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The MS/MS peak lists were extracted with RMassBank [8] using the ion mass and a retention time window of 0.4 min around the expected retention time and reported as absolute ion intensities.
MG-thymoma exon array data set functional analysis UG identifier lists were extracted and then GO [88] annotations of these lists were obtained by EASE [24].
The problem lists were extracted at the end of 2009.
Peak lists were extracted and subjected to several database searches (see Materials and Methods).
All lists were extracted from the publication of Ko et al. 2010.
From the MALDI-MS data files, peak lists were extracted as text files using the software UltraMassList [ 25].
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A short list of 15, as the intersection of all lists, was extracted.
These lists are extracted from all IUPAC names mentioned in the data available from PubChem (NCBI, 2007).
When BCSs for all gene lists are extracted, AGRA calculates the overlap values for every combination of two BCSs to evaluate the effectiveness of FS methods.
Second, all cases which were part of the outbreaks of the Hessian norovirus outbreaks list were extracted from the national database.
Peak list were extracted using an in-house developed scripts (DTA-supercharge), combined for each gel slides, and used for protein database searches.
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