Table 1 Performance of Virtual ChIP-seq for 36 chromatin factors on validation cell types. Each row displays median values ± standard deviation of several performance metrics for prediction of a chromatin factor across 4 chromosomes for each available validation cell type. MCC, Matthews correlation coefficient; auROC, area under the receiver operating characteristic curve; auPR, area under the precision-recall curve; N, number of validation cell types for 36 chromatin factors with MCC>0.3. We reported auROC and auPR across all the validation cell types across all posterior probability cutoffs. Black chromatin factors: we found the posterior probability cutoff which maximized MCC in H1-hESC, and then reported F₁, accuracy, and MCC of the other validation cell types

ATF2

0.270±0.002

0.990±0.001

0.314±0.008

0.917±0.026

0.443±0.022

1

BHLHE40

0.334±0.021

0.997±0.000

0.356±0.010

0.974±0.002

0.382±0.010

1

CEBPB

0.510±0.091

0.992±0.002

0.515±0.072

0.964±0.017

0.534±0.073

3

CHD2

0.399±0.038

0.998±0.000

0.406±0.034

0.950±0.012

0.386±0.046

1

CREB1

0.362±0.131

0.997±0.002

0.371±0.121

0.868±0.135

0.335±0.174

2

CTCF

0.667±0.126

0.995±0.004

0.675±0.092

0.985±0.050

0.841±0.108

6

E2F1

0.256±0.097

0.998±0.002

0.314±0.078

0.978±0.019

0.291±0.105

2

ELF1

0.431±0.047

0.997±0.001

0.456±0.038

0.949±0.042

0.493±0.066

2

ELK1

0.430±0.069

1.000±0.000

0.465±0.054

0.991±0.009

0.420±0.054

2

ESR1

0.372±0.103

0.993±0.006

0.430±0.049

0.883±0.033

0.461±0.019

2

FOS

0.333±0.027

0.997±0.001

0.393±0.020

0.861±0.004

0.394±0.008

1

FOSL1

0.319±0.006

0.994±0.001

0.316±0.006

0.929±0.006

0.272±0.012

1

FOXA1

0.433±0.082

0.997±0.004

0.492±0.072

0.981±0.022

0.568±0.117

3

GABPA

0.298±0.049

0.994±0.002

0.393±0.036

0.986±0.012

0.496±0.036

3

GTF2F1

0.235±0.120

0.996±0.001

0.312±0.070

0.985±0.015

0.191±0.081

2

HCFC1

0.459±0.021

0.999±0.000

0.487±0.024

0.990±0.005

0.515±0.044

2

HDAC2

0.303±0.033

0.986±0.005

0.370±0.018

0.948±0.051

0.281±0.040

2

HSF1

0.350±0.149

1.000±0.000

0.378±0.145

0.999±0.012

0.309±0.240

1

JUN

0.218±0.127

0.998±0.001

0.311±0.153

0.983±0.009

0.456±0.257

2

JUND

0.341±0.163

0.993±0.002

0.386±0.135

0.979±0.019

0.326±0.161

4

MAFK

0.354±0.041

0.997±0.001

0.423±0.028

0.989±0.005

0.513±0.103

3

MAX

0.400±0.045

0.996±0.002

0.444±0.059

0.961±0.012

0.491±0.111

3

MAZ

0.370±0.025

0.997±0.001

0.422±0.019

0.987±0.005

0.493±0.070

2

MXI1

0.394±0.018

0.999±0.000

0.402±0.017

0.993±0.004

0.381±0.025

1

NRF1

0.658±0.042

1.000±0.000

0.664±0.038

0.994±0.014

0.720±0.051

3

RAD21

0.593±0.062

0.996±0.002

0.626±0.056

0.983±0.033

0.740±0.095

3

REST

0.482±0.120

0.999±0.001

0.493±0.091

0.985±0.008

0.567±0.095

3

SIN3A

0.389±0.048

0.998±0.002

0.394±0.029

0.966±0.004

0.411±0.037

3

SMC3

0.733±0.016

0.999±0.000

0.734±0.016

0.998±0.001

0.792±0.018

1

SRF

0.353±0.060

0.998±0.001

0.364±0.070

0.982±0.008

0.365±0.115

2

TAF1

0.378±0.073

0.999±0.001

0.437±0.097

0.987±0.009

0.490±0.168

3

TEAD4

0.344±0.061

0.990±0.002

0.385±0.020

0.967±0.023

0.343±0.019

2

TP53

0.275±0.103

1.000±0.000

0.382±0.086

1.000±0.008

0.660±0.222

1

USF1

0.353±0.047

0.993±0.001

0.382±0.040

0.891±0.012

0.372±0.046

1

USF2

0.410±0.040

0.999±0.000

0.427±0.028

0.982±0.007

0.437±0.032

1

YY1

0.397±0.049

0.996±0.001

0.408±0.058

0.945±0.043

0.417±0.104

2