TargetMine is an integrated data warehouse system for target discovery which is based on the InterMine framework with a few customized features.
Web site: https://targetmine.mizuguchilab.org/
TargetMine source code in this repository is a "Pre-InterMine 2.0" version.
For the newer version, please refer to https://github.com/chenyian-nibio/targetmine-gradle.
Please notice that the future developement of TargetMine will be found in the new depository only.
A powerful open source data warehouse system.
Copyright (C) 2002-2019 FlyMine
For other information, please refer to https://github.com/intermine/intermine.
Copyright (C) 2011-2019 by The Mizuguchi Laboratory.
TargetMine requires the InterMine library. A modified version of InterMine is included in this distribution.
The following files were modified.
- bio/webapp/resources/webapp/WEB-INF/classDescriptions.properties
- bio/postprocess/main/src/org/intermine/bio/postprocess/PostProcessOperationsTask.java
- bio/webapp/src/org/intermine/bio/web/logic/OrthologueConverter.java
- intermine/web/main/src/org/intermine/web/struts/BuildBagAction.java
- intermine/web/main/src/org/intermine/web/struts/BuildBagForm.java
The following files were added.
- bio/postprocess/main/src/org/intermine/bio/postprocess/AssociateGeneAndIPC.java
- bio/postprocess/main/src/org/intermine/bio/postprocess/CalculateBioThemeBackground.java
- bio/postprocess/main/src/org/intermine/bio/postprocess/CoExpressionInteraction.java
- bio/postprocess/main/src/org/intermine/bio/postprocess/HierarchicalClustering.java
- bio/postprocess/main/src/org/intermine/bio/postprocess/IntegratedPathwayClustering.java
- bio/postprocess/main/src/org/intermine/bio/postprocess/NetworkAnalysisTool.java
- bio/postprocess/main/src/org/intermine/bio/postprocess/RemoveCompoundCasRegistryNumber.java
- bio/postprocess/main/src/org/intermine/bio/postprocess/TranscribeDrugBankTargets.java
- bio/postprocess/main/src/org/intermine/bio/postprocess/TranscribeNcbiGeneId.java
- bio/webapp/src/org/intermine/bio/web/logic/ProteinOrthologConverter.java
TargetMine is licensed under the MIT License.
See LICENSE for licensing information.
InterMine is an open source project distributed under the GNU Lesser General Public Licence.
See LICENSE.intermine and LICENSE.intermine.LIBS for licensing information.
This product includes software developed by the Apache Software Foundation.
An integrative data analysis platform for gene set analysis and knowledge discovery in a data warehouse framework.
Chen Y-A, Tripathi LP, Mizuguchi K.
Database (Oxford). 2016 Mar 17;2016. pii: baw009
TargetMine, an Integrated Data Warehouse for Candidate Gene Prioritisation and Target Discovery.
Chen Y-A, Tripathi LP, Mizuguchi K.
PLoS ONE. 2011 Mar 8;6(3): e17844
