Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
CanonicalPathway
NOS1PATHWAY 4.03E-04 0.009764 0.222222 4 18
Glutamate stimulates NMDA-mediates calcium influx, which promotes nitric oxide synthesis from argi
ChemicalGeneticPerturbations nucleus accumbens of mice after 2 weeks of induction of transgenic deltaFosB
DFOSB_BRAIN_2WKS_UP in the
Up-regulated 7.67E-05 0.002896 0.166667 6 36
GOBiologicalProcess
Genes annotated by the GO term GO:0003001.
1.70E-05 9.74E-04 0.214286 6 28
GENERATION_OF_A_SIGNAL_INVOLVED_IN_CELL_CELL_SIGNALING The cellular process by which a physical entity or chan
CanonicalPathway
DAG (diacylglycerol) signaling activity
SA_DIACYLGLYCEROL_SIGNALING 3.14E-05 0.001606 0.4 4 10
GOBiologicalProcess
Genes annotated by the 0.019705 GO:0006813. The directed movement of potassium ions (K+) into, ou
POTASSIUM_ION_TRANSPORT 0.001098 GO term 0.103448 6 58
YU_CMYC_UP Myc-activated genes
5.66E-04 0.01221 0.147059
ChemicalGeneticPerturbations 5 34
Genes annotated by the GO term 0.1875 3 16
DENDRITE GOCellularComponent 0.003781 0.043603 GO:0030425. A branching protoplasmic process of a neuron that rec
GOMolecularFunction 0.001577 0.025185
Genes annotated by the GO term
INWARD_RECTIFIER_POTASSIUM_CHANNEL_ACTIVITY GO:0005242. 0.25 3 12
C na
module_533 ancerModules 1.37E-05 8.00E-04 0.175 7 40
CancerGeneNeighborhood
GNF2_TM4SF2 na 6.47E-11 1.65E-08 0.636364 14 22
KEGG na
HSA00251_GLUTAMATE_METABOLISM 0.003367 0.040079 0.129032 4 31
GOCellularComponent 0.002533 GO term GO:0005871. Any complex that 14
KINESIN_COMPLEX Genes annotated by the 0.03433 0.214286 3 includes a dimer of molecules from t
microRNATargets
CAATGCA,MIR-33 na 7.87E-05 0.002936 0.101124 9 89
GNF2_MCM4 na
CancerGeneNeighborhood 4.93E-04 0.011224 0.12 6 50
C na
module_438 ancerModules 4.80E-05 0.002018 0.123077 8 65
C na
MORF_THRAancerGeneNeighborhood 4.42E-04 0.010402 0.122449 6 49
GNF2_RTN1 na
CancerGeneNeighborhood 5.90E-11 1.63E-08 0.288889 13 45
GenMAPP na
GLUTAMATE_METABOLISM 0.001271 0.021869 0.166667 4 24
ChemicalGeneticPerturbations genes in KCL22 cells
TAVOR_CEBP_UP 0.00303 0.038405 0.102041
C/EBP up-regulated 5 49
CanonicalPathway
CDC25PATHWAY 6.30E-04 0.013244 0.333333 3 9
The protein phosphatase Cdc25 is phosphorylated by Chk1 and activates Cdc2 to stimulate eukaryotic
CanonicalPathway functions as a second messenger activating the5
CACAMPATHWAY Calcium 2.32E-06 1.72E-04 0.416667 12
calcium/calmodulin-dependent kinases, which
ChemicalGeneticPerturbations
3.10E-11 1.29E-08 0.179487
AGEING_BRAIN_DN Age-downregulated in the human frontal cortex 21 117
KEGG na 0.002384 0.033126
HSA00471_D_GLUTAMINE_AND_D_GLUTAMATE_METABOLISM 0.5 2 4
CanonicalPathway
Some Wnt glycoprotein/Frizzled receptor interactions increase intracellular calcium and decrease cGM
ST_WNT_CA2_CYCLIC_GMP_PATHWAY 5.02E-04 0.011343 0.210526 4 19
GNF2_CCNA2 na
CancerGeneNeighborhood 2.48E-04 0.007087 0.112903 7 62
GOBiologicalProcess
AXON_GUIDANCE 7.51E-04 GO term 0.190476 4 21
Genes annotated by the 0.014844 GO:0007411. The process by which the migration of an axon growth
GenMAPP na
G_PROTEIN_SIGNALING 2.70E-08 3.32E-06 0.146067 13 89
GCM_MAPK10 na
CancerGeneNeighborhood 2.74E-05 0.001446 0.115385 9 78
GOMolecularFunction 0.002533 GO term 0.214286
Genes annotated by the 0.03433 3 14
CYCLIC_NUCLEOTIDE_PHOSPHODIESTERASE_ACTIVITY GO:0004112. Catalysis of the reaction: a nucleoside cyclic phosphate
GOMolecularFunction 7.65E-07 GO term GO:0008067.
Genes annotated by the 6.86E-05 0.5 5 10
METABOTROPIC_GLUTAMATE__GABA_B_LIKE_RECEPTOR_ACTIVITY A G-protein coupled receptor that is structurally/funct
ChemicalGeneticPerturbations
Top 100 3.04E-05 0.001579 0.113924 9
FERRANDO_MLL_T_ALL_DN nearest neighbor genes negatively associated with MLL T-ALL cases 79
GNF2_DNM1 na
CancerGeneNeighborhood 7.56E-12 5.02E-09 0.434783 30 69
CanonicalPathway
NDKDYNAMINPATHWAY 1.20E-05 Phosphins 0.3125
Endocytotic role of NDK, 7.51E-04 and Dynamin 5 16
Genes annotated by the 7.17E-05 0.259259 7 27
SYNAPSE GOCellularComponent 8.21E-07 GO term GO:0045202. The junction between a nerve fiber of one neuron and
TransfacTargets
na
GTTGNYNNRGNAAC_UNKNOWN 1.57E-06 1.27E-04 0.140845 10 71
GCRPATHWAY Corticosteroids activate 0.039083
CanonicalPathway 0.003119 the glucocorticoid0.2 3 15
receptor (GR), which inhibits NF-kB and activates Annexin-1
C na
module_563 ancerModules 8.38E-06 5.68E-04 0.333333 5 15
CanonicalPathway of Neurotransmitter Relase by Botulinum Toxin
BOTULINPATHWAY Blockade 0.00392 0.043983 0.4 2 5
ChemicalGeneticPerturbations
Poor prognosis marker genes in
2.74E-04 0.007512 0.111111 7 63
VANTVEER_BREAST_OUTCOME_GOOD_VS_POOR_DN Breast Cancer (part of NKI-70) from Van't Veer et al 2002
C na
module_419 ancerModules 0.004242 0.046344 0.121212 4 33
CanonicalPathway enhancer factor 0.00655 0.178571
HDACPATHWAY Myocyte 5 28
2.21E-04 MEF2 activates transcription of genes required for muscle cell differentiation
ChemicalGeneticPerturbations
LAMB_CYCLIN_D3_GLOCUS 0.003119 0.039083 0.2 3 15
E2F target genes highly correlated with cyclin D3 expression (p = 0.002)
microRNATargets
GTACAGG,MIR-486 na 0.00303 0.038405 0.102041 5 49
na
V$NRSF_01TransfacTargets 1.91E-11 1.06E-08 0.197368 15 76
AXON Genes annotated by the GO term 0.25 3 12
GOCellularComponent 0.001577 0.025185 GO:0030424. The long process of a neuron that conducts nerve impu
na
module_11CancerModules 1.45E-10 2.41E-08 0.12 63 525
C na
module_100 ancerModules 1.39E-10 2.42E-08 0.106061 56 528
GOMolecularFunction 0.001201 0.020882 GO:0015085. Catalysis of the transfer of calcium (Ca) ions from one
Genes annotated by the GO term 0.272727
CALCIUM_ION_TRANSMEMBRANE_TRANSPORTER_ACTIVITY 3 11
ChemicalGeneticPerturbations
0.002519 0.034423 0.106383 5 47
ZHAN_MMPC_SIMAL LDGs showing similar expression patterns in tonsil PCs and all or subsets of MM
GOBiologicalProcess
Genes annotated by the GO term 0.285714 4 14
REGULATED_SECRETORY_PATHWAY1.40E-04 0.004712 GO:0045055. The regulated secretory pathway is a second secretory
TransfacTargets
na
CAGNWMCNNNGAC_UNKNOWN 1.27E-05 7.80E-04 0.126761 9 71
GenMAPP na 2.87E-11
CALCIUM_REGULATION_IN_CARDIAC_CELLS 1.36E-08 0.148148 20 135
GOBiologicalProcess
Genes annotated by the 0.019745 0.173913
0.001076 GO 4 23
REGULATION_OF_NEUROTRANSMITTER_LEVELS term GO:0001505. Any process that modulates levels of neurotransmitter
CanonicalPathway receptor is a G-protein coupled receptor in neutrophils that recognizes formylated bacterial
FMLPPATHWAY The fMLP 0.004732 0.049579 0.117647 4 34
EXOCYTOSIS Genes annotated by the 0.021869 GO:0006887. The release of intracellular molecules (e.g. hormones,
GOBiologicalProcess 0.001271 GO term 0.166667 4 24
KEGG na 1.31E-09
HSA04020_CALCIUM_SIGNALING_PATHWAY 1.98E-07 0.113772 19 167
ChemicalGeneticPerturbations late 0.030066 0.111111
Highly expressed in
0.002073
HIPPOCAMPUS_DEVELOPMENT_POSTNATAL postnatal mouse hippocampus 5 45
(clusters 11 and 15)
ChemicalGeneticPerturbations
BRG1_SW13_UP by transient expression of BRG1 at 24 hours in human, BRG1-lacking SW-13 cells
Up-regulated 6.19E-05 0.002506 0.14 7 50
GNF2_CDC2 na
CancerGeneNeighborhood 8.27E-04 0.016063 0.109091 6 55
microRNATargets
na
GCGCTTT,MIR-518B,MIR-518C,MIR-518D 4.03E-04 0.009764 0.222222 4 18
GOMolecularFunction 7.42E-04 0.014937 GO:0005249. Catalysis of the transmembrane transfer of a potassium
Genes annotated by the GO term 0.138889
VOLTAGE_GATED_POTASSIUM_CHANNEL_ACTIVITY 5 36
KEGG na
HSA04720_LONG_TERM_POTENTIATION 4.80E-05 0.002018 0.123077 8 65
GOMolecularFunction 0.001489 GO term
Genes annotated by 0.16 4 25
AUXILIARY_TRANSPORT_PROTEIN_ACTIVITYthe 0.024361 GO:0015457. Facilitates transport across one or more biological mem
C na
module_485 ancerModules 0.002288 0.032473 0.108696 5 46
CanonicalPathway
MITRPATHWAY 6.30E-04 0.013244 0.333333 3 9
The MyoD/MEF2 transcription factors induce muscle cell differentiation and are repressed by the tran
GOMolecularFunction 3.66E-04 GO term 0.106061
Genes annotated by the 7 66
VOLTAGE_GATED_CATION_CHANNEL_ACTIVITY0.009204 GO:0022843. Catalysis of the transmembrane transfer of a cation by
ChemicalGeneticPerturbations
Top 0.001577 0.025185 0.25 3 12
SARCOMAS_SYNOVIAL_UP 20 positive significant genes associated with synovial sarcomas, versus other soft-tissue tumors.
ChemicalGeneticPerturbations nucleus accumbens of mice after 2 weeks of induction of transgenic CREB
CREB_BRAIN_2WKS_UP in the
Up-regulated 1.02E-04 0.003685 0.208333 5 24
GenMAPP na 1.02E-04 0.003721 0.307692
GPCRDB_CLASS_C_METABOTROPIC_GLUTAMATE_PHEROMONE 4 13
KEGG na
HSA04740_OLFACTORY_TRANSDUCTION 0.002624 0.035132 0.137931 4 29
ChemicalGeneticPerturbations expression of p210(BCR-ABL) in human leukemia (HL-60) cells; detected by spotted
BCRABL_HL60_CDNA_DN 0.002298 0.032474 0.142857
Down-regulated by 4 28
C na
module_381 ancerModules 5.49E-08 6.29E-06 0.5 6 12
C The ATM 0.00202 recognizes 0.230769 3 13
RBPATHWAYanonicalPathway protein kinase 0.029684 DNA damage and blocks cell cycle progression by phosphorylating
ChemicalGeneticPerturbations
IL6_FIBRO_UP following 0.030066 0.111111 5
Upregulated 0.002073 IL-6 treatment in normal skin fibroblasts 45
GNF2_HMMR na
CancerGeneNeighborhood 0.001873 0.02841 0.113636 5 44
ChemicalGeneticPerturbations
Genes highly0.003119 in
expressed 0.039083 0.2 3
WONG_IFNA_HCC_RESISTANT_VS_SENSITIVE_UPinterferon-resistant hepatoma cell lines15 (HKCI-C1-3) vs. sensitive cell lines (H
C na
module_497 ancerModules 2.11E-05 0.001167 0.206897 6 29
C na
GNF2_MAPTancerGeneNeighborhood 5.45E-11 1.65E-08 0.447368 17 38
GOMolecularFunction 0.001489 0.024361 GO:0005516. Interacting selectively with calmodulin, a calcium-bind
CALMODULIN_BINDING Genes annotated by the GO term 0.16 4 25
ChemicalGeneticPerturbations
TGFBETA_C1_UP 2.47E-04 0.007143 0.25 4
Upregulated by TGF-beta treatment of skin fibroblasts, cluster 1 16
ChemicalGeneticPerturbations in Egr2Lo/Lo mice (who bear mutations in the 90
LE_MYELIN_UP 1.99E-06 1.54E-04 0.122222
Genes upregulated 11 transcription factor Egr2 and in whic
ChemicalGeneticPerturbations
IRS_KO_ADIP_DN down-regulated in brown preadipocytes from four Irs-knockout mouse lines with increas
Progressively 7.42E-04 0.014937 0.138889 5 36
CanonicalPathway a G-protein coupled receptor expressed in macrophages that recognizes chemokine ligands an
CCR5PATHWAY CCR5 is 0.003119 0.039083 0.2 3 15
GOMolecularFunction 1.40E-04 GO term 0.285714
Genes annotated by the
POTASSIUM_CHANNEL_REGULATOR_ACTIVITY 0.004712 GO:0015459. 4 14
C na
module_274 ancerModules 0 0 0.222222 18 81
GOMolecularFunction
Genes annotated by the GO term 0.25 5 20
GLUTAMATE_RECEPTOR_ACTIVITY 3.98E-05 0.001862 GO:0008066. Combining with glutamate to initiate a change in cell a
C na
module_316 ancerModules 7.41E-05 0.002863 0.115942 8 69
VIPPATHWAY Apoptosis activated cells is inhibited by vasoactive intestinal peptide (VIP) and its relative PACAP.
CanonicalPathway of 0.001271 T 0.021869 0.166667 4 24
CanonicalPathway is expressed in skeletal muscle, heart muscle, and brown fat, and is a coactivator for receptors
PGC1APATHWAY PCG-1a 1.19E-07 1.32E-05 0.333333 7 21
GOBiologicalProcess
Genes annotated
4.08E-11 1.35E-08 0.145946 27 185
TRANSMISSION_OF_NERVE_IMPULSE by the GO term GO:0019226. The sequential electrochemical polarization and depol
C na
module_137 ancerModules 1.30E-10 2.40E-08 0.10586 56 529
GOCellularComponent 3.71E-06 GO term GO:0044456. The junction between a nerve fiber of one neuron and
SYNAPSE_PART Genes annotated by the 2.68E-04 0.384615 5 13
GOBiologicalProcess
Genes 3.18E-11 1.17E-08 0.158824 27 170
SYNAPTIC_TRANSMISSION annotated by the GO term GO:0007268. The process of communication from a neuron to a targ
CanonicalPathway of angiotensin II 0.040079 activates Ca2+ signaling and the31 pathway.
AT1RPATHWAY Binding 0.003367 to AT1-R 0.129032 4 JNK
ChemicalGeneticPerturbations nucleus accumbens of mice after 5 days of cocaine treatment
COCAINE_BRAIN_5D_UP in the
Up-regulated 2.74E-04 0.007512 0.111111 7 63
CanonicalPathway
NO1PATHWAY 0.001489 0.024361 cytoplasmic calcium, which activates nitric oxide synthase III
Shear stress in endothelial cells increases0.16 4 25
na
module_66CancerModules 1.13E-10 2.21E-08 0.106542 57 535
GOMolecularFunction
Genes annotated by the GO term 0.1 5 50
POTASSIUM_CHANNEL_ACTIVITY 0.003312 0.040434 GO:0005267. Catalysis of facilitated diffusion of a potassium ion (by
GOMolecularFunction 0.00202 0.029684 GO:0004114. Catalysis of the reaction: nucleoside 3',5'-cyclic phosph
Genes annotated by the GO term 0.230769
3__5__CYCLIC_NUCLEOTIDE_PHOSPHODIESTERASE_ACTIVITY 3 13
TransfacTargets
YWATTWNNRGCT_UNKNOWNna 0.003312 0.040434 0.1 5 50
C na
module_524 ancerModules 3.10E-04 0.008232 0.166667 5 30
CancerGeneNeighborhood
GNF2_RAB3A na 7.17E-11 1.70E-08 0.470588 16 34
GOBiologicalProcess
Genes annotated by the 0.034423 GO:0000904.
0.002519 GO term 5 47
CELLULAR_MORPHOGENESIS_DURING_DIFFERENTIATION 0.106383 The change in form (cell shape and size) that occurs wh
ChemicalGeneticPerturbations nucleus accumbens of mice after 8 weeks of induction of transgenic CREB
CREB_BRAIN_8WKS_UP in the
Up-regulated 2.31E-06 1.74E-04 0.135135 10 74
GOBiologicalProcess
Genes annotated by the GO term 0.333333 4 12
NEUROTRANSMITTER_SECRETION 7.17E-05 0.002836 GO:0007269. The regulated release of neurotransmitter into the syn
GOMolecularFunction
Genes annotated by the GO term 0.173913
CHANNEL_REGULATOR_ACTIVITY 0.001076 0.019745 GO:0016247. 4 23
GenMAPP na
SMOOTH_MUSCLE_CONTRACTION 4.75E-07 4.51E-05 0.106061 14 132
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
C na
module_478 ancerModules 3.75E-05 8.08E-04 0.105263 2 19
CanonicalPathway produced by Th20.024486 0.142857 the T cell 1
IL-13 is
ST_INTERLEUKIN_13_PATHWAY 0.003478 cells on activation of 7
antigen receptor, and by mast and basophil ce
CanonicalPathway T subtype Th1 produces pro-inflammatory cytokines that stimulate phagocytosis, while Th2 cel
TH1TH2PATHWAY Helper 2.98E-05 7.34E-04 0.117647 2 17
ChemicalGeneticPerturbations environmental stress response that were not regulated following treatment of f
4NQO_ESR_OLD_UNREG 0.004965
Genes involved in the 0.032319 0.1 1 10
CanonicalPathway 0.003478 0.024486 0.142857 the 7
ST_IL_13_PATHWAY Like IL-4, IL-13 is produced by Th2 cells on activation of 1 T cell antigen receptor, and by mast and ba
C na
module_424 ancerModules 3.35E-05 7.71E-04 0.111111 2 18
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GOBiologicalProcess
PROTEIN_MATURATION 0.005515 GO term 0.1 1 10
Genes annotated by the 0.031542 GO:0051604. The process leading to the attainment of the full funct
GOBiologicalProcess
LEUKOCYTE_MIGRATION 3.29E-05 GO term 0.125 2
Genes annotated by the 0.001195 GO:0050900. The movement of 16 leukocytes within or between differ
CanonicalPathway
B 0.004965 interact 0.111111 1 9
LYMPHOCYTEPATHWAY and T cell lymphocytes0.030085with other cells via transmembrane adhesion proteins such as CD44,
GOBiologicalProcess
Genes annotated by the 0.031542 GO:0042509.
0.005515 GO term 0.1 1 10
REGULATION_OF_TYROSINE_PHOSPHORYLATION_OF_STAT_PROTEIN Any process that modulates the frequency, rate or ext
CanonicalPathway
B 0.005515 0.031542 0.1 1 10
BLYMPHOCYTEPATHWAYcells express the major histocompatibility complex (class II MHC), immunoglobulins, adhesion protei
CanonicalPathway 0.004414 0.027402 0.125 1 8
NEUTROPHILPATHWAYNeutrophils are phagocytotic leukocytes that destroy foreign cells with reactive oxygen species or enz
GOMolecularFunction 0.005515 0.031542 GO:0015145. Catalysis of the transfer of monosaccharide from one s
Genes annotated by the GO term
MONOSACCHARIDE_TRANSMEMBRANE_TRANSPORTER_ACTIVITY 0.1 1 10
GOBiologicalProcess
Genes 2.14E-05 8.37E-04 0.153846 2 a
LEUKOCYTE_CHEMOTAXIS annotated by the GO term GO:0030595. The movement of 13leukocyte in response to an extern
GOBiologicalProcess
Genes annotated by the 0.001332 GO:0050730. Any process that modulates the frequency, rate or ext
4.19E-05 GO term 0.111111
REGULATION_OF_PEPTIDYL_TYROSINE_PHOSPHORYLATION 2 18
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
C na
module_245 ancerModules 3.25E-04 0.01667 0.12 3 25
CanonicalPathway 0.00102 0.033949 0.222222 9
FLUMAZENILPATHWAYFlumazenil is a benzodiazepine receptor antagonist that2may induce protective preconditioning in isch
C na
module_155 ancerModules 3.25E-04 0.01667 0.12 3 25
GNF2_MKI67 na
CancerGeneNeighborhood 3.66E-04 0.016939 0.115385 3 26
GOBiologicalProcess
Genes annotated by the GO term 0.2 2 10
CHROMOSOME_CONDENSATION 0.001271 0.040172 GO:0030261. The progressive compaction of dispersed interphase ch
na
GNF2_FEN1CancerGeneNeighborhood 7.35E-06 0.001743 0.1 5 50
na
GNF2_TTK CancerGeneNeighborhood 3.73E-05 0.005438 0.114286 4 35
GNF2_H2AFX na
CancerGeneNeighborhood 1.50E-05 0.002846 0.142857 4 28
CancerGeneNeighborhood
GNF2_SMC2L1 na 1.99E-05 0.003434 0.133333 4 30
C na
GNF2_RRM2ancerGeneNeighborhood 4.66E-05 0.005527 0.108108 4 37
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations
Oligodendroglia/myelination
2.63E-05 0.005524 0.125 2 16
ASTON_OLIGODENDROGLIA_MYELINATION_SUBSETrelated genes which are downregulated in major depressive disorder (p 0.30)
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GOCellularComponent 0.003312 0.013299 GO:0043596. The Y-shaped region of a nuclear replicating DNA mole
Genes annotated by the GO term
NUCLEAR_REPLICATION_FORK 0.1 1 10
ChemicalGeneticPerturbations
Cell cycle- and proliferation-related 0.111111
UNDERHILL_PROLIFERATION 2 18
1.40E-05 2.35E-04 genes underexpressed in plasma cells.
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations cancer cell lines reistant to cisplatin, compared to parent chemosensitive lines
CIS_RESIST_GASTRIC_UP 2.32E-05
Upregulated in gastric 0.039776 0.214286 3 14
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations
Genes highly0.001547 in hepatocellular carcinoma sensitive to 5-Fluorouracil + interferon.
expressed 0.008508 0.142857
KUROKAWA_5FU_IFN_SENSITIVE_VS_RESISTANT_UP 1 7
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GOMolecularFunction 3.83E-06 GO term 0.363636
Genes 4 11
GABA_RECEPTOR_ACTIVITY annotated by the 0.002678 GO:0016917. Combining with gamma-aminobutyric acid (GABA, 4-am
Genes annotated by the GO term 0.148148 4 27
SYNAPSE GOCellularComponent 1.78E-04 0.034011 GO:0045202. The junction between a nerve fiber of one neuron and
GOCellularComponent 3.11E-04 0.046658 GO:0044456. The junction between a nerve fiber of one neuron and
SYNAPSE_PART Genes annotated by the GO term 0.230769 3 13
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GOBiologicalProcess
Genes annotated by the 0.039023 GO:0031570. Any cell3
DNA_INTEGRITY_CHECKPOINT 1.64E-04 GO term 0.125 24
cycle checkpoint that delays or arrests cell cyc
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GNF2_MKI67 na
CancerGeneNeighborhood 2.63E-08 6.90E-06 0.115385 3 26
C na
module_315 ancerModules 6.41E-06 1.12E-04 0.133333 2 15
ChemicalGeneticPerturbationsDAC treatment in LD419 fibroblast cells
DAC_FIBRO_DN 0.002761 0.012261
Downregulated by 0.1 1 10
ChemicalGeneticPerturbations
MIDDLEAGE_DN 5.55E-06 1.04E-04 0.142857 2 14
Downregulated in fibroblasts from middle-age individuals, compared to young
GOBiologicalProcess
Genes annotated by the 0.012261
0.002761 GO term 0.1 1 10
MITOTIC_SPINDLE_ORGANIZATION_AND_BIOGENESIS GO:0007052. A process that is carried out at the cellular level which
GOCellularComponent 8.30E-06 GO term GO:0000922. Either of the ends 17 a spindle, where spindle microtub
SPINDLE_POLE Genes annotated by the 1.36E-04 0.117647 2 of
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations cancer cell lines reistant to doxorubicin, compared to parent chemosensitive lin
DOX_RESIST_GASTRIC_UP 1.14E-10
Upregulated in gastric 3.12E-08 0.1 4 40
CanonicalPathway
SRCRPTPPATHWAY Src by Protein-tyrosine 0.1
Activation of0.002761 0.012655 phosphatase alpha1 10
CanonicalPathwayactivates the cdc2/cyclin B complex to induce the G2/M transition.
SA_G2_AND_M_PHASES Cdc25 0.002209 0.011047 0.125 1 8
CanonicalPathway
CDC25PATHWAY 0.002485 0.011783 0.111111 1 9
The protein phosphatase Cdc25 is phosphorylated by Chk1 and activates Cdc2 to stimulate eukaryotic
CanonicalPathway
PTC1PATHWAY 0.002761 0.012655 0.1 1 10
The binding of extracellular signaling protein Sonic hedgehog to the Patched receptor (Ptc1) allows pro
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
na
module_0 CancerModules 0.001381 0.043373 0.2 1 5
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
na
GNF2_LYN CancerGeneNeighborhood 1.05E-08 8.64E-07 0.115385 3 26
CanonicalPathway expression by T cells induces apoptosis in Fas-expressing, inactive B cells.
BBCELLPATHWAY Fas ligand 2.20E-07 6.01E-06 0.5 2 4
CanonicalPathwayrequire interaction with helper T cells to produce2antigen-specific immunoglobulins as a key ele
ASBCELLPATHWAY B cells 1.03E-06 1.40E-05 0.25 8
IL5PATHWAY Pro-inflammatory IL-5 is secretes by activated T cells, eosinophils, 10 mast cells, and stimulates the p
CanonicalPathway 1.65E-06 1.50E-05 0.2 2 and
CanonicalPathway T subtype Th1 produces pro-inflammatory cytokines that stimulate phagocytosis, while Th2 cel
TH1TH2PATHWAY Helper 4.98E-06 3.14E-05 0.117647 2 17
CanonicalPathway
TCRAPATHWAY 2.02E-06 1.50E-05 0.181818 T 11
The kinases Lck and Fyn phosphorylate and activate the2 cell receptor, which recognizes antigen-boun
CanonicalPathway
CTLA4PATHWAY 5.60E-06 interaction with an antigen-MHC-I complex on an antigen-presenting cell (AP
T cell activation requires 3.28E-05 0.111111 2 18
CanonicalPathway
B 1.65E-06 histocompatibility complex (class II MHC), immunoglobulins, adhesion protei
BLYMPHOCYTEPATHWAYcells express the major1.50E-05 0.2 2 10
CanonicalPathway
EOSINOPHILSPATHWAY 1.03E-06 1.40E-05 0.25 2 in
Recruitment of eosinophils in the inflammatory response observed8 asthma occurs via the chemoatt
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GenMAPP
NUCLEOTIDE_GPCRS na 0.002485 0.03529 0.111111 1 9
C na
module_454 ancerModules 0.002761 0.035643 0.1 1 10
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
chr15q12 Positional na 6.63E-04 0.020559 0.333333 1 3
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations
LIZUKA_L1_SM_G1 expressed 0.018735 0.111111 1 9
Genes highly0.002485 in well differentiated hepatocellular carcinoma vs. non-tumor liver with hepat
chr16q11 Positional na 0.001105 0.009418 0.25 1 4
GOBiologicalProcess
Genes annotated by the 0.019327
0.002761 GO term 0.1 1 10
MITOTIC_SPINDLE_ORGANIZATION_AND_BIOGENESIS GO:0007052. A process that is carried out at the cellular level which
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations intermediate timepoints (12-16 hrs) 2
P21_MIDDLE_DN 5.55E-06 3.28E-04 0.142857
Down-regulated at 14
follwing ectopic expression of p21 (CDKN1A) in
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
C na
module_513 ancerModules 0.001768 0.045767 0.125 1 8
GOBiologicalProcess
Genes annotated by the 0.045767 GO:0050679.
0.001768 GO term 1 8
POSITIVE_REGULATION_OF_EPITHELIAL_CELL_PROLIFERATION0.125 Any process that activates or increases the rate or exte
MKK6EE_UP Upregulated 0.002209 0.039599
by expression of constitutively active MKK6
ChemicalGeneticPerturbations 0.1 1 10
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
na
module_21CancerModules 0.002209 0.013993 0.1 1 10
chr16q11 Positional na 8.84E-04 0.006461 0.25 1 4
ChemicalGeneticPerturbations
Genes involved with
1.65E-06 6.27E-05 0.2 2 10
FERRANDO_CHEMO_RESPONSE_PATHWAY chemotherapy response and drug targets which are upregulated in samples posit
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
na
module_21CancerModules 0.002209 0.014775 0.1 1 10
ChemicalGeneticPerturbationsDAC treatment in LD419 fibroblast cells
DAC_FIBRO_DN 0.002209 0.014775
Downregulated by 0.1 1 10
ChemicalGeneticPerturbations
Genes involved with
0.002209 0.014775 0.1 1 10
FERRANDO_CHEMO_RESPONSE_PATHWAY chemotherapy response and drug targets which are upregulated in samples posit
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
CanonicalPathway a benzodiazepine receptor antagonist that3may induce protective preconditioning in isch
FLUMAZENILPATHWAYFlumazenil is 2.46E-06 0.001455 0.333333 9
CanonicalPathway
GABAPATHWAY 6.39E-06 0.001514 0.25 3 12
Gamma-aminobutyric acid (GABA) is an inhibitory neurotransmitter whose receptor is regulated by Pli
GOMolecularFunction 0.001287 0.031093 GO:0015179. Catalysis of the transfer of an L-amino acid from one si
Genes annotated by the GO term 0.117647
L_AMINO_ACID_TRANSMEMBRANE_TRANSPORTER_ACTIVITY 2 17
ICF_DN Downregulated in B-cells from ICF syndrome (DNMT3B)2compared to normals
5.27E-04 0.017324 0.181818
ChemicalGeneticPerturbations 11
C na
module_214 ancerModules 8.22E-05 0.004232 0.111111 3 27
C na
module_141 ancerModules 1.61E-05 0.002728 0.1875 3 16
C na
module_215 ancerModules 1.31E-05 0.002592 0.2 3 15
GOMolecularFunction 5.27E-04 GO term 0.181818
Genes 2 11
GABA_RECEPTOR_ACTIVITY annotated by the 0.017324 GO:0016917. Combining with gamma-aminobutyric acid (GABA, 4-am
C na
module_396 ancerModules 6.31E-04 0.019655 0.166667 2 12
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
CanonicalPathway of Neurotransmitter Relase by Botulinum Toxin
BOTULINPATHWAY Blockade 0.001105 0.04509 0.2 1 5
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
CanonicalPathwaya transcription factor that promotes the G1/S transition, is repressed by Rb and activated by cd
SKP2E2FPATHWAY E2F-1, 0.001989 0.015966 0.111111 1 9
GOBiologicalProcess
Genes annotated by the 0.017246
0.002209 GO term 0.1 1 10
MITOTIC_SPINDLE_ORGANIZATION_AND_BIOGENESIS GO:0007052. A process that is carried out at the cellular level which
CanonicalPathwayE interacts with cell0.01461
FBW7PATHWAY Cyclin 0.001768 0.125 to 8
cycle checkpoint kinase cdk2 1 allow transcription of genes required for S p
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbationsDAC treatment in LD419 fibroblast cells
DAC_FIBRO_DN 0.002209 0.014692
Downregulated by 0.1 1 10
ChemicalGeneticPerturbations late timepoints (20-24 hrs) following1ectopic expression of p21 (CDKN1A) in OvCa c
P21_P53_LATE_DN 0.001989 0.013563 0.111111
Down-regulated at 9
ChemicalGeneticPerturbations
Genes involved with
0.002209 0.014692 0.1 1 10
FERRANDO_CHEMO_RESPONSE_PATHWAY chemotherapy response and drug targets which are upregulated in samples posit
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GOMolecularFunction 5.22E-05 0.02047
Genes annotated by 0.12 3 25
AUXILIARY_TRANSPORT_PROTEIN_ACTIVITYthe GO term GO:0015457. Facilitates transport across one or more biological mem
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
CanonicalPathway
NOS1PATHWAY 0.001298 0.028379 0.111111 2 18
Glutamate stimulates NMDA-mediates calcium influx, which promotes nitric oxide synthesis from argi
GOMolecularFunction 4.73E-04 GO term 0.181818
Genes annotated by 2 11
CATION_TRANSPORTING_ATPASE_ACTIVITYthe 0.014217 GO:0019829. Catalysis of the transfer of a solute or solutes from one
ATMPATHWAY The tumor-suppressing protein kinase ATM responds to2radiation-induced DNA damage by blocking ce
CanonicalPathway 0.001448 0.03047 0.105263 19
CK1PATHWAY Caseine 0.001022 0.023895 0.125 2 16
CanonicalPathway kinase 1 (CK1) and cdk5 phosphorylate DARPP32 in the dopamine signaling pathway.
GNF2_AF1Q na
CancerGeneNeighborhood 0.001605 0.032967 0.1 2 20
CanonicalPathway erythropoietin (Epo) 0.181818 2 11
EPONFKBPATHWAY The cytokine 4.73E-04 0.014217 prevents stress-induced neuronal apoptosis by stimulating anti-apop
Genes annotated by the GO term 0.125 2 16
DENDRITE GOCellularComponent 0.001022 0.023895 GO:0030425. A branching protoplasmic process of a neuron that rec
C na
module_563 ancerModules 8.96E-04 0.022512 0.133333 2 15
GOMolecularFunction 0.001448 GO term GO:0019198. The catalysis of phosphate removal from a phosphotyr
Genes annotated by the 0.03047 0.105263
TRANSMEMBRANE_RECEPTOR_PROTEIN_PHOSPHATASE_ACTIVITY 2 19
ChemicalGeneticPerturbations
UVC_TTD_8HR_UP at 8 hours following 0.1 2 20
Up-regulated0.001605 0.032967 treatment of XPB/TTD fibroblasts with 3 J/m^2 UVC
GOMolecularFunction 4.73E-04 0.014217 GO:0015085. Catalysis of the transfer of calcium (Ca) ions from one
Genes annotated by the GO term 0.181818
CALCIUM_ION_TRANSMEMBRANE_TRANSPORTER_ACTIVITY 2 11
C na
GNF2_MAPTancerGeneNeighborhood 4.85E-06 5.84E-04 0.105263 4 38
GOMolecularFunction 0.001605 0.032967 GO:0015662. Catalysis of the transfer of a solute or solutes
Genes annotated by the GO term 0.1 2 20
ATPASE_ACTIVITY__COUPLED_TO_TRANSMEMBRANE_MOVEMENT_OF_IONS__PHOSPHORYLATIVE_MECHANISM from one
GNF2_DNM1 na
CancerGeneNeighborhood 1.31E-09 3.67E-07 0.101449 7 69
CancerGeneNeighborhood
GNF2_TM4SF2 na 4.98E-07 8.39E-05 0.181818 4 22
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations light in normal human epidermal keratinocytes, cluster 3
UVB_NHEK3_C3 UV-B
Regulated by 6.03E-04 0.035055 0.117647 2 17
ChemicalGeneticPerturbations
SCHURINGA_STAT5A_DN 6.03E-04 0.035055 0.117647 2 17
Differential Gene Expression in CB CD34 Cells Expressing STAT5A(1*6) Down-Regulated
GOCellularComponent 6.78E-04 GO term 0.111111 2 18
REPLICATION_FORK Genes annotated by the 0.030631 GO:0005657. The Y-shaped region of a replicating DNA molecule, res
ChemicalGeneticPerturbations
LAMB_CYCLIN_D3_GLOCUS 4.67E-04 0.031661 0.133333 2 15
E2F target genes highly correlated with cyclin D3 expression (p = 0.002)
T na
V$STAT3_01 ransfacTargets 5.33E-04 0.032521 0.125 2 16
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
CanonicalPathway a benzodiazepine receptor antagonist that2may induce protective preconditioning in isch
FLUMAZENILPATHWAYFlumazenil is 1.53E-04 0.048115 0.222222 9
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations
MUNSHI_MM_VS_PCS_DN 1.55E-04 0.031347 0.181818 2 twin
Selected down-regulated genes in patient MM cells versus normal11 PCs
C na
module_513 ancerModules 7.91E-05 0.021346 0.25 2 8
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GOBiologicalProcess 4.17E-04 GO term 0.105263 2 19
CELL_RECOGNITION Genes annotated by the 0.035737 GO:0008037. The process by which a cell in a multicellular organism
chr3p26 Positional na 4.17E-04 0.035737 0.105263 2 19
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GNF2_RTN1 na
CancerGeneNeighborhood 1.50E-07 4.14E-05 0.155556 7 45
GOMolecularFunction 3.78E-04 0.02534 0.105263
Genes annotated by the 4 38
PHOSPHORIC_DIESTER_HYDROLASE_ACTIVITY GO term GO:0008081. Catalysis of the hydrolysis of a phosphodiester to give
GOMolecularFunction 1.96E-04 0.017981 GO:0004114. Catalysis of the reaction: nucleoside 3',5'-cyclic phosph
Genes annotated by the GO term 0.230769
3__5__CYCLIC_NUCLEOTIDE_PHOSPHODIESTERASE_ACTIVITY 3 13
na
V$AHR_01 TransfacTargets 8.78E-05 0.010369 0.1 5 50
ChemicalGeneticPerturbations in 0.039712 0.136364
Genes upregulated 3 22
CROONQUIST_RAS_STROMA_UP 9.92E-04multiple myeloma cells with N-ras-activating mutations versus those co-cultured
GOMolecularFunction
Genes annotated by the GO term 0.15 3 20
GLUTAMATE_RECEPTOR_ACTIVITY 7.44E-04 0.034204 GO:0008066. Combining with glutamate to initiate a change in cell a
CanonicalPathway
DAG (diacylglycerol) signaling activity
SA_DIACYLGLYCEROL_SIGNALING 8.38E-05 0.010938 0.3 3 10
CanonicalPathway and 6 bind cyclin D in G1, while cdk2/cyclin E promotes the G1/S transition.
SA_G1_AND_S_PHASES Cdk2, 4, 3.07E-04 0.021776 0.2 3 15
GOMolecularFunction 6.37E-04 0.034358 GO:0015103. Catalysis of the transfer of inorganic anions from one s
Genes annotated by the GO term 0.157895
INORGANIC_ANION_TRANSMEMBRANE_TRANSPORTER_ACTIVITY 3 19
GNF2_RAB3A na
CancerGeneNeighborhood 2.44E-04 0.019545 0.117647 4 34
GOMolecularFunction 8.38E-05 0.010938 GO:0008067.
Genes annotated by the GO term 0.3 3 10
METABOTROPIC_GLUTAMATE__GABA_B_LIKE_RECEPTOR_ACTIVITY A G-protein coupled receptor that is structurally/funct
GOMolecularFunction 2.47E-04 0.019181 0.214286
Genes annotated by the GO term 3 14
CYCLIC_NUCLEOTIDE_PHOSPHODIESTERASE_ACTIVITY GO:0004112. Catalysis of the reaction: a nucleoside cyclic phosphate
C na
GNF2_MAPTancerGeneNeighborhood 4.41E-08 1.56E-05 0.184211 7 38
GOBiologicalProcess
Genes annotated by the GO term
1.52E-04 0.25 3 12
GLYCOSPHINGOLIPID_METABOLIC_PROCESS 0.015038 GO:0006687. The chemical reactions and pathways involving glycosp
GOBiologicalProcess
Genes annotated by the GO term 0.1875 3 16
GLYCOLIPID_METABOLIC_PROCESS 3.76E-04 0.025883 GO:0006664. The chemical reactions and pathways involving glycolip
CancerGeneNeighborhood
GNF2_TM4SF2 na 1.34E-06 3.02E-04 0.227273 5 22
GNF2_DNM1 na
CancerGeneNeighborhood 6.42E-11 1.59E-07 0.15942 11 69
chr3p26 Positional na 6.37E-04 0.034358 0.157895 3 19
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GOMolecularFunction
Genes annotated by the GO term 0.181818 2 11
SEROTONIN_RECEPTOR_ACTIVITY 8.44E-05 0.021154 GO:0004993. Combining with the biogenic amine serotonin, a neuro
C na
module_513 ancerModules 4.31E-05 0.021589 0.25 2 8
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
C na
module_470 ancerModules 2.40E-04 0.028952 0.133333 2 15
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GOBiologicalProcess
Genes annotated by the 0.044697 GO:0051494. Any process
7.11E-05 GO term 0.222222 2 9
NEGATIVE_REGULATION_OF_CYTOSKELETON_ORGANIZATION_AND_BIOGENESIS that stops, prevents or reduces the freque
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GOMolecularFunction 1.30E-04 0.013816 0.166667
Genes annotated by the GO term
INWARD_RECTIFIER_POTASSIUM_CHANNEL_ACTIVITY GO:0005242. 2 12
CanonicalPathway functions as a second messenger activating the2
CACAMPATHWAY Calcium 1.30E-04 0.013816 0.166667 12
calcium/calmodulin-dependent kinases, which
GNF2_CDH11 na
CancerGeneNeighborhood 5.94E-06 0.00568 0.12 3 25
na
GNF2_JAK1CancerGeneNeighborhood 8.43E-06 0.004033 0.107143 3 28
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations
Oligodendroglia/myelination
1.62E-09 4.94E-07 0.25 4 16
ASTON_OLIGODENDROGLIA_MYELINATION_SUBSETrelated genes which are downregulated in major depressive disorder (p 0.30)
GOCellularComponent 0.013191 0.044018 GO:0043596. The Y-shaped region of a nuclear replicating DNA mole
Genes annotated by the GO term
NUCLEAR_REPLICATION_FORK 0.1 1 10
CanonicalPathway
SRCRPTPPATHWAY Src by Protein-tyrosine 0.2
Activation of 7.54E-05 5.74E-04 phosphatase alpha2 10
CanonicalPathwayactivates the cdc2/cyclin B complex to induce the G2/M transition.
SA_G2_AND_M_PHASES Cdc25 0.010566 0.036918 0.125 1 8
GNF2_PCNA na
CancerGeneNeighborhood 5.10E-11 2.76E-09 0.129032 8 62
P21_ANY_DN Down-regulated at
1.08E-07 1.60E-06 0.117647 4 34
ChemicalGeneticPerturbations any timepoint (4-24 hrs) follwing ectopic expression of p21 (CDKN1A) in OvCa cells
GOBiologicalProcess
Genes annotated by the GO term 0.1 1 10
CHROMOSOME_CONDENSATION 0.013191 0.044018 GO:0030261. The progressive compaction of dispersed interphase ch
ChemicalGeneticPerturbations
MIDDLEAGE_DN 1.52E-04 9.92E-04 0.142857 2 14
Downregulated in fibroblasts from middle-age individuals, compared to young
ChemicalGeneticPerturbations in both ITTP and DP more than 3-fold, with average signal value differences of at
LEE_TCELLS3_UP 1.46E-11 8.70E-09 0.115789
Transcripts enriched 11 95
CancerGeneNeighborhood
GNF2_SMC2L1 na 5.30E-11 2.10E-09 0.2 6 30
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
C na
module_400 ancerModules 1.77E-04 0.010267 0.105263 2 19
ChemicalGeneticPerturbations
differentially expressed in metastatic (T24T) and nonmetastatic (T24) human bladder can
GILDEA_BLADDER_UP Top 30 genes3.16E-06 8.58E-04 0.107143 3 28
GNF2_CDH11 na
CancerGeneNeighborhood 2.23E-06 9.05E-04 0.12 3 25
C na
module_513 ancerModules 2.92E-05 0.003386 0.25 2 8
ChemicalGeneticPerturbations
TGFBETA_C2_UP 1.58E-04 0.010724 of skin fibroblasts, cluster 2 18
Upregulated by TGF-beta treatment0.111111 2
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations cancer cell lines reistant to doxorubicin, compared to parent chemosensitive lin
DOX_RESIST_GASTRIC_UP 3.66E-08
Upregulated in gastric 1.97E-06 0.1 4 40
GOCellularComponent 0.008811 0.044583 GO:0043596. The Y-shaped region of a nuclear replicating DNA mole
Genes annotated by the GO term
NUCLEAR_REPLICATION_FORK 0.1 1 10
CanonicalPathway
SRCRPTPPATHWAY Src by Protein-tyrosine 0.1
Activation of0.008811 0.044583 phosphatase alpha1 10
GNF2_MKI67 na
CancerGeneNeighborhood 1.46E-06 4.79E-05 0.115385 3 26
ChemicalGeneticPerturbationsDAC treatment in LD419 fibroblast cells
DAC_FIBRO_DN 6.79E-08 3.09E-06
Downregulated by 0.3 3 10
C na
GNF2_ESPL1 ancerGeneNeighborhood 2.11E-08 1.38E-06 0.114286 4 35
GOBiologicalProcess
Genes annotated by the 0.044583
0.008811 GO term 0.1 1 10
MITOTIC_SPINDLE_ORGANIZATION_AND_BIOGENESIS GO:0007052. A process that is carried out at the cellular level which
ChemicalGeneticPerturbations
LAMB_CYCLIN_D3_GLOCUS 7.65E-05 9.24E-04 0.133333 2 15
E2F target genes highly correlated with cyclin D3 expression (p = 0.002)
CanonicalPathway
PTC1PATHWAY 0.008811 0.044583 0.1 1 10
The binding of extracellular signaling protein Sonic hedgehog to the Patched receptor (Ptc1) allows pro
GNF2_MCM4 na
CancerGeneNeighborhood 6.18E-10 9.14E-08 0.1 5 50
C na
GNF2_RRM2ancerGeneNeighborhood 2.65E-08 1.57E-06 0.108108 4 37
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
na
module_0 CancerModules 0.00469 0.032915 0.2 1 5
C na
module_283 ancerModules 0.00656 0.040285 0.142857 1 7
ChemicalGeneticPerturbations
Genes involved with
3.72E-05 0.001219 0.2 2 10
FERRANDO_CHEMO_RESPONSE_PATHWAY chemotherapy response and drug targets which are upregulated in samples posit
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
C na
module_538 ancerModules 1.79E-05 0.004112 0.25 2 8
C na
module_450 ancerModules 2.30E-05 0.003523 0.222222 2 9
C na
module_376 ancerModules 1.34E-05 0.00617 0.285714 2 7
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GNF2_CDC2 na
CancerGeneNeighborhood 8.73E-11 3.83E-09 0.127273 7 55
ChemicalGeneticPerturbations upregulated by E2F1 induction 2
E2F1_DNA_UP 4.01E-05
DNA replication genes 3.16E-04 0.181818 11
C na
module_315 ancerModules 7.65E-05 5.73E-04 0.133333 2 15
na
GNF2_CKS2CancerGeneNeighborhood 3.91E-10 1.14E-08 0.108696 5 46
C na
GNF2_CKS1BancerGeneNeighborhood 4.63E-11 3.16E-09 0.222222 8 36
ChemicalGeneticPerturbations
Genes 9.94E-07 multiple 0.130435 3 23
CROONQUIST_IL6_RAS_DN dowmregulated in1.15E-05 myeloma cells exposed to the pro-proliferative cytokine IL-6 versus
GNF2_CDC20 na
CancerGeneNeighborhood 4.33E-11 3.80E-09 0.137255 7 51
GNF2_CCNB2 na
CancerGeneNeighborhood 3.87E-11 3.96E-09 0.134615 7 52
na
GNF2_RFC3CancerGeneNeighborhood 1.78E-10 6.06E-09 0.128205 5 39
C na
GNF2_ESPL1 ancerGeneNeighborhood 4.54E-11 3.49E-09 0.171429 6 35
GNF2_H2AFX na
CancerGeneNeighborhood 1.83E-06 2.01E-05 0.107143 3 28
ChemicalGeneticPerturbations
Sixty-nine genes commonly upregulated in undifferentiated cancer relative to well-differentiated canc
CANCER_UNDIFFERENTIATED_META_UP 3.54E-11 4.35E-09 0.106061 7 66
ChemicalGeneticPerturbations
4.82E-05 timepoints (4-8 hrs) 2 12
P21_P53_EARLY_DN Down-regulated at early 3.74E-04 0.166667 following ectopic expression of p21 (CDKN1A) in OvCa ce
GOCellularComponent 0.007933 0.033364 GO:0030530. Particulate complex of heterogeneous nuclear RNA (hn
Genes annotated by the GO term 0.111111
HETEROGENEOUS_NUCLEAR_RIBONUCLEOPROTEIN_COMPLEX 1 9
C na
GNF2_RRM2ancerGeneNeighborhood 1.68E-10 6.46E-09 0.135135 5 37
GNF2_MKI67 na
CancerGeneNeighborhood 6.07E-09 1.24E-07 0.153846 4 26
GNF2_CENPF na
CancerGeneNeighborhood 8.73E-11 3.83E-09 0.127273 7 55
GNF2_CENPE na
CancerGeneNeighborhood 1.68E-10 6.46E-09 0.135135 5 37
C na
module_283 ancerModules 0.006176 0.026703 0.142857 1 7
ChemicalGeneticPerturbationsDAC treatment in LD419 fibroblast cells
DAC_FIBRO_DN 3.29E-05 2.62E-04
Downregulated by 0.2 2 10
ChemicalGeneticPerturbationsH2O2, Menadione and t-BH in breast cancer cells
OXSTRESS_BREASTCA_DN 2.63E-05 2.13E-04 0.222222
Downregulated by 2 9
GNF2_CCNA2 na
CancerGeneNeighborhood 5.58E-11 2.86E-09 0.112903 7 62
GNF2_HMMR na
CancerGeneNeighborhood 3.27E-10 1.00E-08 0.113636 5 44
ChemicalGeneticPerturbations
50 top ranked SAM-defined over-expressed genes in each subgroup
ZHAN_MM_CD138_PR_VS_REST 2.96E-08 5.35E-07 0.105263 4 38
C na
module_467 ancerModules 0.006176 0.026703 0.142857 1 7
ChemicalGeneticPerturbations late timepoints (20-24 hrs) following1ectopic expression of p21 (CDKN1A) in OvCa c
P21_P53_LATE_DN 0.007933 0.033364 0.111111
Down-regulated at 9
ChemicalGeneticPerturbations
MIDDLEAGE_DN 2.05E-07 3.00E-06 0.214286 3 14
Downregulated in fibroblasts from middle-age individuals, compared to young
CancerGeneNeighborhood
GNF2_SMC2L1 na 1.11E-08 2.13E-07 0.133333 4 30
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
microRNATargets
CTACTAG,MIR-325 na 6.70E-05 0.037162 0.133333 2 15
CanonicalPathway 1.09E-04 0.030202 0.105263 2 19
P53HYPOXIAPATHWAYHypoxia induces p53 accumulation and consequent apoptosis with p53-mediated cell cycle arrest, whi
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
na
module_0 CancerModules 0.004139 0.039323 0.2 1 5
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations genes of murine transcription factor Hoxc8.
LEI_HOXC8_DN 5.81E-05
Downregulated target 0.02839 0.133333 2 15
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
CanonicalPathway
NDKDYNAMINPATHWAY 6.63E-05 Phosphins Dynamin
Endocytotic role of NDK,0.018106 and0.125 2 16
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations pediatric acute myeloid leukemia (AML) subtype inv(16)[CBF-beta-MYH11].
ROSS_CBF_MYH 8.25E-07
Genes that distinguish 1.35E-04 0.117647 6 51
ChemicalGeneticPerturbations
Effect of 8.96E-04 0.02547 0.1 3
TAKEDA_NUP8_HOXA9_3D_DN NUP98-HOXA9 on gene transcription at 3 d after transduction Down 30
KEGG
HSA05060_PRION_DISEASEna 5.28E-05 0.003629 0.25 3 12
KEGG na
HSA04512_ECM_RECEPTOR_INTERACTION 3.72E-09 1.32E-06 0.104651 9 86
C na
module_540 ancerModules 0.001744 0.036788 0.2 2 10
microRNATargets
GGATCCG,MIR-127 na 0.001094 0.029887 0.25 2 8
PMLPATHWAY Ring-shaped 0.002985 0.046768 0.153846
CanonicalPathway 2 13
PML nuclear bodies regulate transcription and are required co-activators in p53- and DAX
ChemicalGeneticPerturbations
0.001744 0.036788
CIS_RESIST_LUNG_UP Transient up-regulation is associated with 0.2 2 10
transient cisplatin resistance in a human squamous cell lung
C na
module_513 ancerModules 1.06E-07 2.52E-05 0.5 4 8
MKK6EE_UP Upregulated 0.001744 0.036788
by expression of constitutively active MKK6
ChemicalGeneticPerturbations 0.2 2 10
CanonicalPathway C (ascorbic acid), in addition to its role in collagen modification, serves as an antioxidant and i
VITCBPATHWAY Vitamin 0.002122 0.038003 0.181818 2 11
ChemicalGeneticPerturbations p53 status 4 hours after DNA-damaging treatments (more strongly up-regulated
STRESS_P53_SPECIFIC_UP 0.002985
Genes discriminating 0.046768 0.153846 2 13
Genes annotated by the GO term 0.130435
COLLAGEN GOCellularComponent 4.04E-04 0.016239 GO:0005581. Any of the various23 3 assemblies in which collagen chains
na
GNF2_PTX3CancerGeneNeighborhood 2.48E-09 1.32E-06 0.194444 7 36
ChemicalGeneticPerturbations
2.38E-04 0.011813 0.5 2
CHEOK_HDMTX_UP Genes upregulated by high-dose methotrexate (HDMTX) treatment4(P < 0.01; LDA disntinction calculat
ChemicalGeneticPerturbations primary human adipocytes, versus preadipocytes
ADIP_HUMAN_DN 5.20E-04 0.018155
Down-regulated in 0.12 3 25
GOBiologicalProcess
Genes annotated by the GO term GO:0043062.
8.96E-04 0.02547 3 30
EXTRACELLULAR_STRUCTURE_ORGANIZATION_AND_BIOGENESIS0.1 A process that is carried out at the cellular level which
GNF2_CDH11 na
CancerGeneNeighborhood 1.67E-10 1.78E-07 0.28 7 25
GOMolecularFunction 6.55E-04 0.020521 0.111111
Genes annotated by the GO term 3 27
EXTRACELLULAR_MATRIX_STRUCTURAL_CONSTITUENT GO:0005201. The action of a molecule that contributes to the struct
ACE2PATHWAY Angiotensin-converting enzyme 2 (ACE2) digests the blood-pressure regulator angiotensin II (AGT) ulti
CanonicalPathway 0.002536 0.042222 0.166667 2 12
GOBiologicalProcess
Genes annotated by the 0.029887 GO:0050679.
0.001094 GO term 2 8
POSITIVE_REGULATION_OF_EPITHELIAL_CELL_PROLIFERATION 0.25 Any process that activates or increases the rate or exte
GOMolecularFunction 0.002122 0.038003 GO:0032934. Interacting selectively with a sterol, any steroid contai
STEROL_BINDING Genes annotated by the GO term 0.181818 2 11
ChemicalGeneticPerturbations
Up-regulated 2.64E-04 following
at 4 0.15 3 20
BLEO_HUMAN_LYMPH_HIGH_4HRS_UP hours 0.011953 treatment of human lymphocytes (TK6) with a high dose of bleomyc
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations
Oligodendroglia/myelination
4.22E-10 1.16E-07 0.25 4 16
ASTON_OLIGODENDROGLIA_MYELINATION_SUBSETrelated genes which are downregulated in major depressive disorder (p <
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GOBiologicalProcess
Genes annotated by the 8.58E-04 0.107143 3 28
RESPONSE_TO_NUTRIENT_LEVELS 1.19E-06 GO term GO:0031667. A change in state or activity of a cell or an organism (in
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
C na
module_388 ancerModules 7.51E-05 0.042149 0.117647 2 17
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GenMAPP na
COMPLEMENT_ACTIVATION_CLASSICAL 3.65E-05 4.90E-04 0.142857 2 14
KEGG na
HSA05010_ALZHEIMERS_DISEASE 7.24E-07 1.71E-05 0.107143 3 28
ChemicalGeneticPerturbations
Top 2.65E-05 3.81E-04 0.166667 2 12
SARCOMAS_SYNOVIAL_DN 20 negative significant genes associated with synovial sarcomas, versus other soft-tissue tumors.
CanonicalPathway classic and alternative immune complement pathways promote inflammation, foreign cell lys
COMPPATHWAY Both the 4.21E-05 5.47E-04 0.133333 2 15
CanonicalPathway
B 0.005955 interact 0.111111 1 9
LYMPHOCYTEPATHWAY and T cell lymphocytes0.031091with other cells via transmembrane adhesion proteins such as CD44,
CanonicalPathway
CLASSICPATHWAY 2.65E-05 3.81E-04 0.166667 2 12
The classic complement pathway is initiated by antibodies and promotes phagocytosis and lysis of fore
CanonicalPathway
B 0.006615 0.034093 0.1 1 10
BLYMPHOCYTEPATHWAYcells express the major histocompatibility complex (class II MHC), immunoglobulins, adhesion protei
CanonicalPathway 0.005295 0.028382 0.125 1 8
NEUTROPHILPATHWAYNeutrophils are phagocytotic leukocytes that destroy foreign cells with reactive oxygen species or enz
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
C na
module_215 ancerModules 2.88E-05 0.0042 0.133333 2 15
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
CanonicalPathway a benzodiazepine receptor antagonist that3may induce protective preconditioning in isch
FLUMAZENILPATHWAYFlumazenil is 1.15E-05 0.004713 0.333333 9
CanonicalPathway
GABAPATHWAY 2.98E-05 0.008136 0.25 3 12
Gamma-aminobutyric acid (GABA) is an inhibitory neurotransmitter whose receptor is regulated by Pli
C na
module_214 ancerModules 3.74E-04 0.026652 0.111111 3 27
chr5q34 Positional na 2.62E-04 0.022581 0.125 3 24
C na
module_141 ancerModules 1.24E-06 6.75E-04 0.25 4 16
GNF2_MKI67 na
CancerGeneNeighborhood 3.34E-04 0.024862 0.115385 3 26
C na
module_215 ancerModules 9.32E-07 7.63E-04 0.266667 4 15
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
C na
module_381 ancerModules 3.13E-05 0.012032 0.166667 2 12
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
ChemicalGeneticPerturbations
Coregulated 0.00645 0.028431 0.111111 1 9
BYSTRYKH_FLI1_TARGETS_GLOCUS and trans-regulated putative downstream targets of the cis-regulated HSC transcript, Fli1
na
module_21CancerModules 0.007164 0.02804 0.1 1 10
ChemicalGeneticPerturbations upregulated by E2F1 induction 2
E2F1_DNA_UP 2.61E-05
DNA replication genes 3.83E-04 0.181818 11
ChemicalGeneticPerturbationsDAC treatment in LD419 fibroblast cells
DAC_FIBRO_DN 0.007164 0.02804
Downregulated by 0.1 1 10
na
GNF2_FEN1CancerGeneNeighborhood 1.94E-10 8.82E-08 0.1 5 50
ChemicalGeneticPerturbations late timepoints (20-24 hrs) following1ectopic expression of p21 (CDKN1A) in OvCa c
P21_P53_LATE_DN 0.00645 0.028431 0.111111
Down-regulated at 9
ChemicalGeneticPerturbations
Genes involved with
3.47E-08 2.25E-06 0.3 3 10
FERRANDO_CHEMO_RESPONSE_PATHWAY chemotherapy response and drug targets which are upregulated in samples posit
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
GOMolecularFunction 0.006615 0.019161 GO:0048487. Interacting selectively with the microtubule constituen
BETA_TUBULIN_BINDING Genes annotated by the GO term 0.1 1 10
CanonicalPathway
CDC25PATHWAY 0.005955 0.017739 0.111111 1 9
The protein phosphatase Cdc25 is phosphorylated by Chk1 and activates Cdc2 to stimulate eukaryotic
chr16p Positional na 0.002651 0.009052 0.25 1 4
ChemicalGeneticPerturbationsH2O2, Menadione and t-BH in breast cancer cells
OXSTRESS_BREASTCA_DN 0.005955 0.017739 0.111111
Downregulated by 1 9
CanonicalPathway
PTC1PATHWAY 1.81E-05 1.43E-04 0.2 2 10
The binding of extracellular signaling protein Sonic hedgehog to the Patched receptor (Ptc1) allows pro
ChemicalGeneticPerturbations
50 top ranked SAM-defined over-expressed genes in each subgroup
ZHAN_MM_CD138_PR_VS_REST 8.10E-09 3.78E-07 0.105263 4 38
ChemicalGeneticPerturbations cancer cell lines reistant to doxorubicin, compared to parent chemosensitive lin
DOX_RESIST_GASTRIC_UP 7.23E-11
Upregulated in gastric 1.01E-08 0.125 5 40
CanonicalPathway
SRCRPTPPATHWAY Src by Protein-tyrosine 0.2
Activation of 1.81E-05 1.43E-04 phosphatase alpha2 10
CanonicalPathwayactivates the cdc2/cyclin B complex to induce the G2/M transition.
SA_G2_AND_M_PHASES Cdc25 0.005295 0.017375 0.125 1 8
ChemicalGeneticPerturbations
4.49E-09 2.70E-07 0.121212 4 33
GREENBAUM_E2A_UP Table includes transcripts up-regulated 3-fold or greater in the E2A-deficient cell lines
GNF2_H2AFX na
CancerGeneNeighborhood 7.24E-07 1.17E-05 0.107143 3 28
ChemicalGeneticPerturbations
4.89E-08 timepoints hrs) 3 12
P21_P53_EARLY_DN Down-regulated at early 1.28E-06 (4-8 0.25 following ectopic expression of p21 (CDKN1A) in OvCa ce
C na
GNF2_RRM2ancerGeneNeighborhood 7.27E-09 3.82E-07 0.108108 4 37
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
chryq11 Positional na 1.43E-07 1.66E-05 0.1 3 30
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set
Annotation DescriptionOriginal PValue
Gene Set Name Category EnrichmentFlagged Genes In Genes in Set
Adjusted PValue Ratio Total Set