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Table 1 Characterizing concepts for clusters identified through LASSO analysis.

From: Literature-aided meta-analysis of microarray data: a compendium study on muscle development and disease

Cluster Subcluster Characteristic Biological Concepts (Up) Biological Concepts (Down)
1 overall Atrophy - Cyclins
1 1A Atrophy – PABPN1 overexpression Amino acyl tRNA synthetases, spermidine, polyamines, spermine, eukaryotic initiation factors Platelet-derived growth factor, transforming growth factor-beta, insulin-like growth factor binding proteins
1 1B EOM-specific Adipocytes, acyl CoA dehydrogenase Cyclins, keratin, cyclin-dependent kinases
2 overall Dystrophy/myositis Troponin, matrix metalloproteases Mitogen activated protein kinases, insulin, ERK1 acitivity, phosphorylation
2 2A Dystrophin defiency in EOM muscle Troponin -
2 2B Myositis Chemokine, chemokine receptor -
2 2C Regeneration T-lymphocyte, phosphotransferases, phosphorylation, mitogen-activated protein kinases, integrins, cell cycle Cullin proteins, mitogen-activated protein kinases, ligase
2 2D Differentiation Troponin, tropomyosin, nemaline myopathies, sarcomeres, myosin heavy chain, calsequestrin Inhibitor of differentiation proteins, E2F transcription factors, proteoglycan, cell cycle proteins
2 2E Ky-mutant/diverse Leptin, desaturase, myosin heavy chains, neural cell adhesion molecules Mitogen-activated protein kinases
3 overall Ageing Heterogeneous nuclear ribonucleoproteins, protein sumoylation, small nuclear ribonucleoprotein -
  1. Concepts are shown separately for the down and up regulated gene lists. The column "Characteristic" gives a description of the studied phenomena in the cluster.