ArticleProceedings of the National Academy of Sciences of the United States of America2014
Identifying regulatory mechanisms underlying tumorigenesis using locus expression signature analysis.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 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.
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Who cites it
6 citing papers in PubMed, 7 citations in OpenAlex.
- A probabilistic multi-omics data matching method for detecting sample errors in integrative analysis.GigaScience · 2019Article
- Treatment-associatedOncotarget · 2018Article
- Network-based approaches that exploit inferred transcription factor activity to analyze the impact of genetic variation on gene expression.Current opinion in systems biology · 2017Article
- Reconstruction of gene regulatory networks reveals chromatin remodelers and key transcription factors in tumorigenesis.Genome medicine · 2016Article
- Prediction of disease-gene-drug relationships following a differential network analysis.Cell death & disease · 2016Article
- 3D hotspots of recurrent retroviral insertions reveal long-range interactions with cancer genes.Nature communications · 2015Article
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
Abstract
Retroviral insertional mutagenesis is a powerful tool for identifying putative cancer genes in mice. To uncover the regulatory mechanisms by which common insertion loci affect downstream processes, we supplemented genotyping data with genome-wide mRNA expression profiling data for 97 tumors induced by retroviral insertional mutagenesis. We developed locus expression signature analysis, an algorithm to construct and interpret the differential gene expression signature associated with each common insertion locus. Comparing locus expression signatures to promoter affinity profiles allowed us to build a detailed map of transcription factors whose protein-level regulatory activity is modulated by a particular locus. We also predicted a large set of drugs that might mitigate the effect of the insertion on tumorigenesis. Taken together, our results demonstrate the potential of a locus-specific signature approach for identifying mammalian regulatory mechanisms in a cancer context.
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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.