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Table 5 Classification performance for different cell lines

From: Predicting enhancers with deep convolutional neural networks

Cell Type

AUROC

AUPRC

DeepEnhancer

gkmSVM

DeepEnhancer

gkmSVM

GM12878

0.874

0.784

0.875

0.819

H1-hESC

0.923

0.869

0.919

0.861

HepG2

0.882

0.800

0.883

0.827

HMEC

0.903

0.848

0.907

0.892

HSMM

0.904

0.830

0.910

0.856

HUVEC

0.898

0.824

0.905

0.870

K562

0.883

0.794

0.886

0.799

NHEK

0.888

0.809

0.893

0.840

NHLF

0.909

0.848

0.910

0.869

p-value

1.9e-3

1.9e-3

  1. We compare the performance of our DeepEnhancer model and gkmSVM on 9 cell types using two measures: area under receiver operating characteristic curve (AUROC) and area under precision-recall curve (AUPRC). The last row shows the p-value result of the binomial exact test, which makes us choose the alternative hypothesis that DeepEnhancer has a larger AUC score than gkmSVM