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ARMFUL innovates by using a SWMS provenance database to add a dataflow access path to raw data files.
Scientific Workflow Management Systems SWMSS) can manage the dataflow of computer simulations and register related raw data files at a provenance database.
The main goal covered by these workflows is to allow scientists to design/execute their bioinformatics experiments in clouds, also analyzing the provenance data (at runtime) by querying the provenance database of SciCumulus.
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Even if a powerful workflow provenance support is provided, such as the one offered by Vistrails [2, 3], identifying adequate combinations of tasks can be time-consuming and may involve designing complex queries on provenance databases.
To track data provenance, the database records each time a database row is created or modified.
More precisely, the warehouse architecture should make available several points of view on the data, by keeping all the data from the different databases and mentioning in the warehouse their provenance (from which database they come from), as done in Biowarehouse (Lee et al., 2006), Columba (Trissl et al., 2005) and Ensmart (Kasprzyk et al., 2004).
In the case of the NCBI BLAST databases, this provenance tracking is hampered by the absence of official versioning.
To ensure that the most current biological knowledge is used to analyze and interpret omics data, particularly within a clinical setting, it is imperative that all provenances of the databases are effectively captured and tracked.
The Baker has built up a large stock of un-needed gifts and a complex database of their provenance, which means that there's usually something just right for a happy recipient and there's no possibility of someone getting back something they gave us.
The database also provides provenance data such as: who the research team was, details of where the experiment was published, the images showing the experimental result and details of the mouse experimented on.
Identifying and better accounting for the provenance of sequences in EST databases when choosing in silico SNPs thus seem crucial and is more and more documented either in unigene assemblies or in SNP databases (see for example the NCBI database available at http://www.ncbi.nlm.nih.gov/SNP/).nih.gov/SNP/
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com