article
- Colocalization of corneal resistance factor GWAS loci with GTEx e/sQTLs highlights plausible candidate causal genes for keratoconus postnatal corneal stroma weakening.Frontiers in genetics · 2023Article
- Epigenetic reorganization during early embryonic lineage specification.Genes & genomics · 2022Review
- Exploring the effects of genetic variation on gene regulation in cancer in the context of 3D genome structure.BMC genomic data · 2022Article
- MafB, WDR77, and ß-catenin interact with each other and have similar genome association profiles.PloS one · 2022Article
- Article
- KRAS drives immune evasion in a genetic model of pancreatic cancer.Nature communications · 2021Article
- Identification of Ten Core Hub Genes as Potential Biomarkers and Treatment Target for Hepatoblastoma.Frontiers in oncology · 2021Article
- S100A8/S100A9 cytokine acts as a transcriptional coactivator during breast cellular transformation.Science advances · 2021Article
- Systems biology approaches integrated with artificial intelligence for optimized metabolic engineering.Metabolic engineering communications · 2020Review
- Pheno-RNA, a method to associate genes with a specific phenotype, identifies genes linked to cellular transformation.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Upregulated proteoglycan-related signaling pathways in fluid flow shear stress-treated podocytes.American journal of physiology. Renal physiology · 2020Article
- MAGGIE: leveraging genetic variation to identify DNA sequence motifs mediating transcription factor binding and function.Bioinformatics (Oxford, England) · 2020Article
- Systems Genetics for Mechanistic Discovery in Heart Diseases.Circulation research · 2020Review
- Disruption of TFIIH activities generates a stress gene expression response and reveals possible new targets against cancer.Open biology · 2020Article
- Inflammatory regulatory network mediated by the joint action of NF-kB, STAT3, and AP-1 factors is involved in many human cancers.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
Abstract
Transient activation of Src oncoprotein in non-transformed, breast epithelial cells can initiate an epigenetic switch to the stably transformed state via a positive feedback loop that involves the inflammatory transcription factors STAT3 and NF-κB. Here, we develop an experimental and computational pipeline that includes 1) a Bayesian network model (AccessTF) that accurately predicts protein-bound DNA sequence motifs based on chromatin accessibility, and 2) a scoring system (TFScore) that rank-orders transcription factors as candidates for being important for a biological process. Genetic experiments validate TFScore and suggest that more than 40 transcription factors contribute to the oncogenic state in this model. Interestingly, individual depletion of several of these factors results in similar transcriptional profiles, indicating that a complex and interconnected transcriptional network promotes a stable oncogenic state. The combined experimental and computational pipeline represents a general approach to comprehensively identify transcriptional regulators important for a biological process.
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What OpenQuestion holds
Registered trials
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.