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We downloaded the full manually curated list of 186 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways from MsigDb (Liberzon et al., 2011).
To test whether DINA was able to identify tissue-specific pathways, i.e. pathways that are actively regulated only in specific tissues, we used the full manually curated list of 186 KEGG pathways from MsigDb (Kanehisa et al., 2002; Liberzon et al., 2011) including signaling, metabolic and regulatory pathways.
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The full articles are then manually reviewed by our in-house curators.
Once found, the full-text is manually inspected to identify the gene product of interest, the relevant GO terms and the evidence code to indicate the type of supporting evidence, e.g. mutant phenotype or genetic interaction, for inferring the relationship between a gene product and a GO term.
Then we manually analyze the full set of identified bug reports in order to exclude those which are not concurrency-related.
For instance, developers have to manually analyze the full source code in order to effectively understand the data structures used by these applications.
Changeovers from the nearly empty to the full syringe can be performed manually using the quick change technique (QC) or automatically using smart infusion pumps (SIP) that link two syringes.
3471 sequences along with their name, family and organism information were collected manually from the full texts.
In those articles where it was not possible to determine the relevance of the article based on abstract, the full article was obtained and manually read to determine relevance.
Moreover, the register is being coded continuously with respect to characteristics of studies such as the kind of interventions and their concomitant use, by looking through the full article of relevant studies manually.
The firing rate for each cell recorded for each stimulation parameter was counted manually for the full stimulus train and then averaged and plotted using GraphPad Prism statistical software (GraphPad Software Inc, La Jolla, CA).. Light-evoked spike amplitudes were measured for the duration of the full stimulus train.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com