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S3DB - Simple Sloppy Semantic Database - is a PHP / mySQL,postgreSQL implementation of a local database infrastructure with a semantic architecture. The philosophy of its development is data driven.
Trauma registry suite; Data collection application and server scripts to build trauma data warehouse and perform web-based analysis reporting. Cross-platform compatible for Windows, Apple, Unix, or Linux.
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The Genomic Diversity and Phenotype Data Model (GDPDM) captures molecular and phenotypic diversity data. MySQL databases are used to implement the schema. This project develops software tools (written in Java, Perl, etc.) associated with this model.
The GenDB system for the annotation of prokaryote genomes. The Perl/MySQL/Apache based system supports cmd-line mode annotation, integrating dozens of bioinformatics tools, but also provides a user-friendly web interface for community annotation efforts
PSIMAP is the Protein Structural Interactome MAP, a map of all the domain level protein-protein interactions in the Protein Data Bank (PDB). PSIsoft is an archive of the software used to generate and analyse PSIMAP.
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The Comparative Toxicogenomics Database (under development) will be a publicly-available, web-based database of genes and proteins of human toxicological significance. It is being developed using an Oracle 9i database, Tomcat, and Python.
Talisman is an interpreter for a logical markup language. This language contains the content and logic of a web (or, in the future, Java Swing) based user interface, including arbitrary datatypes and processing actions.
The project aims to extend the PHP scripting language to enable PHP developers to write bioinformatics applications more rapidly than if they had to start from scratch using \"vanilla php\".
Biological research groups need to store and analyze large amounts of diverse data. LISA (LabInfoSystem:) stores this information in an easily accessible customizable web-based database. LISA requires PHP4 and MySQL. Keywords: Structural Biology, Genomics
PARPs database is a web-based tool whose features include experiment annotation, protein database searching, protein sequence management.Statistical validation, , visualization, and converters from raw MS data open mzXML mzData format
LaboLIM is a laboratory information system aimed at microbiology laboratories. It is licensed under the GPL V3.0. It is written in PHP and currently uses SQLite 2.1, but could be converted to MySQL.
It was partially developed with a working micro lab.
Looking for some people to chip in and make it a nice project.
PartiGene is a pipeline tool for the analysis of expressed sequence tag datasets. It integrates sequence base calling, sequence clustering, consensus building, and annotation, and delivers a relational database accessible through a web interface.
The Integrative Biology VRE is a web-based graphical user interface and repository that provides an environment where biological simulation experiments can be constructed without the need for any knowledge of unix, cluster computing, or shell scripting.