62 genes differentially expressed between aniogenic and non-angiogenic tumours.
Angio/non-angio
CELL GROWTH AND DIFFERENTIATION
FOS
1.8
CAMK2D
1.55
SEMAE
1.52
NRGN
1.37
PFN2
0.69
GMPS
0.67
PLXNA2
0.74
nucleus
cytoplasm
membrane
nucleus
ER
cytoplasm
mitochondria
cytoplasm
mitochondria
cytoplasm
membrane
VESICLES/PROTEIN TRANSPORTERS
CLTA
2.08
membrane
LCAT
1.37
membrane
NAPG
1.34
STXBP1
1.33
ANXA7
0.78
SURF-4
0.75
ER
ER/golgi
cytoplasm
mitochondria
nucleus
cytoplasm
membrane
SIGNALING CASCADE
SIPA1L1
1.5
PTP4A2
0,73
GNAI1
0.72
cytoplasm
ER
membrane
cytoplasm
nucleus
TRANSCRIPTION/PROTEIN SYNTHESIS
CGI-07
1.48
cytoplasm
STK22A
1.45
nucleus
PHF15
1.29
nucleus
HMG2L 1
0.82
nucleus
POLR2K
0.78
nucleus
HNRNPG-T
0.77
nucleus
HMGN4
0.74
ZNF217
0.72
cytoplasm
DARS
0.71
cytoplasm
GTF2A2
0.69
MCM6
0.69
cytoplasm
nucleus
HNRPA2B1
0.67
cytoplasm
nucleus
GSCL
0.66
DHX15
0.66
HMGN1
0.52
mitochondria
nucleus
nucleus
nucleus
nucleus
nucleus
ER
mitochondria
cytoplasm
nucleus
cytoplasm
nucleus
METABOLISM/MITOHONDRIAL RESPIRATORY CHAIN
GCDH
0.84
mitochondria
cytoplasm
GPI
0.81
mitochondria
cytoplasm
NDUFB6
0.73
mitochondria
cytoplasm
MDH1
0.72
ATP5O
0.72
ANXA7
0.78
ATP6V1G1
0.71
PRSS15
0.66
nucleus
cytoplasm
extracellular
mitochondria
cytoplasm
membrane
nucleus
nucleus
mitochondria
cytoplasm
nucleus
CELL CYCLE
SMYD2
0.72
cytoplasm
nucleus
SET
0.69
cytoplasm
nucleus
MCM6
0.69
cytoplasm
nucleus
CKS2
0.67
nucleus
H2AV
0.66
nucleus
RPA3
0.64
H2AFZ
0.58
CDK2AP1
0.57
ER
cytoplasm
nucleus
cytoplasm
nucleus
nucleus
APOPTOSIS
FOS
1.8
nucleus
PRODH
1.8
FAH
1.59
cytoplasm
ANXA7
0.78
cytoplasm
nucleus
SOD1
0.68
cytoplasm
nucleus
mitochondria
cytoplasm
ANGIOGENESIS AND REMODEELING/CELL ADHESION
ITGB4
1.54
membrane
PIK3R1
1.48
cytoplasm
ARHE
1.48
cytoplasm
COL7A1 1.47
TSP1
mitochondria
cytoplasm
nucleus
mitochondria
1.41
INFLAMMATION
FOS
1.8
nucleus
SEMAE
1.52
TSP1
1.41
PLXNA20.74
membrane
membrane
cytoplasm
CELL MOTILITY
VAPA
0.77
ER
extracellular
PROTEASOME
GA17
0.75
PSMB1
0.72
cytoplasm
ER
cytoplasm
UBIQUITINE
STUB1
1.56
cytoplasm
KIAA0322
1.42
cytoplasm
DRUG RESISTANCE
SEMAE
1.52
membrane
PLXNA2
0.74
membrane
FUNCTION UNKNOWN
ID 42388_B
1.69
KIAA0648
0.77
ITM2A
0.72
UNKNOWN
cytoplasm
membrane
mitochondria
extracellular
GENERAL LIST
62 genes differentially expressed between aniogenic and non-angiogenic tumours (up in angio)
Angio/
Non-angio
CLTA
2.08
membrane
FOS
1.8
PRODH
1.8
ID 42388_B
1.69
FAH
1.59
cytoplasm
STUB1
1.56
cytoplasm
CAMK2D
1.55
cytoplasm
ITGB4
1.54
membrane
SEMAE
1.52
membrane
SIPA1L1
1.5
cytoplasm
PIK3R1
1.48
cytoplasm
ARHE
1.48
cytoplasm
CGI-07
1.48
cytoplasm
COL7A1
1.47
STK22A
1.45
KIAA0322
1.42
cytoplasm
extracellular
TSP1
1.41
cytoplasm
extracellular
NRGN
1.37
LCAT
1.37
NAPG
1.34
STXBP1
1.33
PHF15
1.29
nucleus
mitochondria
cytoplasm
UNKNOWN
mitochondria
cytoplasm
nucleus
nucleus
mitochondria
nucleus
nucleus
membrane
ER
mitochondria
ER/golgi
cytoplasm
cytoplasm
mitochondria
nucleus
nucleus
62 genes differentially expressed between aniogenic and non-angiogenic tumours (up in non-angio)
Angio/non-angio
GCDH
0.84
HMG2L
0.82
GPI
0.81
ANXA7
0.78
POLR2K
0.78
VAPA
0.77
KIAA0648
0.77
HNRNPG-T
0.77
SURF-4
0.75
GA17
0.75
PLXNA2
0.74
HMGN4
0.74
PTP4A2
0,73
NDUFB6
0.73
ZNF217
mitochondria
cytoplasm
nucleus
mitochondria
cytoplasm
cytoplasm
nucleus
nucleus
ER
cytoplasm
nucleus
membrane
cytoplasm
membrane
mitochondria
ER
nucleus
cytoplasm
mitochondria
cytoplasm
nucleus
0.72
cytoplasm
nucleus
MDH1
0.72
cytoplasm
PSMB1
0.72
GNAI1
0.72
SMYD2
0.72
ITM2A
0.72
ATP5O
0.72
ATP6V1G1
0.71
DARS
0.71
TAF-IBETA
0.7
SET
0.69
PFN2
0.69
GTF2A2
0.69
MCM6
0.69
cytoplasm
nucleus
SOD1
0.68
cytoplasm
nucleus
CKS2
0.67
HNRPA2B1
0.67
GMPS
0.67
GSCL
0.66
PRSS15
0.66
H2AV
0.66
DHX15
0.66
ER
extracellular
cytoplasm
membrane
cytoplasm
membrane
nucleus
mitochondria
mitochondria
membrane
nucleus
cytoplasm
nucleus
cytoplasm
ER
nucleus
cytoplasm
nucleus
nucleus
cytoplasm
mitochondria
nucleus
cytoplasm
nucleus
mitochondria
cytoplasm
nucleus
nucleus
ER
cytoplasm
nucleus
RPA3
0.64
H2AFZ
0.58
CDK2AP1
0.57
HMGN1
0.52
ER
cytoplasm
nucleus
cytoplasm
nucleus
nucleus
mitochondria
cytoplasm
nucleus
PATHWAYS
CELL GROWTH AND DIFFERENTIATION
FOS
1.8
v-fos FBJ murine osteosarcoma viral oncogene homologue.
CAMK2D
1.55
Calcium/calmodulin-dependent protein kinase (CaM kinase) II delta. The identification of
these
new, potential tumour-specific CaMK-II variants supports previous indications that
CaMK-II plays a role in growth control.
SEMAE
1.52
Semaphorin E.
NRGN
1.37
Neurogranin. Protein kinase substrate that binds calmodulin in absence of calcium
PFN2
0.69
Profilin II. A 14-kDa protein responsible for keeping the cytoskeletal protein actin
monomeric under ionic conditions that promote its polymerization into filaments.
GMPS
0.67
Guanine monophosphate synthetase. Amination of XMP to GMP. It is essential for de novo
purine synthesis
PLXNA2
0.74
Plexin A2. Putative Semaphorin receptor
VESCICLES/PROTEIN TRANSPORTERS
CLTA
2.08
Clathrin, light peptide (Lca). Main structural component of the cytoplasmic face of the pits
and vesicles in which macromolecules are entrapped in the process of receptor-mediated
endocytosis
LCAT
1.37
Lecithin-cholesterol acyltransferase. Extracellular cholesterol esterifying enzyme. The
esterification of cholesterol is required for cholesterol transport. Phosphatidylcholine-sterol Oacyltransferase Definition: Catalysis of the reaction: phosphatidylcholine + a sterol = a sterol ester +
1-acylglycerophosphocholine.
NAPG
1.34
N-ethylmaleimide-sensitive factor attachment protein, gamma. Membrane fusion.
STXBP1
1.33
Syntaxin binding protein 1.
ANXA7
0.71
Annexin A7. Calcium-dependent phospholipid binding proteins family. Membrane fusion
in exocytosis. Mediates galectin-3 translocation to the perinuclear mitochondrial membranes, where
it regulates mitochondrial integrity critical for apoptosis regulation
SURF-4
0.75
Surfeit 4. The yeast homologous is involved in non-clathrin-coated
vesicular coat proteins (COPs)
SIGNALING CASCADE
SIPA1L1 1.5
Signal-induced proliferation-associated 1-like 1.
PTP4A2
0.73
Protein tyrosine phosphatase type IVA, member 2. Putative oncogene.
GNAI1
0.72
Guanine nucleotide binding protein (G protein), alpha inhibiting activity polypeptide 1.
TRANSCRIPTION / PROTEIN SYNTHESIS
FOS
1.8
v-fos FBJ murine osteosarcoma viral oncogene homologue. Specific RNA polymerase II
transcription factor
CGI-07
1.48
CGI-07 protein. Nonsense mediated mRNA decay. Export of ribosome from nucleus to
cytoplasm.
STK22A
1.45
Serine/threonine kinase 22A (spermiogenesis associated). Regulation of transcription.
DNA binding
PHF15
1.29
PHD finger protein 15. DNA Binding
HMG2L
0.82
High-mobility group (nonhistone chromosomal) protein 2-like 1. Regulation of transcription,
DNA-dependent
POLR2K
0.78
Polymerase (RNA) II (DNA directed) polypeptide K, 7.0kDa. This gene encodes one of the
smallest subunits of RNA polymerase II, the polymerase responsible for synthesizing messenger RNA
in eukaryotes. This subunit is shared by the other two DNA-directed RNA polymerases.
HNRNPG-T
0.77
Testes-specific heterogeneous nuclear ribonucleoprotein G-T. DNA-
Binding. Regulation of transcription
HMGN4
0.74
High-mobility group nucleosomal binding domain 4. It is thought to
reduce the compactness of the chromatin fibre in nucleosomes, thereby enhancing
transcription from chromatin templates.
ZNF217
0.72
Zinc finger. Protein 217. Regulation of transcription, DNA-dependent. Strong candidate
0.71
Aspartyl-tRNA synthetase. It is part of a multienzyme complex of aminoacyl-tRNA
oncogene
DARS
synthetases. Aspartyl-tRNA synthetase charges its cognate tRNA with aspartate during protein
biosynthesis. It has ATP binding activities
GTF2A2
0.69
General transcription factor IIA, 2, 12kDa. RNA polymerase II transcription factor activity.
From Pfam homology, the products would be involved in transcription initiation from Pol II
promoter and would localize in transcription factor TFIIA.
MCM6
0.69
Minichromosome maintenance deficient 6 (MIS5 homology, S. pombe). The protein
encoded by this gene is one of the highly conserved MCM that are essential for the initiation of
eukaryotic genome replication.
HNRPA2B1
0.67
Heterogeneous nuclear ribonucleoprotein A2/B1
GSCL
0.66
Goosecoid like. GSCL a homeodomain-containing gene. Regulation of transcription from
PolII promoter. Regulation of transcription, DNA-dependent.
DHX15
0.66
DEAD/DEAH (Asp-Glu-Ala-His) box polypeptide 15. Putative ATP-dependent RNA
helicase implicated in pre-mRNA splicing.
HMGN1
0.52
High-mobility group nucleosome binding domain 1. Member of the HMG 14/17 family of
proteins; affects rate of elongation by RNA polymerase II on chromatin templates
METABOLISM/ MITOCHONDRIAL RESPIRATORY CHAIN
GCDH
0.84
Glutaryl-coenzyme A dehydrogenase. It is a multifunctional enzyme responsible for the
dehydrogenation and decarboxylation of glutaryl-CoA to crotonyl-CoA in the degradative pathway
of L-lysine, L-hydroxylysine, and L-tryptophan metabolism.
GPI
0.81
Glucose phosphate isomerase. Energy pathway
NDUFB6
0.73
NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 6, 17kDa. Complex I (NADH:
ubiquinone oxidoreductase), the first multisubunit enzyme complex of the mitochondrial
respiratory chain, Expressed in normal tissues with high energy demand.
MDH1
0.72
Malate dehydrogenase 1, NAD (soluble). Catalyses the reversible oxidation of malate to
oxaloacetate, utilizing the NAD/NADH cofactor system in the citric acid cycle. The protein encoded
by this gene is localized to the cytoplasm and may play pivotal roles in the malate-aspartate shuttle
that operates in the metabolic coordination between cytosol and mitochondria.
ATP5O
0.72
ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit (core Delta).
ANXA7
0.71
Annexin A7. Calcium-dependent phospholipid binding proteins family. Membrane fusion
in exocytosis. Mediates galectin-3 translocation to the perinuclear mitochondrial membranes, where
it regulates mitochondrial integrity critical for apoptosis regulation
ATP6V1G1
0.71
Vacuolar ATPase, H+ transporting, lysosomal 13kDa, V1 subunit G isoform 1. This gene
encodes a component of vacuolar ATPase (V-ATPase), a multisubunit enzyme that mediates
acidification of eukaryotic intracellular organelles (e.g. lysosomes).
PRSS15
0.66
Protease, serine, 15. In assays of protein purified from bovine heart mitochondria, Bota
and Davies (2002) found that the PRSS15 selectively recognized and degraded the oxidized, hydrophobic
form of aconitase (ACO2; 100850) after mild oxidative modification. Severe oxidation resulted in aconitase
aggregation, making it a poor PRSS15 substrate. Down regulation of PRSS15 expression in human lung
fibroblasts caused accumulation of oxidatively modified aconitase. Bota and Davies (2002) concluded that
PRSS15 might prevent extensive oxidation, aggregation, and accumulation of aconitase, which could
otherwise compromise mitochondrial function and cellular viability.
CELL CYCLE
SMYD2
072
SET and MYND domain containing 2. SET: methylation of histones. MYND: This domain
is found in some suppressors of cell cycle entry.
SET
0.69
SET translocation (myeloid leukaemia-associated). DNA replication factor (template
activating factor I, beta isoform); potent and specific inhibitor of protein phosphatase 2A (PPP2CA);
has an acidic C-terminus
MCM6
0.69
Minichromosome maintenance deficient 6. Play roles in the progression of the cell cycle
bind to the DNA after mitosis and enable DNA replication before being removed during S phase.
CKS2
0.67
CDC28 protein kinase regulatory subunit 2 and CDC2-ASSOCIATED PROTEIN. It is
required for the first metaphase/anaphase transition of mammalian meiosis.
H2AV
0.66
Histone H2A. F/Z variant.
RPA3
0.64
Replication protein A3, 14kDa. The products would have single-stranded DNA binding
activity, would be involved in DNA replication, DNA repair.
H2AFZ
0.58
H2A histone family, member Z.
CDK2AP1
0.57
CDK2-associated protein 1. (Doc-1 for 'deleted in oral cancer.). It is thought to negatively
regulate CDK2 activity. This protein was found to also interact with DNA polymerase alpha, which
suggested the regulatory role in DNA replication during S phase of the cell cycle.
APOPTOSIS
FOS
1.8
v-fos FBJ murine osteosarcoma viral oncogene homologue.
PRODH
1.8
Proline dehydrogenase (oxidase) 1. First step in proline catabolism. . Proline oxidase
induces apoptosis in tumour cells
FAH
1.59
Fumarylacetoacetate hydrolase (fumarylacetoacetase). Tyrosine and phenylalanine
catabolism pathway. ? Induction of apoptosis
ANXA7
0.71
Annexin A7. Calcium-dependent phospholipid binding proteins family. Mediates
galectin-3 translocation to the perinuclear mitochondrial membranes, where it regulates
mitochondrial integrity critical for apoptosis regulation.
SOD1
0.68
Superoxide dismutase 1, soluble (amyotrophic lateral sclerosis 1 (adult)). Protection from
apoptosis.
ANGIOGENESIS AND REMODELLING/CELL ADHESION
ITGB4
1.54
Integrin, B4. As a component of aVb4 induces VEGF translation. Alpha-6/beta-4 increased
carcinoma invasion in a PI3K-dependent manner. Epidermolysis bullosa
(GPRK2L
1.42
G protein-coupled receptor kinase 2-like (Drosophila). Part of PI3K pathway)
PIK3R1
1.48
Phosphoinositide-3-kinase, regulatory subunit, polypeptide 1 (p85 alpha). ITGB pathway.
1.48
Ras homologue gene family, member E. ITGB pathway. Negative regulators of actin
PDECGF
ARHE
assembly and of cell adhesion.
COL7A1
1.47
Collagen, type VII, alpha 1 (epidermolysis bullosa, dystrophic, dominant and recessive).
Squamous epithelium cell adhesion. Epidermolysis bullosa
TSP1
1.41
Thrombospondin 1.
INFLAMMATION/IMMUNE RESPONSE
FOS
1.8
v-fos FBJ murine osteosarcoma viral oncogene homologue.
SEMAE
1.52
Semaphorin E. Expressed in rheumatoid Arthritis. Immunosuppressive
TSP1
1.41
Thrombospondin 1.
PLXNA2
0.74
Plexin A2. Putative Semaphorin receptor
(VAMP
0.78
Vesicle-associated membrane protein. Contains major sperm protein (MSP) domain)
VAPA
0.77
VAMP (Vesicle-associated membrane protein) associated protein. A, 33kDa.
CELL MOTILITY
PROTEASOME
Proteasomes are distributed throughout eukaryotic cells at a high concentration and
cleave peptides in an ATP/ubiquitin-dependent process in a non-lysosomal pathway.
GA17
0.75
dendritic cell protein. Motif in proteasome subunits, Int-6, Nip-1 and TRIP-15; also called
the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function
PSMB1
0.72
Proteasome (prosome, macropain) subunit, beta type, 1. From LocusLink Proteome or
GOA annotation, the products would have peptidase activity. From Pfam homology, the products
would have proteasome endopeptidase activity, would be involved in ubiquitin-dependent protein
catabolism and would localize in 20S core proteasome.
UBIQUITIN PATHWAY
Ubiquitin ligases determine protein stability in a highly regulated manner by coordinating the
addition of polyubiquitin chains to proteins that are then targeted to the proteasome for
degradation.
STUB1
1.56
STIP1 homology and U-box (Ubiquitin-ligases) containing protein 1. CHIP decreases net
ATPase activity and reduces chaperone efficiency, and they implicate CHIP in the negative
regulation of the forward reaction of the Hsc70-Hsp70 substrate-binding cycle.
KIAA0322
1.42
HECT type E3 ubiquitin ligase.
DRUG RESISTANCE
SEMAE
1.52
Semaphorin E.
PLXNA2
0.74
Plexin A2. Putative Semaphorin receptor
FUNCTION UNKNOWN
ID 42388_B
1.69
yh08e04.s1 Soares infant brain 1NIB Homo sapiens cDNA clone IMAGE: 42388 3'.
Function unknown
KIAA0648
0.77
KIAA0648 protein (Blast score 2189). Function unknown
ITM2A
0.72
Integral membrane protein 2A. Function unknown.
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