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Construction and normalization of cDNA libraries, sequencing and subsequent development of the EST database were performed at the W.M. Keck Center for Comparative and Functional Genomics (University of Illinois, Urbana-Champaign).
200 ng of each RNA sample was pooled and used as the template for the cDNA library construction and normalization using the SMART (Clontech/Takara Bio USA, Madison, WI, USA) and Trimmer (Evrogen Joint Stock Company, Moscow, Russia) kits, respectively.
cDNA library construction and normalization were performed using protocols described previously [ 67].
Library construction and normalization were performed by Agencourt Biosciences (MA, USA) according to proprietary protocols.
The method for cDNA library construction and normalization was based on that of Meyer et al. [ 73].
Detailed descriptions of procedures used for read mapping, expression graph construction and normalization of expression graphs have been published [ 15].
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EK performed library construction and sample normalization.
Microarray database construction, data filtering and normalization were performed as described previously [ 18].
Project characteristics, time, and location differences translate to differences in the capital cost of construction which requires adjustment and normalization before processing with other cost data.
More specifically, a three-stage protocol was followed including translation, tests of scaling construction and scoring assumptions, and validation and normalization.
The MPP platform, an all-inclusive pipeline designed specifically for CGH phylogeny construction, performed similarly to the traditional filtering and normalization methods.
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