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Predictome specifications

Information


Unique identifier OMICS_22835
Name Predictome
Restrictions to use None
Database management system PostgreSQL
Community driven No
Data access Browse
User data submission Not allowed
Maintained No

Maintainer


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Publication for Predictome

Predictome citations

 (4)
library_books

Functional association networks as priors for gene regulatory network inference

2014
Bioinformatics
PMCID: 4058914
PMID: 24931976
DOI: 10.1093/bioinformatics/btu285

[…] te an undirected, confidence-weighted likelihood matrix that can be easily incorporated as a prior into a GRN inference method. used first-generation functional association databases Prolinks () and Predictome () as part of a gene biclustering algorithm but not explicitly in the network inference. To our knowledge no one has extensively studied the potential of undirected, unsigned, confidence-we […]

library_books

Construction and analysis of protein–protein interaction networks

2010
PMCID: 2834675
PMID: 20334628
DOI: 10.1186/1759-4499-2-2

[…] The Predictome [] database houses links between the proteins of 44 genomes based on the implementation of gene context functional linkage methods, viz. chromosomal proximity, phylogenetic profiling and do […]

library_books

Predicting protein linkages in bacteria: Which method is best depends on task

2008
BMC Bioinformatics
PMCID: 2570368
PMID: 18816389
DOI: 10.1186/1471-2105-9-397

[…] Currently, several databases that compile functional linkages from genomic context predictions are available, including Prolinks [], STRING [], PLEX [], Predictome []and more recently InPrePPI []. We used the Prolinks v2.0 database as a source of predictions because it implements all of the four functional prediction methods and is publicly available. […]

library_books

Cross species cluster co conservation: a new method for generating protein interaction networks

2007
Genome Biol
PMCID: 2375023
PMID: 17803817
DOI: 10.1186/gb-2007-8-9-r185

[…] it conflates co-conservation with orthology information from the COG database []; we used COG functional category and TIGR functional role category data to evaluate purely co-conservation inferences. Predictome [] was not used because it does not provide statistical measures to evaluate the accuracy of each prediction. For each pair assignment (CC), we required a confidence scheme using phylogenet […]

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Predictome institution(s)
Bioinformatics Graduate Program and Department of Biomedical Engineering, Boston University, Boston, MA, USA
Predictome funding source(s)
Supported by a National Science Foundation Integrative Graduate Education and Research Traineeship Program grant and by a Whitaker Fellowship.

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