Because the MetaCyc reactions are based on regrouping the predicted EC numbers the resulting pathway predictions also partially correspond to the original read counts. To understand this, it's important understand how the EC gene family abundances are calculated per ASV: by default, the read depth...
Among the paths toward cell death, anoikis (homelessness) is the predominant pathway when cells lose integrin-mediated cell-to-extracellular matrix interactions [2, 4]. These anchorage-independent cells can be either together or individuals without cadherin-mediated cell-to-cell interactions [5,6,7...
aMultidimensional scaling (MDS) of Jaccard distances for the functional repertoire (presence of KEGG ortholog groups [KOs]) for each rMAG. Ellipses containing 95% (inner) or 99% (outer) of cluster-assigned data points are shown resulting in four distinct functional clusters (FunCs). Colors indi...
Understanding the genome, with all of its components and intrinsic relationships, is a great challenge. Conceptual modeling techniques have been used as a means to face this challenge. The heterogeneity and idiosyncrasy of genomic use cases mean that con
Functional annotation and analysis of unigenes.aThe histogram of GO enrichment analysis;bThe histogram of KOG enrichment analysis;cThe histogram of KEGG enrichment analysis Full size image The KOG terms were assigned to 11,831 unigenes, of which functional annotation were divided into 25 categories ...
DEG functions were explored through GO and KEGG pathway analysis and the terms which q-value ≤0.05 were defined as significant enriched. This was performed to identify significantly enriched metabolic pathways. 2.4. Proteome with ITRAQ and Data Analysis The samples used in RNA-seq were used to ...