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An RDF Resource Description Frameworkk, http://www.w3.org/RDF) description of each tool can be generated for use with tools such as CLI-MATE (Tatum et al., 2011) to generate XML files for a variety of workflow frameworks, such as Galaxy (Goecks et al., 2010).

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Large-scale RNAi libraries have been generated for use in forward genetics screens with the aim of linking genes with specific cellular phenotypes [12], [13].

There are several commercially available one-cycle labeling kits that generate targets for use with Affymetrix GeneChip technology.

The default (third-order) MM was generated for BioProspector using the genomebg program provided with the software.

Global alignments of AA sequence pairs for use with PAML were generated using the L-INS-i algorithm implemented in MAFFT [ 67] and the JTT substitution matrix.

It is primarily designed for use with MS2 datasets generated by CID MS scan of a peptide mix subjected to targeted proteomics.

The Ovation systems utilise a single primer, isothermal linear amplification (SPIA) method [17], [35] to generate single-strand cDNA microarray probes suitable for use with Affymetrix GeneChips™ among other platforms.

Shapes and appearance registrations were used in a principal component analysis (PCA) to generate both the shape and appearance models for use with the AAM.

We also compared the results obtained with SciFinder with the IBM SIIP patent data.1 To perform this comparison, the same Pipeline Pilot workflow that was previously generated for the comparison with SureChEMBL was used.

A censored time was also generated for each case using an exponential distribution with a hazard rate of 0.0002 to give approximately 35% censored observations.

Bayesian MCMC phylogenetic trees, following a Yule speciation process model and UPGMA starting tree, were generated for each alignment using BEAST v1.7.5 software with 5,000,000 random seeds (Drummond et al. 2012).

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