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Table 3 List of the top 15 most significantly expressed genes in MCF-7 cells or in skeletal muscle as determined using the Actichip microarray

From: Design and evaluation of Actichip, a thematic microarray for the study of the actin cytoskeleton

  Gene name Gene Accession number Score (d) Log2 expression ratio
Genes mainly expressed in skeletal muscle Nebulette (Actin-binding Z-disk protein) NM_006393 42.93 3.81
  Troponin I, fast skeletal muscle (Troponin I, fast-twitch isoform) NM_003282 34.39 2.60
  Huntingtin interacting protein 1 (HIP-I) NM_005338 33.55 2.59
  Myosin light chain 2a NM_021223 32.80 3.26
  Troponin C, skeletal muscle NM_003279 32.21 2.45
  Myosin light chain 2 NM_013292 29.25 3.06
  Myosin heavy chain, skeletal muscle, perinatal NM_002472 28.14 2.80
  Troponin T, fast skeletal muscle isoforms NM_006757 26.04 2.71
  Myosin heavy chain, cardiac muscle beta isoform NM_000257 24.94 3.12
  Actin, alpha skeletal muscle (Alpha-actin 1) NM_001100 24.21 3.50
  Troponin C, slow NM_003280 21.31 2.54
  Nebulin NM_004543 20.17 2.78
  Smoothelin NM_134269 19.50 1.32
  Tropomyosin 1 alpha chain (Alpha-tropomyosin) NM_000366 18.92 1.99
  Myotilin NM_006790 18.07 1.56
Genes mainly expressed in MCF-7 cells Actin, cytoplasmic 2 (Gamma-actin) NM_001614 -30.24 -2.58
  Elongation factor 1-beta (EF-1-beta) NM_001959 -22.14 -1.26
  Actin binding protein anillin, NM_018685 -20.12 -1.13
  Keratin, type I cytoskeletal 18 NM_000224 -18.78 -2.83
  Ankyrin 3 (ANK-3) (Ankyrin G) NM_020987 -16.43 -2.17
  Gamma-parvin NM_022141 -16.30 -1.03
  Spectrin beta chain, brain 2 (Spectrin, non-erythroid beta chain 2) (Beta-III spectrin) NM_006946 -16.28 -0.84
  Coronin 1B (Coronin 2) NM_020441 -15.97 -0.84
  Beta-centractin (Actin-related protein 1B) (ARP1B) NM_005735 -15.79 -1.40
  NB thymosin beta NM_021992 -14.92 -1.42
  Coronin 2A (WD-repeat protein 2) (IR10) NM_052820 -14.39 -1.24
  ARP2/3 complex 16 kDa subunit (P16-ARC) (Actin-related protein 2/3 complex subunit 5) NM_005717 -13.74 -1.06
  Tight junction protein ZO-1 (Zonula occludens 1 protein) (Zona occludens 1 protein) (Tight junction protein 1) NM_003257 -13.70 -1.28
  Transcription factor 7 (T-cell-specific transcription factor 1) (TCF- 1) (T-cell factor 1) NM_003202 -13.60 -0.67
  Catenin delta-1 (p120 catenin) (p120(ctn)) (Cadherin-associated Src substrate) (CAS) (p120(cas)) NM_001331 -13.60 -0.77
  1. The gene list was established from our dataset through SAM analysis [64]. In SAM, the significant genes are represented on a plot by points displaced by a distance denoted as the score (d) from a line on which genes identified simply by chance are aligned. Log2 expression ratios were determined by averaging the Log2 ratios calculated from fluorescence intensities of 10 repeated hybridisations.