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The microarray data included those in the second model as well as those generated from experiment E4.
The microarray data included those in the initial modeling plus array data generated from experiment E3 and a published dataset monitoring the transcriptional response of the diauxic shift [22].
The microarray data included 56 complete trios from the HapMap [30] cell line panels originating from the Yoruba in Ibadan, Nigeria (YRI) and from Utah residents with ancestry from northern and western Europe (CEU).
The microarray data included those from experiments E1 or E2 (19 arrays) and the published dataset of yeast treated with H2O2 or menadione over 0 to 160 min (21 arrays) [9].
Gene expression profiles obtained from microarray data included 24 arrays.
Wheat microarray data included in this analysis was generated by Mott and Wang (2007).
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We describe in detail the methodology applied for analyzing the microarray data including differential expression as well as functional annotation of the identified symbiont genes.
Microarray data (including raw and processed data) have been deposited in National Center for Biotechnology Information's (NCBI's) Gene Expression Omnibus (NCBIGEO GSE7828).
Using immunoprecipitation, immunohistochemistry and qPCR methods, we validate the microarray data, including altered GABAergic receptor expression in mice lacking the α9 subunit.
We assembled a large collection of microarray data, including tissue surveys, genetic mapping studies, small-molecular perturbation of cell lines, and comparisons of diseased and normal tissues, generated using several microarray platforms (Table 1; Table S1).
Comparison of the two trees shows that the closely related strains based on MLST were largely grouped together by the microarray data, including strains belonging to 3 clonal complexes: ST1, ST25/ST35 and ST53/ST54.
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