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This study provides a reference for analyzing probe dynamic behavior and improving its inspection precision.
In Methods we describe and develop a formal approach to describing and analyzing probe libraries and their relationship to target sequences which enables us to define a number of useful quantities in precise terms.
However, in the 2 nd reviewer's report, the reviewer pointed out the importance of analyzing probe sequences in both cDNA and Affymetrix array platforms to exclude the possibility of cross hybridization.
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Affymetrix microarray expression data are commonly analyzed probe set by probe set.
This approach efficiently allows to significantly reduce the total number of analyzed probe sets without notably decreasing the number of truly positive genes [65].
The resulting *.cel files were imported into the Partek Genomics Suite software (Partek Inc, St . Louis MO, USA) [47] to analyze probe intensity and to determine the differential gene expression between the groups.
We determined that 277,346 of the 493,710 (56.2%) analyzed probe sets were non-core and we decided to interrogate 189,460 intronic regions.We note that 49,588 of these non-core probe sets satisfied the expression filtering criteria, including 2037 which showed expression variations between tumor samples and mapping to 1725 intronic regions.
The degradation of global sample network topology by HD in CN was observed across all analyzed probe sets (n = 18,631).
Functional categories of these probe sets based on MIPS (Munich Information Center for Protein sequences) are shown in Figure 3. Furthermore, we compared the common probe sets between heat stress and recovery, and analyzed probe sets unique to both treatments, based on functional classification.
While we eliminated entire probe-set cross-hybridization by not analyzing these probe sets, any probe level cross-hybridization between duplicated genes may remain.
The research in the area of micro- and nano-engineering [74] is expected to yield major shifts in ICT performance and the way mechatronic components and devices are manufactured, designed, modeled, and implemented, thereby radically changing the nature and structure of sensing devices and thus the way cities will be monitored, understood, analyzed, probed, and planned in the near future.
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Since I tried Ludwig back in 2017, I have been constantly using it in both editing and translation. Ever since, I suggest it to my translators at ProSciEditing.

Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com