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Table 3 SAM genes that were upregulated in cell lines compared to tumors in all the 6 tissues considered in the study (CL - T).

From: Pathway-specific differences between tumor cell lines and normal and tumor tissue cells

Gene Symbol Gene Name Kegg Pathway(s)
ATP5B ATP synthase, H+ transporting, mitochondrial F1 complex, beta polypeptide Oxidative phosphorylation, ATP synthesis
ATP5G3 ATP synthase, H+ transporting, mitochondrial F0 complex, subunit C3 (subunit 9) ATP synthesis, Oxidative phosphorylation
C1QBP complement component 1, q subcomponent binding protein (Immune Response)
CBX3 chromobox homolog 3 (HP1 gamma homolog, Drosophila) N/A
CCNB1 cyclin B1 Cell cycle
CCT5 chaperonin containing TCP1, subunit 5 (epsilon) N/A
CDC20 CDC20 cell division cycle 20 homolog (S. cerevisiae) Ubiquitin mediated proteolysis, Cell cycle
CDKN3 cyclin-dependent kinase inhibitor 3 (CDK2-associated dual specificity phosphatase) N/A
CHAF1A chromatin assembly factor 1, subunit A (p150) N/A
CKAP1 cytoskeleton associated protein 1 N/A
CKS1B CDC28 protein kinase regulatory subunit 1B N/A
CKS2 CDC28 protein kinase regulatory subunit 2 N/A
COX8A cytochrome c oxidase subunit 8A (ubiquitous) Oxidative phosphorylation
CYC1 cytochrome c-1 Oxidative phosphorylation
DNMT1 DNA (cytosine-5-)-methyltransferase 1 Methionine metabolism
DYNLL1 dynein, light chain, LC8-type 1 N/A
EBNA1BP2 EBNA1 binding protein 2 N/A
HMGB2 high-mobility group box 2 N/A
KIAA0101 KIAA0101 N/A
KIF2C kinesin family member 2C N/A
LMNB2 lamin B2 Cell communication
MCM3 MCM3 minichromosome maintenance deficient 3 (S. cerevisiae) Cell cycle
MCM4 MCM4 minichromosome maintenance deficient 4 (S. cerevisiae) Cell cycle
MCM7 MCM7 minichromosome maintenance deficient 7 (S. cerevisiae) Cell cycle
MRPL12 mitochondrial ribosomal protein L12 N/A
NDUFS8 NADH dehydrogenase (ubiquinone) Fe-S protein 8, 23kDa (NADH-coenzyme Q reductase) Oxidative phosphorylation
PAICS phosphoribosylaminoimidazole carboxylase, phosphoribosylaminoimidazole succinocarboxamide synthetase Purine metabolism
PCNA proliferating cell nuclear antigen Cell cycle
POLR2G polymerase (RNA) II (DNA directed) polypeptide G Purine metabolism, RNA polymerase, Pyrimidine metabolism
PRMT1 protein arginine methyltransferase 1 Selenoamino acid metabolism, Nitrobenzene degradation, Aminophosphonate metabolism, Tryptophan metabolism, Histidine metabolism, Androgen and estrogen metabolism, Tyrosine metabolism
PSMA1 proteasome (prosome, macropain) subunit, alpha type, 1 Proteasome
PSMB2 proteasome (prosome, macropain) subunit, beta type, 2 Proteasome
PSMB5 proteasome (prosome, macropain) subunit, beta type, 5 Proteasome
PSMB6 proteasome (prosome, macropain) subunit, beta type, 6 Proteasome
PSMD14 proteasome (prosome, macropain) 26S subunit, non-ATPase, 14 Proteasome
RANBP1 RAN binding protein 1 N/A
SFRS9 splicing factor, arginine/serine-rich 9 N/A
SNRPA small nuclear ribonucleoprotein polypeptide A N/A
SNRPB small nuclear ribonucleoprotein polypeptides B and B1 N/A
SNRPC small nuclear ribonucleoprotein polypeptide C N/A
SNRPD2 small nuclear ribonucleoprotein D2 polypeptide 16.5kDa N/A
SNRPD3 small nuclear ribonucleoprotein D3 polypeptide 18kDa N/A
SNRPE small nuclear ribonucleoprotein polypeptide E N/A
SNRPF small nuclear ribonucleoprotein polypeptide F N/A
SNRPG small nuclear ribonucleoprotein polypeptide G N/A
TCEB1 transcription elongation factor B (SIII), polypeptide 1 (15kDa, elongin C) Ubiquitin mediated proteolysis
TUBG1 tubulin, gamma 1 N/A
TXNRD1 thioredoxin reductase 1 Pyrimidine metabolism
TYMS thymidylate synthetase Pyrimidine metabolism, One carbon pool by folate
UBE2C ubiquitin-conjugating enzyme E2C Ubiquitin mediated proteolysis
UBE2S ubiquitin-conjugating enzyme E2S N/A
  1. SAM genes shown in italic also belonged to cell lines and normal tissue comparison. There were no downregulated genes common to all tissue types in cell line-tumor (CL - T) comparisons.