ArticleNucleic acids research2012
Predictive networks: a flexible, open source, web application for integration and analysis of human gene networks.
Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 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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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
18 citing papers in PubMed.
- Biologically anchored knowledge expansion approach uncovers KLF4 as a novel insulin signaling regulator.PloS one · 2018Article
- Controllability in an islet specific regulatory network identifies the transcriptional factor NFATC4, which regulates Type 2 Diabetes associated genes.NPJ systems biology and applications · 2018Article
- Module Anchored Network Inference: A Sequential Module-Based Approach to Novel Gene Network Construction from Genomic Expression Data on Human Disease Mechanism.International journal of genomics · 2017Article
- PathwaysWeb: a gene pathways API with directional interactions, expanded gene ontology, and versioning.Bioinformatics (Oxford, England) · 2016Article
- Data- and knowledge-based modeling of gene regulatory networks: an update.EXCLI journal · 2015Review
- RulNet: A Web-Oriented Platform for Regulatory Network Inference, Application to Wheat -Omics Data.PloS one · 2015Article
- Systems Medicine: from molecular features and models to the clinic in COPD.Journal of translational medicine · 2014Article
- Identifying pathogenic processes by integrating microarray data with prior knowledge.BMC bioinformatics · 2014Article
- Inference of the Xenopus tropicalis embryonic regulatory network and spatial gene expression patterns.BMC systems biology · 2014Article
- Gene regulatory networks and their applications: understanding biological and medical problems in terms of networks.Frontiers in cell and developmental biology · 2014Review
- Relevance of different prior knowledge sources for inferring gene interaction networks.Frontiers in genetics · 2014Article
- Semantic integration of gene expression analysis tools and data sources using software connectors.BMC genomics · 2013Article
- Candidate gene association studies: a comprehensive guide to useful in silico tools.BMC genetics · 2013Review
- Gene expression analysis uncovers novel hedgehog interacting protein (HHIP) effects in human bronchial epithelial cells.Genomics · 2013Article
- Estimation of Gene Regulatory Networks.Postdoc journal : a journal of postdoctoral research and postdoctoral affairs · 2013Article
- LegumeGRN: a gene regulatory network prediction server for functional and comparative studies.PloS one · 2013Article
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Corrections and comments
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Authors and funding
7 authors.
Funding
Abstract
Genomics provided us with an unprecedented quantity of data on the genes that are activated or repressed in a wide range of phenotypes. We have increasingly come to recognize that defining the networks and pathways underlying these phenotypes requires both the integration of multiple data types and the development of advanced computational methods to infer relationships between the genes and to estimate the predictive power of the networks through which they interact. To address these issues we have developed Predictive Networks (PN), a flexible, open-source, web-based application and data services framework that enables the integration, navigation, visualization and analysis of gene interaction networks. The primary goal of PN is to allow biomedical researchers to evaluate experimentally derived gene lists in the context of large-scale gene interaction networks. The PN analytical pipeline involves two key steps. The first is the collection of a comprehensive set of known gene interactions derived from a variety of publicly available sources. The second is to use these 'known' interactions together with gene expression data to infer robust gene networks. The PN web application is accessible from http://predictivenetworks.org. The PN code base is freely available at https://sourceforge.net/projects/predictivenets/.
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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.