PMC:6599329 / 35687-37061 JSONTXT

{"target":"http://pubannotation.org/docs/sourcedb/PMC/sourceid/6599329","sourcedb":"PMC","sourceid":"6599329","source_url":"https://www.ncbi.nlm.nih.gov/pmc/6599329","text":"Gene ontology analysis\nThe total proteins from all the stages were analyzed using the Venny tool 2.1.0 to identify proteins specific to the planktonic and biofilm stages. The total proteome of the planktonic stage was obtained by compiling the total proteins identified in the triplicates of two different time points of planktonic stage viz., 12 h and 24 h. Similarly, the total proteome of biofilm stages was compiled. The identified proteins were subjected to Gene Ontology (GO) and Kyoto Encyclopedia of Gene and Genomes (KEGG) analysis using Database for Annotation, Visualization and Integrated Discovery (DAVID) functional Annotation Bioinformatic analyzer [47, 48]. DAVID generates Expression Analysis Systematic Explorer (EASE) score, a modified Fisher’s Exact P-value for each term and the GO and KEGG pathway terms with a P value ≤0.1 was considered as enriched. Average relative expression values of at least two biological replicates were used and a fold change of more than 30% (ratio of either \u003c 0.70 for downregulation and \u003e 1.3 for upregulation) was considered to be significantly altered levels of expression. Protein-protein interaction networks of differentially overexpressed proteins in biofilm stages were generated using STRING 10.5 (https://string-db.org/) [49] and a confidence view was generated by setting the filter to medium confidence (0.400).","divisions":[{"label":"title","span":{"begin":0,"end":22}}],"tracks":[{"project":"2_test","denotations":[{"id":"31253082-19131956-12221396","span":{"begin":665,"end":667},"obj":"19131956"},{"id":"31253082-19033363-12221397","span":{"begin":669,"end":671},"obj":"19033363"},{"id":"31253082-25352553-12221398","span":{"begin":1283,"end":1285},"obj":"25352553"}],"attributes":[{"subj":"31253082-19131956-12221396","pred":"source","obj":"2_test"},{"subj":"31253082-19033363-12221397","pred":"source","obj":"2_test"},{"subj":"31253082-25352553-12221398","pred":"source","obj":"2_test"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"2_test","color":"#ec93bd","default":true}]}]}}