Table 4.

The most significantly up-regulated and down-regulated genes (top 15 of each; complete list from SAM analysis in Supplementary Table S5) in the undifferentiated and pluripotent embryonal carcinomas compared with the differentiated tissue samples (normal testis and the differentiated components of TGCT choriocarcinoma, yolk sac tumor, and teratoma)

Gene symbolGene named score
Highly expressed in embryonal carcinomas
    POU5F1POU domain, class 5, transcription factor 17.8
    NANOGNanog homeobox6.8
    DPPA4Developmental pluripotency associated 46.7
    MT1HMetallothionein 1H6.6
    FLJ10884Hypothetical protein FLJ108846.3
    BCAT1Branched chain aminotransferase 1, cytosolic5.9
    DNMT3BDNA (cytosine-5)-methyltransferase 3β5.9
    APEHN-acylaminoacyl-peptide hydrolase5.8
    MRS2LMRS2-like, magnesium homeostasis factor (Saccharomyces cerevisiae)5.7
    JARID2Jumonji, AT-rich interactive domain 25.7
    VSNL1Visinin-like 15.6
    MT2AMetallothionein 2A5.5
    MT1FMetallothionein 1F (functional)5.4
    DNMT3LDNA (cytosine-5)-methyltransferase 3-like5.0
Down-regulated in embryonal carcinomas
    MGC5576Hypothetical protein MGC5576−4.7
    TTC3Tetratricopeptide repeat domain 3−4.3
    C9orf154Chromosome 9 open reading frame 154−4.2
    FLJ13615Hypothetical protein FLJ13615−4.1
    GPSM1G-protein signaling modulator 1 (AGS3-like, Caenorhabditis elegans)−4.0
    PPP3CAProtein phosphatase 3, catalytic subunit, α isoform−3.9
    GPSM1G-protein signaling modulator 1 (AGS3-like, C. elegans)−3.9
    TCEA2Transcription elongation factor A (SII), 2−3.8
    KIAA1223KIAA1223 protein−3.8
    CD99CD99 antigen−3.7
    PPA2Inorganic pyrophosphatase 2−3.7
    SMARCA1SWI/SNF related, matrix-associated, actin-dependent regulator of chromatin, subfamily A, member 1−3.7
    LAMB2Laminin β2 (laminin S)−3.6
    SEC15LSEC15 (S. cerevisiae)-like−3.6