TFBS analysis results

documentation
This is the results page for the example given on the start page (1:713950CTG>C) with predictions for all transcription factors.
In the yellow boxes, we document the output of ePOSSUM.
Wild-type sequence TTACCAGTCCCCACTCTGATGAGAAAACTGCCC
This lists wild-type and variant sequence plus genomic position (if available).
Variant sequence TTACCAGTCCCCACTCATGAGAAAACTGCCC
Location 1: 713935-713969
output as table
Link to ePOSSUM2's output in plain-text format.

TF

predictions
Matrix source: hPDI
Effect: gain
p Bayes classifier's probability of a gain
ppv positive predictive value for this probability value
wt max binding score in wild-type sequence
mt max binding score in variant sequence
  • Coloured boxes: ePOSSUM2 uses different shades of blue/red to indicate the likelihood of increased/reduced TF binding. Hover the mouse over the box to read more information about the binding scores.
  • White/grey results boxes give a summary of the prediction(s) - only 'likely' predictions with a PPV/NPV > 0.7 are considered. Grey boxes indicate that binding of the TF studied has been reported reported at this position.

BCL11A
hPDI
gain
p 51.9%
ppv 58.0%
wt 0.683
mt 0.683
no definite results
BLC11A has only one model - from hPDI. The binding probability is very slightly increased in the variant sequence (due to rounding the binding scores appear indifferent), leading the Bayes classifier to assume a likelihood of 51.9% for a gain.
This small effect has a positive predictive value of only 58% - given this low PPV, we consider as no definite results in the white box.

BRCA1

known TFBS
JASPAR
gain
p 52.8%
ppv 61.0%
wt 0.744
mt 0.726
no definite results
Grey boxes indicate a known binding site for this transcription factor at the position you entered. This is also pointed out by the known TFBS flag below the name of the TF on the left side.
Please note that this function is of course only available if you entered a genomic position. As the TFBS sites provided by ENCODE are several 100 bases long, there is not necessarily really a binding site for your TF at your exact position!

CEBPB

known TFBS
JASPAR
loss
p 70.0%
npv 80.0%
wt 0.615
mt 0.591
HT-SELEX
loss
p 83.5%
npv 86.0%
wt 0.660
mt 0.608
HT-SELEX
loss
p 78.6%
npv 83.0%
wt 0.624
mt 0.585
attenuation / loss of known TFBS
For CEBPB, we found 3 different models (JASPAR + 2 HT-SELEX generated models). All indicate the attenuation of TF binding, with reasonable NPVs of over 80%. We hence consider this a meaningful prediction and warn of an attenuation / loss (in red because of a decreased TF binding). The suffix of known TFBS shows that there was indeed a TFBS reported for this location.

CEBPD
HT-SELEX
loss
p 82.0%
npv 84.0%
wt 0.641
mt 0.594
attenuation / loss of unconfirmed TFBS
In the case of CEBPD, a single model suggests the attenuation of TF binding with a high NPV. Since no binding site for CEBPD is known at this position, we tell the user that this is an attenuation / loss of unconfirmed TFBS.

CREB1
hPDI
loss
p 92.0%
npv 89.0%
wt 0.643
mt 0.607
attenuation / loss of unconfirmed TFBS

CTCF
JASPAR
gain
p 86.2%
ppv 96.0%
wt 0.622
mt 0.671
HT-SELEX
gain
p 80.3%
ppv 94.0%
wt 0.550
mt 0.591
creation of new TFBS
CTCF binding seems to be decreased as indicated by two models (JASPAR and HT-SELEX). Since no binding of CTCF was confirmed at this location, we report creation of new TFBS (in blue because it is an increase).

E2F1

known TFBS
JASPAR
loss
p 56.2%
npv 75.0%
wt 0.648
mt 0.641
HT-SELEX
gain
p 50.1%
ppv 70.0%
wt 0.562
mt 0.562
HT-SELEX
loss
p 50.1%
npv 0.0%
wt 0.544
mt 0.544
HT-SELEX
loss
p 60.9%
npv 70.0%
wt 0.546
mt 0.522
HT-SELEX
loss
p 50.0%
npv 0.0%
wt 0.565
mt 0.565
contradicting predictions for known TFBS
A wide variety of matrices for E2F1 binding exist. Unfortunately, some of the predictions indicate reduced whilst others suggest increased binding. We therefore conclude that no safe precition is possible and report contradicting predictions for known TFBS.

E2F4

known TFBS
JASPAR
gain
p 50.3%
ppv 87.0%
wt 0.659
mt 0.659
HT-SELEX
loss
p 50.9%
npv 0.0%
wt 0.500
mt 0.499
HT-SELEX
loss
p 81.7%
npv 85.0%
wt 0.578
mt 0.440
contradicting predictions for known TFBS

E2F6
JASPAR
gain
p 50.3%
ppv 85.0%
wt 0.680
mt 0.680
creation of new TFBS

EBF1
hPDI
gain
p 50.5%
ppv 53.0%
wt 0.692
mt 0.692
JASPAR
gain
p 71.4%
ppv 89.0%
wt 0.691
mt 0.736
HT-SELEX
loss
p 64.7%
npv 78.0%
wt 0.653
mt 0.626
contradicting predictions for this site

EGR1

known TFBS
JASPAR
gain
p 50.6%
ppv 92.0%
wt 0.673
mt 0.673
HT-SELEX
gain
p 92.5%
ppv 99.0%
wt 0.615
mt 0.666
HT-SELEX
gain
p 97.2%
ppv 99.0%
wt 0.556
mt 0.638
enhancement of known TFBS

ELF1

known TFBS
JASPAR
loss
p 64.0%
npv 77.0%
wt 0.602
mt 0.582
HT-SELEX
loss
p 89.6%
npv 89.0%
wt 0.578
mt 0.519
HT-SELEX
loss
p 92.7%
npv 90.0%
wt 0.587
mt 0.511
attenuation / loss of known TFBS

ELK1

known TFBS
HT-SELEX
loss
p 70.7%
npv 81.0%
wt 0.538
mt 0.523
HT-SELEX
loss
p 54.0%
npv 78.0%
wt 0.497
mt 0.494
HT-SELEX
gain
p 85.9%
ppv 91.0%
wt 0.458
mt 0.529
HT-SELEX
gain
p 50.6%
ppv 92.0%
wt 0.509
mt 0.509
contradicting predictions for known TFBS

ELK4
HT-SELEX
loss
p 76.0%
npv 85.0%
wt 0.534
mt 0.515
attenuation / loss of unconfirmed TFBS

ESR1
JASPAR
loss
p 52.2%
npv 71.0%
wt 0.530
mt 0.527
HT-SELEX
loss
p 64.4%
npv 77.0%
wt 0.467
mt 0.443
attenuation / loss of unconfirmed TFBS

ETS1
hPDI
gain
p 50.5%
ppv 62.0%
wt 0.815
mt 0.815
HT-SELEX
loss
p 58.1%
npv 71.0%
wt 0.537
mt 0.519
HT-SELEX
loss
p 61.6%
npv 69.0%
wt 0.510
mt 0.478
HT-SELEX
loss
p 53.2%
npv 70.0%
wt 0.554
mt 0.547
HT-SELEX
loss
p 74.1%
npv 79.0%
wt 0.520
mt 0.462
attenuation / loss of unconfirmed TFBS

FOS
JASPAR
loss
p 50.5%
npv 0.0%
wt 0.724
mt 0.723
no definite results

FOSL1
hPDI
loss
p 51.5%
npv 58.0%
wt 0.800
mt 0.800
JASPAR
gain
p 52.3%
ppv 94.0%
wt 0.693
mt 0.698
creation of new TFBS

FOSL2

known TFBS
JASPAR
loss
p 52.2%
npv 73.0%
wt 0.677
mt 0.675
attenuation / loss of known TFBS

FOXA1
JASPAR
loss
p 50.0%
npv 0.0%
wt 0.705
mt 0.705
no definite results

FOXM1
hPDI
gain
p 51.6%
ppv 63.0%
wt 0.731
mt 0.731
no definite results

FOXP2

known TFBS
JASPAR
loss
p 50.2%
npv 0.0%
wt 0.726
mt 0.726
no definite results

GABPA

known TFBS
HT-SELEX
loss
p 77.1%
npv 83.0%
wt 0.538
mt 0.504
attenuation / loss of known TFBS

GATA2
JASPAR
loss
p 85.7%
npv 87.0%
wt 0.778
mt 0.694
attenuation / loss of unconfirmed TFBS

GATA3
JASPAR
loss
p 58.1%
npv 69.0%
wt 0.727
mt 0.683
HT-SELEX
loss
p 74.7%
npv 81.0%
wt 0.831
mt 0.752
HT-SELEX
loss
p 64.3%
npv 76.0%
wt 0.824
mt 0.779
attenuation / loss of unconfirmed TFBS

GTF2B
hPDI
loss
p 50.0%
npv 0.0%
wt 0.793
mt 0.793
no definite results

GTF3C2
hPDI
gain
p 50.6%
ppv 62.0%
wt 0.727
mt 0.727
no definite results

HDAC8
hPDI
gain
p 51.4%
ppv 60.0%
wt 0.685
mt 0.687
no definite results

HNF4A
JASPAR
gain
p 50.1%
ppv 94.0%
wt 0.620
mt 0.620
HT-SELEX
loss
p 87.3%
npv 88.0%
wt 0.600
mt 0.558
HT-SELEX
loss
p 98.1%
npv 90.0%
wt 0.517
mt 0.430
HT-SELEX
loss
p 82.7%
npv 85.0%
wt 0.616
mt 0.583
HT-SELEX
gain
p 50.1%
ppv 84.0%
wt 0.561
mt 0.561
HT-SELEX
loss
p 89.7%
npv 89.0%
wt 0.505
mt 0.464
HT-SELEX
loss
p 58.3%
npv 76.0%
wt 0.486
mt 0.478
contradicting predictions for this site

HNF4G
JASPAR
loss
p 51.5%
npv 74.0%
wt 0.627
mt 0.626
attenuation / loss of unconfirmed TFBS

HSF1
hPDI
loss
p 50.2%
npv 0.0%
wt 0.877
mt 0.877
JASPAR
gain
p 50.5%
ppv 76.0%
wt 0.575
mt 0.575
HT-SELEX
gain
p 50.6%
ppv 78.0%
wt 0.540
mt 0.541
HT-SELEX
gain
p 50.5%
ppv 73.0%
wt 0.483
mt 0.484
creation of new TFBS

IRF1

known TFBS
hPDI
loss
p 51.8%
npv 56.0%
wt 0.818
mt 0.818
JASPAR
gain
p 51.4%
ppv 68.0%
wt 0.563
mt 0.522
no definite results

IRF3
HT-SELEX
gain
p 56.9%
ppv 65.0%
wt 0.531
mt 0.486
no definite results

IRF4
HT-SELEX
loss
p 60.9%
npv 70.0%
wt 0.539
mt 0.508
attenuation / loss of unconfirmed TFBS

JUN

known TFBS
JASPAR
loss
p 58.0%
npv 68.0%
wt 0.656
mt 0.618
JASPAR
gain
p 50.2%
ppv 91.0%
wt 0.680
mt 0.680
enhancement of known TFBS

JUNB
JASPAR
loss
p 59.1%
npv 75.0%
wt 0.690
mt 0.682
attenuation / loss of unconfirmed TFBS

JUND

known TFBS
JASPAR
loss
p 53.8%
npv 74.0%
wt 0.711
mt 0.703
JASPAR
loss
p 53.3%
npv 61.0%
wt 0.675
mt 0.641
attenuation / loss of known TFBS

MAFF
JASPAR
loss
p 97.1%
npv 89.0%
wt 0.719
mt 0.649
HT-SELEX
loss
p 67.3%
npv 79.0%
wt 0.599
mt 0.572
attenuation / loss of unconfirmed TFBS

MAFK
JASPAR
loss
p 92.4%
npv 87.0%
wt 0.744
mt 0.688
HT-SELEX
loss
p 96.8%
npv 89.0%
wt 0.768
mt 0.681
HT-SELEX
loss
p 70.8%
npv 80.0%
wt 0.639
mt 0.613
HT-SELEX
loss
p 96.0%
npv 89.0%
wt 0.741
mt 0.663
HT-SELEX
loss
p 75.4%
npv 82.0%
wt 0.659
mt 0.608
attenuation / loss of unconfirmed TFBS

MAX

known TFBS
JASPAR
gain
p 72.4%
ppv 77.0%
wt 0.566
mt 0.653
HT-SELEX
gain
p 80.6%
ppv 87.0%
wt 0.485
mt 0.555
HT-SELEX
gain
p 91.0%
ppv 96.0%
wt 0.550
mt 0.647
enhancement of known TFBS

MEF2A
JASPAR
loss
p 50.1%
npv 0.0%
wt 0.573
mt 0.573
HT-SELEX
loss
p 82.9%
npv 85.0%
wt 0.589
mt 0.536
attenuation / loss of unconfirmed TFBS

MEF2C
JASPAR
loss
p 50.1%
npv 0.0%
wt 0.608
mt 0.608
no definite results

MYBL2
HT-SELEX
loss
p 50.0%
npv 0.0%
wt 0.575
mt 0.575
HT-SELEX
loss
p 59.2%
npv 65.0%
wt 0.598
mt 0.562
HT-SELEX
gain
p 50.0%
ppv 63.0%
wt 0.665
mt 0.665
HT-SELEX
loss
p 56.2%
npv 63.0%
wt 0.556
mt 0.529
no definite results

NFATC1
HT-SELEX
loss
p 53.0%
npv 58.0%
wt 0.464
mt 0.437
HT-SELEX
gain
p 54.1%
ppv 60.0%
wt 0.571
mt 0.598
HT-SELEX
loss
p 51.0%
npv 0.0%
wt 0.553
mt 0.546
no definite results

NFE2
HT-SELEX
loss
p 53.7%
npv 61.0%
wt 0.680
mt 0.664
no definite results

NFIC
JASPAR
loss
p 50.1%
npv 0.0%
wt 0.760
mt 0.760
no definite results

NFYA

known TFBS
JASPAR
gain
p 91.1%
ppv 97.0%
wt 0.603
mt 0.661
enhancement of known TFBS

NFYB

known TFBS
JASPAR
gain
p 57.4%
ppv 94.0%
wt 0.675
mt 0.683
enhancement of known TFBS

NR2C2
JASPAR
gain
p 50.1%
ppv 66.0%
wt 0.652
mt 0.652
HT-SELEX
loss
p 50.1%
npv 0.0%
wt 0.606
mt 0.606
no definite results

NR3C1
HT-SELEX
loss
p 93.7%
npv 89.0%
wt 0.517
mt 0.438
attenuation / loss of unconfirmed TFBS

NRF1
JASPAR
gain
p 99.8%
ppv 99.0%
wt 0.506
mt 0.605
HT-SELEX
gain
p 99.8%
ppv 99.0%
wt 0.542
mt 0.663
creation of new TFBS

PAX5
JASPAR
loss
p 53.4%
npv 72.0%
wt 0.616
mt 0.611
HT-SELEX
gain
p 94.6%
ppv 98.0%
wt 0.583
mt 0.674
contradicting predictions for this site

POU2F2

known TFBS
JASPAR
gain
p 59.5%
ppv 82.0%
wt 0.608
mt 0.633
HT-SELEX
gain
p 54.9%
ppv 80.0%
wt 0.650
mt 0.663
HT-SELEX
gain
p 68.4%
ppv 76.0%
wt 0.568
mt 0.647
enhancement of known TFBS

PRDM1
JASPAR
loss
p 58.1%
npv 77.0%
wt 0.579
mt 0.572
HT-SELEX
gain
p 52.9%
ppv 94.0%
wt 0.550
mt 0.552
contradicting predictions for this site

RBBP5
hPDI
loss
p 52.6%
npv 52.0%
wt 0.700
mt 0.700
no definite results

RELA

known TFBS
JASPAR
gain
p 50.5%
ppv 89.0%
wt 0.725
mt 0.725
enhancement of known TFBS

REST

known TFBS
JASPAR
gain
p 56.8%
ppv 84.0%
wt 0.539
mt 0.562
enhancement of known TFBS

RFX5

known TFBS
JASPAR
loss
p 52.6%
npv 71.0%
wt 0.648
mt 0.643
HT-SELEX
loss
p 57.6%
npv 64.0%
wt 0.502
mt 0.461
HT-SELEX
loss
p 58.8%
npv 66.0%
wt 0.503
mt 0.466
HT-SELEX
loss
p 59.2%
npv 67.0%
wt 0.503
mt 0.466
attenuation / loss of known TFBS

RUNX3
HT-SELEX
loss
p 50.0%
npv 0.0%
wt 0.550
mt 0.550
HT-SELEX
gain
p 50.2%
ppv 79.0%
wt 0.615
mt 0.615
HT-SELEX
gain
p 58.5%
ppv 71.0%
wt 0.512
mt 0.536
HT-SELEX
gain
p 50.2%
ppv 79.0%
wt 0.628
mt 0.628
creation of new TFBS

RXRA
hPDI
gain
p 53.0%
ppv 82.0%
wt 0.727
mt 0.727
HT-SELEX
gain
p 50.3%
ppv 83.0%
wt 0.582
mt 0.582
HT-SELEX
loss
p 53.5%
npv 64.0%
wt 0.505
mt 0.494
HT-SELEX
gain
p 50.1%
ppv 83.0%
wt 0.578
mt 0.578
HT-SELEX
loss
p 52.9%
npv 63.0%
wt 0.507
mt 0.498
creation of new TFBS

SP1

known TFBS
JASPAR
gain
p 55.8%
ppv 73.0%
wt 0.682
mt 0.701
HT-SELEX
gain
p 50.1%
ppv 70.0%
wt 0.789
mt 0.789
HT-SELEX
loss
p 52.3%
npv 55.0%
wt 0.659
mt 0.675
enhancement of known TFBS

SP2
JASPAR
gain
p 52.1%
ppv 88.0%
wt 0.662
mt 0.665
creation of new TFBS

SP4
HT-SELEX
loss
p 57.1%
npv 73.0%
wt 0.608
mt 0.597
attenuation / loss of unconfirmed TFBS

SPI1
HT-SELEX
loss
p 68.3%
npv 79.0%
wt 0.502
mt 0.474
attenuation / loss of unconfirmed TFBS

SRF

known TFBS
JASPAR
gain
p 59.9%
ppv 82.0%
wt 0.593
mt 0.632
HT-SELEX
gain
p 51.0%
ppv 75.0%
wt 0.546
mt 0.550
HT-SELEX
gain
p 79.0%
ppv 91.0%
wt 0.519
mt 0.619
enhancement of known TFBS

STAT1
JASPAR
loss
p 52.6%
npv 74.0%
wt 0.647
mt 0.644
attenuation / loss of unconfirmed TFBS

STAT3
JASPAR
loss
p 64.0%
npv 77.0%
wt 0.742
mt 0.712
attenuation / loss of unconfirmed TFBS

TCF3
hPDI
gain
p 51.3%
ppv 54.0%
wt 0.634
mt 0.648
HT-SELEX
loss
p 50.0%
npv 0.0%
wt 0.700
mt 0.700
no definite results

TCF7L2

known TFBS
JASPAR
loss
p 91.4%
npv 89.0%
wt 0.716
mt 0.606
attenuation / loss of known TFBS

TEAD4
HT-SELEX
gain
p 50.0%
ppv 62.0%
wt 0.693
mt 0.693
no definite results

TFAP2A
hPDI
gain
p 50.0%
ppv 53.0%
wt 0.697
mt 0.697
JASPAR
loss
p 59.7%
npv 76.0%
wt 0.581
mt 0.572
HT-SELEX
gain
p 78.0%
ppv 93.0%
wt 0.578
mt 0.616
HT-SELEX
gain
p 57.6%
ppv 83.0%
wt 0.591
mt 0.604
HT-SELEX
loss
p 63.9%
npv 75.0%
wt 0.609
mt 0.576
HT-SELEX
gain
p 52.7%
ppv 79.0%
wt 0.558
mt 0.563
HT-SELEX
gain
p 82.5%
ppv 95.0%
wt 0.545
mt 0.591
HT-SELEX
loss
p 53.3%
npv 71.0%
wt 0.561
mt 0.553
contradicting predictions for this site

TFAP2C
hPDI
loss
p 50.2%
npv 0.0%
wt 0.747
mt 0.747
JASPAR
loss
p 53.6%
npv 74.0%
wt 0.629
mt 0.625
HT-SELEX
gain
p 85.5%
ppv 95.0%
wt 0.540
mt 0.594
HT-SELEX
gain
p 55.7%
ppv 81.0%
wt 0.567
mt 0.577
HT-SELEX
loss
p 53.1%
npv 71.0%
wt 0.548
mt 0.542
HT-SELEX
gain
p 86.3%
ppv 95.0%
wt 0.573
mt 0.628
HT-SELEX
loss
p 70.0%
npv 79.0%
wt 0.529
mt 0.486
HT-SELEX
gain
p 54.7%
ppv 80.0%
wt 0.650
mt 0.660
contradicting predictions for this site

THAP1
JASPAR
gain
p 50.1%
ppv 71.0%
wt 0.721
mt 0.721
creation of new TFBS

USF1

known TFBS
hPDI
gain
p 96.1%
ppv 99.0%
wt 0.576
mt 0.701
JASPAR
gain
p 98.1%
ppv 99.0%
wt 0.579
mt 0.661
HT-SELEX
gain
p 99.5%
ppv 99.0%
wt 0.564
mt 0.671
enhancement of known TFBS

USF2
hPDI
gain
p 87.0%
ppv 98.0%
wt 0.642
mt 0.714
JASPAR
gain
p 98.3%
ppv 99.0%
wt 0.623
mt 0.715
creation of new TFBS

YY1

known TFBS
JASPAR
loss
p 91.0%
npv 90.0%
wt 0.651
mt 0.561
HT-SELEX
loss
p 71.0%
npv 81.0%
wt 0.684
mt 0.663
attenuation / loss of known TFBS

ZBTB33
JASPAR
gain
p 53.6%
ppv 91.0%
wt 0.675
mt 0.684
creation of new TFBS

ZBTB7A
HT-SELEX
gain
p 68.6%
ppv 84.0%
wt 0.570
mt 0.602
creation of new TFBS

ZEB1
JASPAR
gain
p 67.8%
ppv 94.0%
wt 0.698
mt 0.722
creation of new TFBS

ZNF143
HT-SELEX
loss
p 69.0%
npv 76.0%
wt 0.612
mt 0.538
attenuation / loss of unconfirmed TFBS

ZNF263
JASPAR
loss
p 62.5%
npv 75.0%
wt 0.549
mt 0.522
attenuation / loss of unconfirmed TFBS