Table 1 Hypoxia associated gene sets* are enriched in BV treated tumors compared with LacZ tumors

ENRICHED GENE SETS FOR N1D+BV TUMORS

ENRICHED GENE SETS FOR LacZ+BV TUMORS

POSITIVELY ENRICHED GENE SETS

ES

NES

FDR q-val

POSITIVELY ENRICHED GENE SETS

ES

NES

FDR q-val

NAME

NAME

NIKOLSKY_BREAST_CANCER_17Q21_Q25_AMPLICON

0.600

2.850

0.000

XU_HGF_TARGETS_REPRESSED_BY_AKT1_DN

0.570

2.420

0.001

XU_HGF_TARGETS_REPRESSED_BY_AKT1_DN

0.640

2.510

0.000

SEMENZA_HIF1_TARGETS

0.660

2.340

0.001

REACTOME_PHASE_1_FUNCTIONALIZATION

0.810

2.260

0.005

SEIDEN_ONCOGENESIS_BY_MET

0.530

2.310

0.001

SEMENZA_HIF1_TARGETS

0.660

2.220

0.005

KEGG_ANTIGEN_PROCESSING_AND_PRESENTATION

0.530

2.300

0.001

KEGG_ANTIGEN_PROCESSING_AND_PRESENTATION

0.540

2.220

0.005

HARRIS_HYPOXIA

0.530

2.290

0.001

CUI_TCF21_TARGETS_DN

0.680

2.170

0.009

PRAMOONJAGO_SOX4_TARGETS_UP

0.580

2.260

0.002

HARRIS_HYPOXIA

0.530

2.140

0.013

HELLER_SILENCED_BY_METHYLATION_DN

0.480

2.160

0.011

NIKOLSKY_BREAST_CANCER_17Q11_Q21_AMPLICON

0.550

2.130

0.012

CUI_TCF21_TARGETS_DN

0.660

2.140

0.013

KEGG_DRUG_METABOLISM_CYTOCHROME_P450

0.560

2.120

0.014

REACTOME_RNA_POLYMERASE_I_PROMOTER_OPENING

0.560

2.140

0.011

KEGG_GRAFT_VERSUS_HOST_DISEASE

0.600

2.090

0.018

LIU_COMMON_CANCER_GENES

0.560

2.100

0.019

DAZARD_RESPONSE_TO_UV_SCC_UP

0.510

2.070

0.026

KEGG_SYSTEMIC_LUPUS_ERYTHEMATOSUS

0.460

2.080

0.022

LANDIS_BREAST_CANCER_PROGRESSION_UP

0.590

2.060

0.028

LEONARD_HYPOXIA

0.580

2.080

0.022

CHANNEL_REGULATOR_ACTIVITY

0.660

2.030

0.038

NOJIMA_SFRP2_TARGETS_UP

0.610

2.070

0.023

REACTOME_SYNTHESIS_OF_BILE_ACIDS_AND_BILE_SALTS

0.840

2.030

0.036

SPIRA_SMOKERS_LUNG_CANCER_DN

0.680

2.040

0.033

CYCLIC_NUCLEOTIDE_METABOLIC_PROCESS

0.840

2.010

0.044

RUNNE_GENDER_EFFECT_UP

0.830

2.020

0.042

SCHURINGA_STAT5A_TARGETS_UP

0.900

2.010

0.042

KEGG_LINOLEIC_ACID_METABOLISM

0.590

2.010

0.046

LU_TUMOR_ENDOTHELIAL_MARKERS_UP

0.700

2.000

0.044

NEBEN_AML_WITH_FLT3_OR_NRAS_DN

0.740

2.000

0.046

EXTRACELLULAR_LIGAND_GATED_ION_CHANNEL_ACTIVITY

0.660

1.990

0.047

LU_TUMOR_ENDOTHELIAL_MARKERS_UP

0.650

2.000

0.044

SEIDEN_ONCOGENESIS_BY_MET

0.500

1.990

0.046

NEGATIVELY ENRICHED GENE SETS

ELVIDGE_HIF1A_TARGETS_DN

0.480

1.980

0.045

NIKOLSKY_BREAST_CANCER_7P22_AMPLICON

-0.820

-2.220

0.001

NEGATIVELY ENRICHED GENE SETS

ENRICHED GENE SETS FOR N1D TUMORS

ELVIDGE_HIF1A_TARGETS_UP

-0.610

-2.180

0.005

POSITIVELY ENRICHED GENE SETS

VANHARANTA_UTERINE_FIBROID_UP

-0.650

-2.180

0.003

NAME

ES

NES

FDR q-val

ELVIDGE_HYPOXIA_DN

-0.520

-2.090

0.016

NIKOLSKY_BREAST_CANCER_17Q11_Q21_AMPLICON

0.640

2.290

0.002

DACOSTA_ERCC3_ALLELE_XPCS_VS_TTD_UP

-0.710

-2.050

0.026

XU_HGF_TARGETS_REPRESSED_BY_AKT1_DN

0.610

2.240

0.004

NIKOLSKY_BREAST_CANCER_7P15_AMPLICON

-0.860

-2.050

0.025

LASTOWSKA_NEUROBLASTOMA_COPY_NUMBER_UP

0.550

2.210

0.003

GUENTHER_GROWTH_SPHERICAL_VS_ADHERENT_UP

-0.760

-2.030

0.029

KEGG_ANTIGEN_PROCESSING_AND_PRESENTATION

0.560

2.140

0.009

ELVIDGE_HIF1A_AND_HIF2A_TARGETS_UP

-0.610

-2.000

0.045

CHANNEL_REGULATOR_ACTIVITY

0.720

2.080

0.020

ELVIDGE_HYPOXIA_BY_DMOG_DN

-­‒0.580

-­‒1.980

0.048

AUXILIARY_TRANSPORT_PROTEIN_ACTIVITY

0.680

2.030

0.036

REACTOME_PHASE_1_FUNCTIONALIZATION

0.760

2.010

0.041

NEGATIVELY ENRICHED GENE SETS

GUENTHER_GROWTH_SPHERICAL_VS_ADHERENT_UP

-0.850

-2.160

0.010

MATTIOLI_MULTIPLE_MYELOMA_SUBGROUPS

-0.810

-2.070

0.040

MCGARVEY_SILENCED_BY_METHYLATION_IN_COLON_CANCE

-0.680

-2.040

0.042

SCHLESINGER_METHYLATED_DE_NOVO_IN_CANCER

-0.570

-2.020

0.041