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As illustrated in Figure 1 we selected six microarray studies containing complete gene annotation and full information on phases and levels of expression of genes with an oscillating circadian pattern [5], [6], [15], [16], [17], [18].
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This large microarray study contained 157 advanced-stage ovarian cancer patients for whom fresh frozen tumour tissue was available.
Strikingly, 15 out of the 60 (25%) downregulated genes identified in our microarray study contain E2F binding-site motifs in their promoter regions.
Furthermore, we compare the results of different enrichment methods on a set of microarray studies all containing data from various rodent neuropathic pain models.
The E. coli O157 H7 microarray used in our CGH studies contains oligonucleotide probes specific for genes encoding non-LEE factors which have previously been associated with the pathogenicity of AEEC strains [ 34, 41].
There were two stages in this study containing microarray samples of 17 different classes of leukemia and myelodysplastic syndromes and an 18th class of non-leukemia.
Furthermore, the microarray in this study contained 5,069 different probes printed in triplicate and the microarray in the previous study contained 5,131 different probes printed in duplicate.
The Agilent 244K microarray used in this study contains only two probes in the T gene which are spaced 8216 bases apart (hg18) and are therefore inadequate for evaluating T duplication.
Each microarray used in this study contained 7325 known or predicted R. baltica genes according to Glöckner et al. [ 16].
The Sm14kOLI microarray used in this study contained probes distributed on both strands of intergenic regions at irregular distances.
The microarray used in this study contained 46,000 70-mer oligonucleotides for maize genes, representing >30,000 unique identifiable maize genes (details at http://www.maizearray.org).org
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