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Table 2 Top 15 gene sets in up-superset #1 in BRCA subtype analysis

From: GSAE: an autoencoder with embedded gene-set nodes for genomics functional characterization

Gene Set Terms

PScore a

gsScore

Weightb

CUI_TCF21_TARGETS_2_UP

81.999

0.980

0.198

PEDERSEN_METASTASIS_BY_ERBB2_ISOFORM_7

92.578

0.927

−0.154

GRADE_COLON_AND_RECTAL_CANCER_UP

68.314

0.427

0.138

DOANE_BREAST_CANCER_ESR1_DN

87.537

0.374

0.066

VANTVEER_BREAST_CANCER_ESR1_DN

80.186

0.366

0.083

HATADA_METHYLATED_IN_LUNG_CANCER_UP

76.111

0.333

−0.103

FARMER_BREAST_CANCER_BASAL_VS_LULMINAL

90.606

0.321

0.079

RICKMAN_TUMOR_DIFFERENTIATED_WELL_VS_MODERATELY_UP

80.636

0.247

−0.113

BOQUEST_STEM_CELL_DN

10.658

0.245

−0.130

BONOME_OVARIAN_CANCER_SURVIVAL_OPTIMAL_DEBULKING

54.414

0.228

−0.100

MOREAUX_MULTIPLE_MYELOMA_BY_TACI_UP

88.073

0.206

−0.059

YANG_BREAST_CANCER_ESR1_DN

71.886

0.194

0.088

DOUGLAS_BMI1_TARGETS_DN

18.273

0.177

−0.127

STEIN_ESRRA_TARGETS_RESPONSIVE_TO_ESTROGEN_UP

84.141

0.174

−0.076

BERNARD_PPAPDC1B_TARGETS_DN

88.410

0.161

−0.073

  1. aThe PScore of gene set Mann Whitney U test with location shift = 0.5
  2. bThe weight in the model corresponding to the connection of a gene set to the corresponding superset