RBC2 unique Gene FC P FDR
  actin, alpha 1 , skeletal muscle (ACTA1) (array address 5, 13, 2) -2.84 0.0002 0.0496
  actin, alpha 1 (ACTA1) (array address 5, 16, 8) -3.12 0.0002 0.0496
  ATPase, Ca++ transporting, cardiac muscle, fast¬† twitch 1 (ATP2A1) -2.23 0.0002 0.0496
  CDC28 protein kinase regulatory subunit 2 (CKS2) -2.06 0.0001 0.0496
  collagen pro-alpha-1 (COL1AI) -2.65 0.0002 0.0496
  glycosyltransferase 8 domain containing 1 (GLT8D1) -1.52 0.0002 0.0496
  lamin B2 (LMNB2) -1.63 0.0002 0.0496
  maternal embryonic leucine zipper kinase (MELK) -2.00 0.0001 0.0496
  P311 POU, neuronal protein 3.1 (C5orf13) -2.34 0.0000 0.0224
  proteoglycan (PRG) -2.02 0.0000 0.0255
  serpin peptidase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 2 (SERPINE2) -1.89 0.0001 0.0496
  small nucleolar RNA host gene* 1.87 0.0002 0.0496
  tubulin, alpha (TUBA) -1.81 0.0002 0.0496
  tubulin, beta 2B (TUBB2B) -1.92 0.0001 0.0496
F Unique        
  actin, alpha 2, smooth muscle, aorta (ACTA2) -1.92 0.0001 0.0354
  cardiac C-protein (MYBPC3) 1.75 0.0002 0.0498
  cysteine and glycine-rich protein 3¬† (cardiac LIM protein) (CSRP3) 2.49 0.0000 0.0183
  FRA10AC1 protein (C10orf4) 1.67 0.0001 0.0351
  Leber congenital amaurosis 5-like (LCA5L) 2.44 0.0001 0.0354
  microphthalmia-associated transcription factor (MITF) 1.76 0.0002 0.0470
  similar to nexilin isoform s 2.36 0.0000 0.0145
  unknown 1.58 0.0002 0.0470
  unknown protein 1.91 0.0002 0.0498
Shared Gene Line FC P Value FDR
  actin, alpha RBC2 -3.12 0.0000 0.0083
    F -2.49 0.0000 0.0183
  CD74 molecule, major histocompatibility complex, class II invariant chain (CD74) RBC2 2.43 0.0000 0.0195
    F 2.15 0.0000 0.0237
  family with sequence similarity 134, member B (FAM134B) RBC2 1.72 0.0001 0.0496
    F 1.71 0.0001 0.0354
  Kazal-type serine peptidase inhibitor domain 1 (KAZALD1) RBC2 -1.59 0.0001 0.0496
    F -1.79 0.0000 0.0237
  Kelch domain containing 3 (KLHDC3) RBC2 -1.62 0.0002 0.0496
    F -1.68 0.0001 0.0354
  myosin regulatory light chain 2B, cardiac muscle isoform RBC2 2.00 0.0001 0.0496
    F 2.72 0.0000 0.0183
  myotilin (MYOT) (array address 4, 7, 4) RBC2 3.80 0.0000 0.0083
    F 4.15 0.0000 0.0061
  myotilin (MYOT) (array address 22, 9, 6) RBC2 3.30 0.0000 0.0097
    F 2.50 0.0000 0.0207
  similar to nebulin (LOC771699) RBC2 2.32 0.0001 0.0496
    F 2.68 0.0001 0.0331
  TNNI1 troponin I type 1 (skeletal) (array address 9,2,8) RBC2 -2.70 0.0000 0.0223
    F -2.23 0.0001 0.0351
  TNNI1 troponin I slow skeletal muscle isoform (array address 11, 1, 10) RBC2 -2.13 0.0000 0.0195
    F -1.97 0.0000 0.0237
  TNNI1 troponin I type 1 (skeletal, slow) (array address 18, 1, 14) RBC2 -1.68 0.0001 0.0496
    F -1.85 0.0001 0.0331
  tropomyosin, alpha (TPMI) RBC2 -1.53 0.0002 0.0496
    F -3.80 0.0001 0.0412
  unknown RBC2 2.55 0.0002 0.0496
    F 3.08 0.0001 0.0354
*this gene contains four snoRNAs as introns
Table 2: Genes showing differential expression between developmental stages within genetic lines (RBC2 and F) as measured with the TSKMLO microarray. Genes in the Shared group were differentially expressed in both genetic lines. For each gene the directional fold change (FC; 16 wk versus 1 dph), P value, and false discovery rate(FDR) are given.