Skip to main content

Table 9 Biological role of a subset of BicPAMS’ modules with varying properties

From: BicPAMS: software for biological data analysis with pattern-based biclustering

  ID Homogeneity Nodes |I|×|J| Putative biological functions: enriched terms (p<1E-10)
STRING (yeast) Y1 dense (high noise-tolerance) 231 ×14 Metabolic processes with incidence on peptide, protein and amide metabolism and biosynthesis.
  Y2 dense (medium noise-tolerance) 217 ×9 Metabolism of nitrogen compounds and other organic substances.
  Y3 constant (few high a ij ) 103 ×8 Amino acid activation and tRNA metabolism for aminoacylation.
  Y4 constant (few high or low a ij ) 55 ×7 Signal transduction and its related subterms.
  Y5 constant (few high or low a ij ) 43 ×6 Phosphorylation terms (with more incidence on protein phosphorylation).
  Y6 order-preserving 176 ×12 Transport of organic acids (incidence on aminoacid transmembrane transport).
  Y7 order-preserving 235 ×9 Oxidation-reduction process and metabolism of aminoacids.
  Y8 order-pres. (few high a ij ) 146 ×8 Transport of molecules (highest enrichment found for drug transmembrane).
STRING (human) H1 dense (high noise-tolerance) 811 ×28 Multiple metabolic processes with incidence on transcription activity.
  H2 constant (few high a ij ) 693 ×14 Regulation of intracellular signal transduction (over twenty highly enriched terms).
  H3 constant (few high a ij ) 645 ×10 Regulation of molecular functions with incidence on catalytic activity.
  H4 order-preserving 720 ×24 Establishment of protein localization (protein targeting to ER and membrane).
  H5 order-preserving 733 ×29 Protein phosphorylation and its subterms.
DryGIN D1 dense (high noise-tolerance) 28 ×17 Organelle localization (establishment of spindle and nuclear localization).
  D2 constant (with pos&neg a ij ) 22 ×10 Chromatin remodeling and nucleosome organization.
  D3 constant (with pos&neg a ij ) 21 ×7 Transport processes for the establishment of protein localization.
  D4 constant (with pos&neg a ij ) 19 ×9 Regulation of growth (with incidence on filamentous growth).
  D5 order-preserving 39 ×7 Organelle and nucleous organization.
  D6 order-preserving 54 ×6 Negative and positive regulation of cellular metabolic processes.