ArticleGenome biology2008
NetGrep: fast network schema searches in interactomes.
Article in Genome biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
13 citing papers in PubMed.
- NetMatchStar: an enhanced Cytoscape network querying app.F1000Research · 2015Article
- SPECTRA: An Integrated Knowledge Base for Comparing Tissue and Tumor-Specific PPI Networks in Human.Frontiers in bioengineering and biotechnology · 2015Article
- GASOLINE: a Greedy And Stochastic algorithm for optimal Local multiple alignment of Interaction NEtworks.PloS one · 2014Article
- Computational solutions for omics data.Nature reviews. Genetics · 2013Review
- GRAPES: a software for parallel searching on biological graphs targeting multi-core architectures.PloS one · 2013Article
- Vavien: an algorithm for prioritizing candidate disease genes based on topological similarity of proteins in interaction networks.Journal of computational biology : a journal of computational molecular cell biology · 2011Article
- RINQ: Reference-based Indexing for Network Queries.Bioinformatics (Oxford, England) · 2011Article
- RANKING RELATIONS USING ANALOGIES IN BIOLOGICAL AND INFORMATION NETWORKS.The annals of applied statistics · 2010Article
- Identification of functional hubs and modules by converting interactome networks into hierarchical ordering of proteins.BMC bioinformatics · 2010Article
- Toward the dynamic interactome: it's about time.Briefings in bioinformatics · 2010Review
- TORQUE: topology-free querying of protein interaction networks.Nucleic acids research · 2009Article
- Organization of physical interactomes as uncovered by network schemas.PLoS computational biology · 2008Article
- Algorithmic and analytical methods in network biology.Wiley interdisciplinary reviews. Systems biology and medicineReview
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors.
Funding
Abstract
NetGrep (http://genomics.princeton.edu/singhlab/netgrep/) is a system for searching protein interaction networks for matches to user-supplied 'network schemas'. Each schema consists of descriptions of proteins (for example, their molecular functions or putative domains) along with the desired topology and types of interactions among them. Schemas can thus describe domain-domain interactions, signaling and regulatory pathways, or more complex network patterns. NetGrep provides an advanced graphical interface for specifying schemas and fast algorithms for extracting their matches.
Indexed as
Identifiers
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.