For example, the Bioinformatics Center of Peking University had developed an online lncRNA identification tool, CPC (Coding Potential Calculator, CPC) [9], which has been widely used in many fields, such as sequence alignment, disease research and evolution analysis. Its principle is mainly to ...
The glaA mRNA and the ER localization analysis images were binarized, and the co-localization areas between the glaA mRNA and the ER localization analysis images were extracted using the image calculator (called “glaA mRNA & ER”). Analyze Particles was used to calculate the areas of ...
As the identification of transcripts involved immature mRNA fragments, we used four tools, namely Coding Potential Calculator (CPC), Pfam-scan (PFAM), phylogenetic codon substitution fre- quency (phyloCSF), Coding-Non-Coding-Index (CNCI) to remove potential coding transcripts. Finally, 2805 putative...
To calculate an adequate sample size, we used the G*Power statistical power calculator. Statistical test ANOVA (F-test): Fixed effects special, main effects and interactions; power = 0.80, alpha = 0.05, effect size medium (f = 0.25). The calculated total sample size was 200 ...
BR-bodies stimulate the mRNA decay rate of enriched mRNAs, helping to reshape the cellular mRNA pool. We also observe that BR-body formation promotes complete mRNA decay, avoiding the buildup of toxic endo-cleaved mRNA decay intermediates. The combined selective permeability of BR-bodies for both...
The amino acid sequences of these POIs were scanned for DnaK binding sequence using Limbo [38] and predicted for the possible disulfide formation using DISULFIND [39]. Since DnaK and DnaJ share the majority of binding sites in E. coli [40], this analysis can be used to assess the ...
Then, the Coding Potential Calculator (CPC, score < 0), Coding Non-Coding Index (CNCI, score < 0), Coding Potential Assessment Tool (CPAT, score < 0) and Pfam-scan (version 1.3, E-value < 0.01) were combined to screen the candidate lncRNAs. The lncRNAs were classified as lincRNAs, ...
The human recombinant CHEM was applied due to the unavailability of porcine CHEM in the onset of laboratory phase of the experiment. In accordance to Du and Le- ung's study [49], the porcine and human CHEM amino acid homologs show 84% identity. Furthermore, Luangsay et al. [50] have ...