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The mapping function takes as input numeric measurements and pathways of the primary metabolism of barley from the MetaCrop database (Grafahrend-Belau et al., 2008).
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The input file for FIA was constructed using the measurements and pathway structure given in [ 18] and [ 15].
Reliability assessment will focus on accurate measurement of DUP and pathways to care.
Out of 19 detected metabolites, we identified seven by standards or accurate mass measurements and two via pathway analysis and analogies to other compounds.
This capability for multiplexed analyses allows systematic measurement of multiprotein networks and pathways, a task that would be prohibitively expensive and cumbersome with Western blotting.
In particular, the relatively few measurements of pathways and rates of denitrification reactions, the largest sink term in the global N budget, confound estimations of global N losses.
In order to understand how ovarian xenograft tumors may be growing and responding to anti-tumor therapeutics, we used genome-wide mRNA expression and DNA copy number measurements to identify key genes and pathways that may be critical for SKOV-3 xenograft tumor progression.
For this purpose we used two freely available software packages: Paintomics Version 2.0 (http://www.paintomics.org; Garcia-Alcalde et al. [ 33]) to map and visualize the gene, protein and metabolite measurements in KEGG pathways; and MapMan (http://mapman.gabipd.org; Thimm et al. [ 34]) to visualize the transcriptomic and proteomic variables, as well as transcripts/proteins not described by KEGG.
Putative identification of lipids was performed using the exact mass measurement through the Lipid Metabolites and Pathways Strategy (LIPID MAPS Structural Databasee (LMSD).
To identify the regulatory dependence of the bimodal switch on particular pathway motifs, investigations that combine experimental measurements and theoretical analysis of the pathway dynamics are clearly needed.
For all papers that met the inclusion criteria, two independent reviewers extracted data on key elements of study design, the definition and measurement of pathways to care, the method of assigning ethnicity, and frequency counts and proportions for key indicators.
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