# Parameters
data_name = "ES;D0;D;GEO"
modisco_root = "/srv/scratch/msharmin/mouse_hem/with_tfd/full_mouse50/Naive_modisco2019"
tomtom_report_root = "http://mitra.stanford.edu/kundaje/msharmin/report/tomtom_outs/cells"
task_dir = "task_200-naivegw"
perf_file = "/srv/scratch/msharmin/mouse_hem/with_tfd/full_mouse50/fineFactorized/task_200-naivegw/NaiveauPRC.txt"
homer_root = "/srv/scratch/msharmin/mouse_hem/with_tfd/full_mouse50/Naive_scans"
reportfile = "/mnt/lab_data/kundaje/msharmin/annotations/filtering samples_MS2.xlsx"
sheetname = "filter23"

from matlas.reports import display_metadata

load data from labcluster

Using TensorFlow backend.
2019-08-30 19:26:41,490 [WARNING] git-lfs not installed

display_metadata(data_name, perf_file, reportfile, sheetname)

Sample Information

MetaData Name	Description
Cell type	Embryonic day 0 (stem cell, ES-CJ7)
Cell Group	ES cells and embryonic tissues
Experiment Name	DHS
Experiment Group	GEO

Pipeline Output

replicate	Naïve overlap peaks	IDR peaks	TSS enrichment (< 8 is very poor <10 is low)	Final number of unique mapping, dup-filtered, chrM filtered reads	Number of reads in called peak regions	Fraction of reads in called peak regions	Number of reads in promoter regions	Fraction of reads in promoter regions	Number of reads in enhancer regions	Fraction of reads in enhancer regions
rep1	186232	123926	8.1646	115819715	20786125	0.1795	10974571	0.0948	47144500	0.4071

Modelling Metadata

Metric	Value
auPRC	0.6019
Calibrated Recall at 50% FDR	0.285
Number of Positive Examples in Test Data	83919
Number of Negative Examples in Test Data	7986932
Imbalance Ratio in Test Data	0.0104
Test Chromosomes	chr2, chr3, chr19

from matlas.reports import display_paiwise_pattern_comparison
from matlas.reports import display_denovo_patterns

display_denovo_patterns(data_name, modisco_root=modisco_root)

TF-MoDISco is using the TensorFlow backend.

The following two links show list of Denovo Patterns and corresponding Motifs discovered by TF-MoDISco

Click here for Denovo Patterns by TF-MoDISco: #25

Pattern Name	TF Name(s)	Modisco
metacluster_0/pattern_0 # seqlets: 3275 SequenceContrib ScoresHyp_Contrib Scores	Ctcf, Ctcfl
metacluster_0/pattern_1 # seqlets: 3034 SequenceContrib ScoresHyp_Contrib Scores	Sp3, Sp1, Sp2, Sp4, Klf3, Zbtb17, Klf7, Egr1, Klf8, E2f4, Klf12, Klf6, Egr2, E2f1, Klf4, Klf1, Klf5, Zfp281, Sp5, Maz, Klf15, Wt1, Sall4, Egr3, Zfp740, Zbtb1
metacluster_0/pattern_2 # seqlets: 947 SequenceContrib ScoresHyp_Contrib Scores	Nfyb, Nfyc, Nfya, Foxi1, Pbx3
metacluster_0/pattern_3 # seqlets: 909 SequenceContrib ScoresHyp_Contrib Scores	Pou5f1, Nanog, Pou2f2, Sox2, Pou2f1
metacluster_0/pattern_4 # seqlets: 858 SequenceContrib ScoresHyp_Contrib Scores	Gabpa, Elf1, Fli1, Elk1, Elk4, Erg, Ets1, Elk3, Fev, Elf5, Etv5, Etv1, Elf2, Etv4, Elf4, Etv6, Ehf, Etv3, XP_911724.4, Etv2, Spi1, Elf3, Spdef, Stat3, Stat6
metacluster_0/pattern_5 # seqlets: 850 SequenceContrib ScoresHyp_Contrib Scores	Zfx, Mbd2, Mxi1, Usf2, Rfx1
metacluster_0/pattern_6 # seqlets: 749 SequenceContrib ScoresHyp_Contrib Scores	Nrf1
metacluster_0/pattern_7 # seqlets: 701 SequenceContrib ScoresHyp_Contrib Scores
metacluster_0/pattern_8 # seqlets: 668 SequenceContrib ScoresHyp_Contrib Scores	Usf1, Tfeb, Tfec, Srebf1, Bhlhe40, Tfe3, Mitf, Arntl, Mlx, Clock, Atf1, Srebf2, Arnt, Npas2, Creb1, Bhlhe41, Tcfl5, Creb3l2, Atf7, Xbp1, Atf2, Crem, Jdp2, Creb5, Dbp, Max, Myc, Mlxip, Hlf, Rxrb, Mycn
metacluster_0/pattern_9 # seqlets: 642 SequenceContrib ScoresHyp_Contrib Scores	Lef1, Sox30, Sox3, Sox4, Sry, Sox6, Sox12, Sox17, Sox14, Sox21, Sox11, Sox7, Sox8, Sox18, Sox5
metacluster_0/pattern_10 # seqlets: 530 SequenceContrib ScoresHyp_Contrib Scores	Esrrb, Rxrg, Rxra, Rara, Esrra, Rarg, Nr5a2, Esrrg, Nr5a1, Nr2f6, Nr2c2, Pparg, Ppara, Nr1h3, Nr4a2, Nr2f1, Hnf4a, Nkx2-9
metacluster_0/pattern_11 # seqlets: 442 SequenceContrib ScoresHyp_Contrib Scores	Tead4, Tead2, Tead1
metacluster_0/pattern_12 # seqlets: 314 SequenceContrib ScoresHyp_Contrib Scores
metacluster_0/pattern_13 # seqlets: 302 SequenceContrib ScoresHyp_Contrib Scores	Zic2, Zic3
metacluster_0/pattern_14 # seqlets: 264 SequenceContrib ScoresHyp_Contrib Scores	Rfx2, Rfx3, Rfx4, Rfx7, Rfx6
metacluster_0/pattern_15 # seqlets: 244 SequenceContrib ScoresHyp_Contrib Scores	Yy1, Taf1, Zfp42
metacluster_0/pattern_16 # seqlets: 187 SequenceContrib ScoresHyp_Contrib Scores	Zfp143, Thap11, Tbx2
metacluster_0/pattern_17 # seqlets: 180 SequenceContrib ScoresHyp_Contrib Scores	Tcfcp2l1
metacluster_0/pattern_18 # seqlets: 167 SequenceContrib ScoresHyp_Contrib Scores	Zbtb33
metacluster_0/pattern_19 # seqlets: 114 SequenceContrib ScoresHyp_Contrib Scores	Bach2, Nfe2l2, Nfe2, Bach1, Mafk, Mafg, Mafa, Mafb, Maff, Maf, Jun, Atf3, Fosl2, Fosb, Junb, Fosl1, Jund, Batf, Fos
metacluster_0/pattern_20 # seqlets: 77 SequenceContrib ScoresHyp_Contrib Scores	Rest
metacluster_0/pattern_21 # seqlets: 75 SequenceContrib ScoresHyp_Contrib Scores	Six2, Six4, Six1
metacluster_0/pattern_22 # seqlets: 62 SequenceContrib ScoresHyp_Contrib Scores
metacluster_0/pattern_23 # seqlets: 42 SequenceContrib ScoresHyp_Contrib Scores
metacluster_0/pattern_24 # seqlets: 41 SequenceContrib ScoresHyp_Contrib Scores

Click here for Motifs by TF-MoDISco: #174

TF Name	Pattern(s)
Ctcf	Pattern Name Modisco Significance metacluster_0/pattern_0 5.288580000000001e-10
Ctcfl	Pattern Name Modisco Significance metacluster_0/pattern_0 1.80805e-06 metacluster_0/pattern_5 0.00529132
Sp3	Pattern Name Modisco Significance metacluster_0/pattern_1 1.0739100000000001e-07 metacluster_0/pattern_5 0.00058032 metacluster_0/pattern_7 0.00214788 metacluster_0/pattern_15 0.00605821
Sp1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000215446 metacluster_0/pattern_5 0.00123211 metacluster_0/pattern_7 0.00166268 metacluster_0/pattern_15 0.00614799
Sp2	Pattern Name Modisco Significance metacluster_0/pattern_1 1.8816099999999998e-05 metacluster_0/pattern_5 3.1455e-05 metacluster_0/pattern_7 0.000273486 metacluster_0/pattern_15 0.000757357
Sp4	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000695283
Klf3	Pattern Name Modisco Significance metacluster_0/pattern_1 7.80109e-05 metacluster_0/pattern_5 0.00378977 metacluster_0/pattern_7 0.05379249999999999
Zbtb17	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000215446 metacluster_0/pattern_5 0.0104384
Klf7	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000219237
Egr1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.0116934 metacluster_0/pattern_5 0.0396621
Klf8	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000269153
E2f4	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000269153
Klf12	Pattern Name Modisco Significance metacluster_0/pattern_1 0.029666700000000004
Klf6	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000379071
Egr2	Pattern Name Modisco Significance metacluster_0/pattern_1 0.0122027
E2f1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00124029
Klf4	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00198708
Klf1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.032570299999999996
Klf5	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00198708
Zfp281	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00297286
Sp5	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00297286
Maz	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00709016
Klf15	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00796132
Wt1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00905325 metacluster_0/pattern_5 0.0288611
Sall4	Pattern Name Modisco Significance metacluster_0/pattern_1 0.0182037
Egr3	Pattern Name Modisco Significance metacluster_0/pattern_1 0.022381
Zfp740	Pattern Name Modisco Significance metacluster_0/pattern_1 0.023033900000000003
Zbtb1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.0416069
Nfyb	Pattern Name Modisco Significance metacluster_0/pattern_2 1.96274e-13
Nfyc	Pattern Name Modisco Significance metacluster_0/pattern_2 1.95185e-10
Nfya	Pattern Name Modisco Significance metacluster_0/pattern_2 1.5824100000000001e-09
Foxi1	Pattern Name Modisco Significance metacluster_0/pattern_2 2.06595e-06
Pbx3	Pattern Name Modisco Significance metacluster_0/pattern_2 7.016110000000001e-06
Pou5f1	Pattern Name Modisco Significance metacluster_0/pattern_3 4.12462e-05 metacluster_0/pattern_9 0.00171742
Nanog	Pattern Name Modisco Significance metacluster_0/pattern_3 3.48805e-06 metacluster_0/pattern_9 4.23193e-08
Pou2f2	Pattern Name Modisco Significance metacluster_0/pattern_3 0.00784362
Sox2	Pattern Name Modisco Significance metacluster_0/pattern_3 0.000162212 metacluster_0/pattern_9 0.00195153
Pou2f1	Pattern Name Modisco Significance metacluster_0/pattern_3 0.0574842
Gabpa	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00325931
Elf1	Pattern Name Modisco Significance metacluster_0/pattern_4 7.271569999999999e-09
Fli1	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0035544000000000005 metacluster_0/pattern_5 0.0119262
Elk1	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00325931
Elk4	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0035544000000000005
Erg	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0035544000000000005
Ets1	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00406407
Elk3	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00325931
Fev	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00251163
Elf5	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00880636
Etv5	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00257505
Etv1	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00339462
Elf2	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00679439
Etv4	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0035544000000000005
Elf4	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00348323
Etv6	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0035544000000000005
Ehf	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00434608
Etv3	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00413213
XP_911724.4	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00413213
Etv2	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0111561
Spi1	Pattern Name Modisco Significance metacluster_0/pattern_4 0.015373300000000001
Elf3	Pattern Name Modisco Significance metacluster_0/pattern_4 0.015653999999999998
Spdef	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0215496
Stat3	Pattern Name Modisco Significance metacluster_0/pattern_4 0.05575069999999999
Stat6	Pattern Name Modisco Significance metacluster_0/pattern_4 0.05998150000000001
Zfx	Pattern Name Modisco Significance metacluster_0/pattern_5 0.0119262 metacluster_0/pattern_7 0.00124725 metacluster_0/pattern_15 0.0121156 metacluster_0/pattern_18 0.0159074
Mbd2	Pattern Name Modisco Significance metacluster_0/pattern_5 0.0119262
Mxi1	Pattern Name Modisco Significance metacluster_0/pattern_5 0.015542199999999999 metacluster_0/pattern_7 0.0330761 metacluster_0/pattern_15 0.046047000000000005
Usf2	Pattern Name Modisco Significance metacluster_0/pattern_5 0.0220433 metacluster_0/pattern_7 0.0177425 metacluster_0/pattern_8 0.00339472
Rfx1	Pattern Name Modisco Significance metacluster_0/pattern_5 0.050006699999999994 metacluster_0/pattern_7 0.05379249999999999 metacluster_0/pattern_14 8.76083e-07 metacluster_0/pattern_15 0.00583981
Nrf1	Pattern Name Modisco Significance metacluster_0/pattern_6 2.0266700000000002e-08
Usf1	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00139936
Tfeb	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00139936
Tfec	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00271337
Srebf1	Pattern Name Modisco Significance metacluster_0/pattern_8 0.013055100000000002
Bhlhe40	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00680541
Tfe3	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00271337
Mitf	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00194482
Arntl	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0080701
Mlx	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0266815
Clock	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0008622689999999999
Atf1	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00168982
Srebf2	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00183604
Arnt	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0435149
Npas2	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00681878
Creb1	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0441725
Bhlhe41	Pattern Name Modisco Significance metacluster_0/pattern_8 0.010658200000000001
Tcfl5	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0121
Creb3l2	Pattern Name Modisco Significance metacluster_0/pattern_8 0.031227800000000003
Atf7	Pattern Name Modisco Significance metacluster_0/pattern_8 0.012857200000000001
Xbp1	Pattern Name Modisco Significance metacluster_0/pattern_8 0.017288099999999997
Atf2	Pattern Name Modisco Significance metacluster_0/pattern_8 0.030271499999999996
Crem	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0234803
Jdp2	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0396858 metacluster_0/pattern_19 0.0381523
Creb5	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0391824
Dbp	Pattern Name Modisco Significance metacluster_0/pattern_8 0.045879199999999995
Max	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0462879
Myc	Pattern Name Modisco Significance metacluster_0/pattern_8 0.047908
Mlxip	Pattern Name Modisco Significance metacluster_0/pattern_8 0.048726
Hlf	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0491224
Rxrb	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0538286 metacluster_0/pattern_10 0.0127539
Mycn	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0572265
Lef1	Pattern Name Modisco Significance metacluster_0/pattern_9 7.47914e-05
Sox30	Pattern Name Modisco Significance metacluster_0/pattern_9 0.00048619300000000005
Sox3	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0350765
Sox4	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0237088
Sry	Pattern Name Modisco Significance metacluster_0/pattern_9 0.00655831
Sox6	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0119045
Sox12	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0055819
Sox17	Pattern Name Modisco Significance metacluster_0/pattern_9 0.00799584
Sox14	Pattern Name Modisco Significance metacluster_0/pattern_9 0.014733600000000001
Sox21	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0148077
Sox11	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0175708
Sox7	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0185319
Sox8	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0237088
Sox18	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0237088
Sox5	Pattern Name Modisco Significance metacluster_0/pattern_9 0.044869099999999995
Esrrb	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0008080110000000001
Rxrg	Pattern Name Modisco Significance metacluster_0/pattern_10 6.14933e-07
Rxra	Pattern Name Modisco Significance metacluster_0/pattern_10 0.014266399999999999
Rara	Pattern Name Modisco Significance metacluster_0/pattern_10 1.21289e-06
Esrra	Pattern Name Modisco Significance metacluster_0/pattern_10 0.00323272
Rarg	Pattern Name Modisco Significance metacluster_0/pattern_10 2.6613099999999997e-06
Nr5a2	Pattern Name Modisco Significance metacluster_0/pattern_10 0.000135945
Esrrg	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0006088269999999999
Nr5a1	Pattern Name Modisco Significance metacluster_0/pattern_10 0.000149005
Nr2f6	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0123557
Nr2c2	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0154725
Pparg	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0350154
Ppara	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0197017
Nr1h3	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0296502
Nr4a2	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0350154
Nr2f1	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0440455
Hnf4a	Pattern Name Modisco Significance metacluster_0/pattern_10 0.048276
Nkx2-9	Pattern Name Modisco Significance metacluster_0/pattern_10 0.048329500000000004
Tead4	Pattern Name Modisco Significance metacluster_0/pattern_11 0.000541885
Tead2	Pattern Name Modisco Significance metacluster_0/pattern_11 0.00407969
Tead1	Pattern Name Modisco Significance metacluster_0/pattern_11 0.00726116
Zic2	Pattern Name Modisco Significance metacluster_0/pattern_13 4.17321e-06
Zic3	Pattern Name Modisco Significance metacluster_0/pattern_13 3.82304e-05
Rfx2	Pattern Name Modisco Significance metacluster_0/pattern_14 4.76922e-07
Rfx3	Pattern Name Modisco Significance metacluster_0/pattern_14 0.019728
Rfx4	Pattern Name Modisco Significance metacluster_0/pattern_14 8.475540000000001e-05
Rfx7	Pattern Name Modisco Significance metacluster_0/pattern_14 0.00896681
Rfx6	Pattern Name Modisco Significance metacluster_0/pattern_14 0.016622900000000003
Yy1	Pattern Name Modisco Significance metacluster_0/pattern_15 1.92472e-06
Taf1	Pattern Name Modisco Significance metacluster_0/pattern_15 3.71923e-06
Zfp42	Pattern Name Modisco Significance metacluster_0/pattern_15 0.00525724
Zfp143	Pattern Name Modisco Significance metacluster_0/pattern_16 5.89601e-20 metacluster_0/pattern_24 3.4988799999999996e-07
Thap11	Pattern Name Modisco Significance metacluster_0/pattern_16 1.69484e-19 metacluster_0/pattern_24 7.11669e-07
Tbx2	Pattern Name Modisco Significance metacluster_0/pattern_16 6.01784e-15 metacluster_0/pattern_24 7.11669e-07
Tcfcp2l1	Pattern Name Modisco Significance metacluster_0/pattern_17 5.81039e-06
Zbtb33	Pattern Name Modisco Significance metacluster_0/pattern_18 0.000267151
Bach2	Pattern Name Modisco Significance metacluster_0/pattern_19 7.26214e-07
Nfe2l2	Pattern Name Modisco Significance metacluster_0/pattern_19 2.53938e-05
Nfe2	Pattern Name Modisco Significance metacluster_0/pattern_19 2.02305e-05
Bach1	Pattern Name Modisco Significance metacluster_0/pattern_19 2.79125e-05
Mafk	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00010189799999999999
Mafg	Pattern Name Modisco Significance metacluster_0/pattern_19 0.000320133
Mafa	Pattern Name Modisco Significance metacluster_0/pattern_19 0.000320133
Mafb	Pattern Name Modisco Significance metacluster_0/pattern_19 0.0006037880000000001
Maff	Pattern Name Modisco Significance metacluster_0/pattern_19 0.000336753
Maf	Pattern Name Modisco Significance metacluster_0/pattern_19 0.000851938
Jun	Pattern Name Modisco Significance metacluster_0/pattern_19 0.000999571
Atf3	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00163841
Fosl2	Pattern Name Modisco Significance metacluster_0/pattern_19 0.0049858
Fosb	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00360568
Junb	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00424501
Fosl1	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00473039
Jund	Pattern Name Modisco Significance metacluster_0/pattern_19 0.046863699999999994
Batf	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00855475
Fos	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00934384
Rest	Pattern Name Modisco Significance metacluster_0/pattern_20 4.45929e-15
Six2	Pattern Name Modisco Significance metacluster_0/pattern_21 3.25571e-06
Six4	Pattern Name Modisco Significance metacluster_0/pattern_21 2.95108e-05
Six1	Pattern Name Modisco Significance metacluster_0/pattern_21 2.95108e-05

display_paiwise_pattern_comparison(data_name, modisco_root, homer_root)

Number of CISBP TFs obtained by TF-MoDISco and Homer

Shared TFs between TF-MoDISco and Homer: #70

TF Name	Modisco	Homer
Rara	Pattern Name Modisco Significance metacluster_0/pattern_10 1.21289e-06	Pattern Name Homer Significance motif14.motif 0.00766523
Nfya	Pattern Name Modisco Significance metacluster_0/pattern_2 1.5824100000000001e-09	Pattern Name Homer Significance motif3.motif 4.83794e-06
Tfe3	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00271337	Pattern Name Homer Significance motif9.motif 0.008097199999999999
Creb5	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0391824	Pattern Name Homer Significance motif9.motif 0.010106299999999999
Tfeb	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00139936	Pattern Name Homer Significance motif9.motif 0.0028373
Thap11	Pattern Name Modisco Significance metacluster_0/pattern_16 1.69484e-19 metacluster_0/pattern_24 7.11669e-07	Pattern Name Homer Significance motif7.motif 0.00041062199999999997
Arntl	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0080701	Pattern Name Homer Significance motif9.motif 0.0268288
Tfec	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00271337	Pattern Name Homer Significance motif9.motif 0.00925929
Sp3	Pattern Name Modisco Significance metacluster_0/pattern_1 1.0739100000000001e-07 metacluster_0/pattern_5 0.00058032 metacluster_0/pattern_7 0.00214788 metacluster_0/pattern_15 0.00605821	Pattern Name Homer Significance motif2.motif 0.000469715
Foxi1	Pattern Name Modisco Significance metacluster_0/pattern_2 2.06595e-06	Pattern Name Homer Significance motif3.motif 0.0007110069999999999
Mycn	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0572265	Pattern Name Homer Significance motif9.motif 0.038901099999999994
Rxrg	Pattern Name Modisco Significance metacluster_0/pattern_10 6.14933e-07	Pattern Name Homer Significance motif14.motif 0.00838183
Ctcf	Pattern Name Modisco Significance metacluster_0/pattern_0 5.288580000000001e-10	Pattern Name Homer Significance motif1.motif 9.30117e-06
Nrf1	Pattern Name Modisco Significance metacluster_0/pattern_6 2.0266700000000002e-08	Pattern Name Homer Significance motif4.motif 9.9514e-08
Srebf2	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00183604	Pattern Name Homer Significance motif9.motif 0.0552725
Xbp1	Pattern Name Modisco Significance metacluster_0/pattern_8 0.017288099999999997	Pattern Name Homer Significance motif9.motif 0.0269653
Jdp2	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0396858 metacluster_0/pattern_19 0.0381523	Pattern Name Homer Significance motif9.motif 0.0226523
Nfyc	Pattern Name Modisco Significance metacluster_0/pattern_2 1.95185e-10	Pattern Name Homer Significance motif3.motif 4.83794e-06
Atf1	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00168982	Pattern Name Homer Significance motif9.motif 0.00476752
Sox2	Pattern Name Modisco Significance metacluster_0/pattern_3 0.000162212 metacluster_0/pattern_9 0.00195153	Pattern Name Homer Significance motif6.motif 1.29711e-06 motif13.motif 0.058126800000000006
Mlx	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0266815	Pattern Name Homer Significance motif9.motif 0.0296448
Nr5a2	Pattern Name Modisco Significance metacluster_0/pattern_10 0.000135945	Pattern Name Homer Significance motif14.motif 0.00196337
Ctcfl	Pattern Name Modisco Significance metacluster_0/pattern_0 1.80805e-06 metacluster_0/pattern_5 0.00529132	Pattern Name Homer Significance motif1.motif 0.000229447
Pou2f2	Pattern Name Modisco Significance metacluster_0/pattern_3 0.00784362	Pattern Name Homer Significance motif6.motif 0.0169815
Nanog	Pattern Name Modisco Significance metacluster_0/pattern_3 3.48805e-06 metacluster_0/pattern_9 4.23193e-08	Pattern Name Homer Significance motif6.motif 2.10331e-07 motif13.motif 0.058126800000000006
Tcfl5	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0121	Pattern Name Homer Significance motif9.motif 0.0501777
Klf8	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000269153	Pattern Name Homer Significance motif2.motif 0.00026509
E2f4	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000269153	Pattern Name Homer Significance motif2.motif 0.000756521
Zfp143	Pattern Name Modisco Significance metacluster_0/pattern_16 5.89601e-20 metacluster_0/pattern_24 3.4988799999999996e-07	Pattern Name Homer Significance motif7.motif 0.0007286080000000001
Klf3	Pattern Name Modisco Significance metacluster_0/pattern_1 7.80109e-05 metacluster_0/pattern_5 0.00378977 metacluster_0/pattern_7 0.05379249999999999	Pattern Name Homer Significance motif2.motif 0.000187325
Srebf1	Pattern Name Modisco Significance metacluster_0/pattern_8 0.013055100000000002	Pattern Name Homer Significance motif9.motif 0.0128737
Klf1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.032570299999999996	Pattern Name Homer Significance motif2.motif 0.00870789
Klf4	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00198708	Pattern Name Homer Significance motif2.motif 0.014806399999999999
Bhlhe40	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00680541	Pattern Name Homer Significance motif9.motif 0.012829399999999998
Usf2	Pattern Name Modisco Significance metacluster_0/pattern_5 0.0220433 metacluster_0/pattern_7 0.0177425 metacluster_0/pattern_8 0.00339472	Pattern Name Homer Significance motif9.motif 0.019254
Pou5f1	Pattern Name Modisco Significance metacluster_0/pattern_3 4.12462e-05 metacluster_0/pattern_9 0.00171742	Pattern Name Homer Significance motif6.motif 2.53827e-06 motif13.motif 0.0585804
Npas2	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00681878	Pattern Name Homer Significance motif9.motif 0.0268288
Nfyb	Pattern Name Modisco Significance metacluster_0/pattern_2 1.96274e-13	Pattern Name Homer Significance motif3.motif 1.41316e-07
Creb1	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0441725	Pattern Name Homer Significance motif9.motif 0.0171939
Esrrg	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0006088269999999999	Pattern Name Homer Significance motif14.motif 0.00044510400000000004
Klf5	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00198708	Pattern Name Homer Significance motif2.motif 0.00405421
Klf12	Pattern Name Modisco Significance metacluster_0/pattern_1 0.029666700000000004	Pattern Name Homer Significance motif2.motif 0.00356772
Mitf	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00194482	Pattern Name Homer Significance motif9.motif 0.00481025
Rarg	Pattern Name Modisco Significance metacluster_0/pattern_10 2.6613099999999997e-06	Pattern Name Homer Significance motif9.motif 0.043118300000000005 motif14.motif 0.00485338
Rxrb	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0538286 metacluster_0/pattern_10 0.0127539	Pattern Name Homer Significance motif9.motif 0.045085900000000005
Atf7	Pattern Name Modisco Significance metacluster_0/pattern_8 0.012857200000000001	Pattern Name Homer Significance motif9.motif 0.027751099999999997
Pbx3	Pattern Name Modisco Significance metacluster_0/pattern_2 7.016110000000001e-06	Pattern Name Homer Significance motif3.motif 0.000326997
Bhlhe41	Pattern Name Modisco Significance metacluster_0/pattern_8 0.010658200000000001	Pattern Name Homer Significance motif9.motif 0.0171939
Clock	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0008622689999999999	Pattern Name Homer Significance motif9.motif 0.00329133
Rxra	Pattern Name Modisco Significance metacluster_0/pattern_10 0.014266399999999999	Pattern Name Homer Significance motif14.motif 0.00899205
Egr1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.0116934 metacluster_0/pattern_5 0.0396621	Pattern Name Homer Significance motif2.motif 0.00820859
Rest	Pattern Name Modisco Significance metacluster_0/pattern_20 4.45929e-15	Pattern Name Homer Significance motif19.motif 0.000584255 motif25.motif 0.0218546
Crem	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0234803	Pattern Name Homer Significance motif9.motif 0.010065600000000001
Egr2	Pattern Name Modisco Significance metacluster_0/pattern_1 0.0122027	Pattern Name Homer Significance motif2.motif 0.0433027
Sp2	Pattern Name Modisco Significance metacluster_0/pattern_1 1.8816099999999998e-05 metacluster_0/pattern_5 3.1455e-05 metacluster_0/pattern_7 0.000273486 metacluster_0/pattern_15 0.000757357	Pattern Name Homer Significance motif2.motif 0.000509064
Atf2	Pattern Name Modisco Significance metacluster_0/pattern_8 0.030271499999999996	Pattern Name Homer Significance motif9.motif 0.055827199999999993
Atf3	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00163841	Pattern Name Homer Significance motif9.motif 0.027751099999999997
Sp4	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000695283	Pattern Name Homer Significance motif2.motif 0.037880800000000006
Arnt	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0435149	Pattern Name Homer Significance motif9.motif 0.0459953
Nr4a2	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0350154	Pattern Name Homer Significance motif14.motif 0.024712599999999998
Klf7	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000219237	Pattern Name Homer Significance motif2.motif 0.000208038
Sp1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000215446 metacluster_0/pattern_5 0.00123211 metacluster_0/pattern_7 0.00166268 metacluster_0/pattern_15 0.00614799	Pattern Name Homer Significance motif2.motif 0.0226965
Nr5a1	Pattern Name Modisco Significance metacluster_0/pattern_10 0.000149005	Pattern Name Homer Significance motif14.motif 0.00485338
Tbx2	Pattern Name Modisco Significance metacluster_0/pattern_16 6.01784e-15 metacluster_0/pattern_24 7.11669e-07	Pattern Name Homer Significance motif7.motif 0.00104858
Nr2f1	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0440455	Pattern Name Homer Significance motif14.motif 0.04648719999999999
Esrrb	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0008080110000000001	Pattern Name Homer Significance motif14.motif 0.04648719999999999
Creb3l2	Pattern Name Modisco Significance metacluster_0/pattern_8 0.031227800000000003	Pattern Name Homer Significance motif9.motif 0.0530457
Esrra	Pattern Name Modisco Significance metacluster_0/pattern_10 0.00323272	Pattern Name Homer Significance motif14.motif 0.0283921
Klf6	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000379071	Pattern Name Homer Significance motif2.motif 0.00111978
Usf1	Pattern Name Modisco Significance metacluster_0/pattern_8 0.00139936	Pattern Name Homer Significance motif9.motif 0.0268288

Unique TF-MoDISco TFs: #104

TF Name	Modisco	Homer
Etv1	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00339462	Absent
Mxi1	Pattern Name Modisco Significance metacluster_0/pattern_5 0.015542199999999999 metacluster_0/pattern_7 0.0330761 metacluster_0/pattern_15 0.046047000000000005	Absent
Zfp740	Pattern Name Modisco Significance metacluster_0/pattern_1 0.023033900000000003	Absent
Sox12	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0055819	Absent
Zbtb1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.0416069	Absent
Maff	Pattern Name Modisco Significance metacluster_0/pattern_19 0.000336753	Absent
Sox30	Pattern Name Modisco Significance metacluster_0/pattern_9 0.00048619300000000005	Absent
Spdef	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0215496	Absent
Etv6	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0035544000000000005	Absent
Yy1	Pattern Name Modisco Significance metacluster_0/pattern_15 1.92472e-06	Absent
Klf15	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00796132	Absent
Jun	Pattern Name Modisco Significance metacluster_0/pattern_19 0.000999571	Absent
Sox5	Pattern Name Modisco Significance metacluster_0/pattern_9 0.044869099999999995	Absent
Mafk	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00010189799999999999	Absent
Elf3	Pattern Name Modisco Significance metacluster_0/pattern_4 0.015653999999999998	Absent
Erg	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0035544000000000005	Absent
Pparg	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0350154	Absent
E2f1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00124029	Absent
Nfe2	Pattern Name Modisco Significance metacluster_0/pattern_19 2.02305e-05	Absent
Sox7	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0185319	Absent
Taf1	Pattern Name Modisco Significance metacluster_0/pattern_15 3.71923e-06	Absent
Etv3	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00413213	Absent
Batf	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00855475	Absent
Lef1	Pattern Name Modisco Significance metacluster_0/pattern_9 7.47914e-05	Absent
Zic2	Pattern Name Modisco Significance metacluster_0/pattern_13 4.17321e-06	Absent
Sox14	Pattern Name Modisco Significance metacluster_0/pattern_9 0.014733600000000001	Absent
Gabpa	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00325931	Absent
Rfx7	Pattern Name Modisco Significance metacluster_0/pattern_14 0.00896681	Absent
Junb	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00424501	Absent
Six1	Pattern Name Modisco Significance metacluster_0/pattern_21 2.95108e-05	Absent
Elf5	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00880636	Absent
Sox18	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0237088	Absent
Nfe2l2	Pattern Name Modisco Significance metacluster_0/pattern_19 2.53938e-05	Absent
Mafg	Pattern Name Modisco Significance metacluster_0/pattern_19 0.000320133	Absent
Elk1	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00325931	Absent
Maz	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00709016	Absent
Nr1h3	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0296502	Absent
Fos	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00934384	Absent
Myc	Pattern Name Modisco Significance metacluster_0/pattern_8 0.047908	Absent
Mafb	Pattern Name Modisco Significance metacluster_0/pattern_19 0.0006037880000000001	Absent
Wt1	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00905325 metacluster_0/pattern_5 0.0288611	Absent
Fli1	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0035544000000000005 metacluster_0/pattern_5 0.0119262	Absent
Stat3	Pattern Name Modisco Significance metacluster_0/pattern_4 0.05575069999999999	Absent
Nkx2-9	Pattern Name Modisco Significance metacluster_0/pattern_10 0.048329500000000004	Absent
Nr2c2	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0154725	Absent
Sox21	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0148077	Absent
Zfp281	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00297286	Absent
Hlf	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0491224	Absent
Sall4	Pattern Name Modisco Significance metacluster_0/pattern_1 0.0182037	Absent
Rfx3	Pattern Name Modisco Significance metacluster_0/pattern_14 0.019728	Absent
Tead2	Pattern Name Modisco Significance metacluster_0/pattern_11 0.00407969	Absent
Spi1	Pattern Name Modisco Significance metacluster_0/pattern_4 0.015373300000000001	Absent
Stat6	Pattern Name Modisco Significance metacluster_0/pattern_4 0.05998150000000001	Absent
Maf	Pattern Name Modisco Significance metacluster_0/pattern_19 0.000851938	Absent
Fosl2	Pattern Name Modisco Significance metacluster_0/pattern_19 0.0049858	Absent
Elf2	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00679439	Absent
Bach1	Pattern Name Modisco Significance metacluster_0/pattern_19 2.79125e-05	Absent
Elk4	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0035544000000000005	Absent
Etv2	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0111561	Absent
Mlxip	Pattern Name Modisco Significance metacluster_0/pattern_8 0.048726	Absent
Sox3	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0350765	Absent
Zfx	Pattern Name Modisco Significance metacluster_0/pattern_5 0.0119262 metacluster_0/pattern_7 0.00124725 metacluster_0/pattern_15 0.0121156 metacluster_0/pattern_18 0.0159074	Absent
Rfx6	Pattern Name Modisco Significance metacluster_0/pattern_14 0.016622900000000003	Absent
Ets1	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00406407	Absent
Zfp42	Pattern Name Modisco Significance metacluster_0/pattern_15 0.00525724	Absent
Elf4	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00348323	Absent
Bach2	Pattern Name Modisco Significance metacluster_0/pattern_19 7.26214e-07	Absent
Ppara	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0197017	Absent
Sox6	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0119045	Absent
Etv5	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00257505	Absent
Zic3	Pattern Name Modisco Significance metacluster_0/pattern_13 3.82304e-05	Absent
Six4	Pattern Name Modisco Significance metacluster_0/pattern_21 2.95108e-05	Absent
Jund	Pattern Name Modisco Significance metacluster_0/pattern_19 0.046863699999999994	Absent
Zbtb17	Pattern Name Modisco Significance metacluster_0/pattern_1 0.000215446 metacluster_0/pattern_5 0.0104384	Absent
Fev	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00251163	Absent
Hnf4a	Pattern Name Modisco Significance metacluster_0/pattern_10 0.048276	Absent
Fosb	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00360568	Absent
Sox11	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0175708	Absent
Elk3	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00325931	Absent
Sox8	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0237088	Absent
Ehf	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00434608	Absent
Elf1	Pattern Name Modisco Significance metacluster_0/pattern_4 7.271569999999999e-09	Absent
Sp5	Pattern Name Modisco Significance metacluster_0/pattern_1 0.00297286	Absent
Tcfcp2l1	Pattern Name Modisco Significance metacluster_0/pattern_17 5.81039e-06	Absent
Tead4	Pattern Name Modisco Significance metacluster_0/pattern_11 0.000541885	Absent
Egr3	Pattern Name Modisco Significance metacluster_0/pattern_1 0.022381	Absent
Sry	Pattern Name Modisco Significance metacluster_0/pattern_9 0.00655831	Absent
Dbp	Pattern Name Modisco Significance metacluster_0/pattern_8 0.045879199999999995	Absent
Fosl1	Pattern Name Modisco Significance metacluster_0/pattern_19 0.00473039	Absent
Pou2f1	Pattern Name Modisco Significance metacluster_0/pattern_3 0.0574842	Absent
Etv4	Pattern Name Modisco Significance metacluster_0/pattern_4 0.0035544000000000005	Absent
Tead1	Pattern Name Modisco Significance metacluster_0/pattern_11 0.00726116	Absent
Rfx4	Pattern Name Modisco Significance metacluster_0/pattern_14 8.475540000000001e-05	Absent
XP_911724.4	Pattern Name Modisco Significance metacluster_0/pattern_4 0.00413213	Absent
Nr2f6	Pattern Name Modisco Significance metacluster_0/pattern_10 0.0123557	Absent
Sox4	Pattern Name Modisco Significance metacluster_0/pattern_9 0.0237088	Absent
Mafa	Pattern Name Modisco Significance metacluster_0/pattern_19 0.000320133	Absent
Mbd2	Pattern Name Modisco Significance metacluster_0/pattern_5 0.0119262	Absent
Max	Pattern Name Modisco Significance metacluster_0/pattern_8 0.0462879	Absent
Zbtb33	Pattern Name Modisco Significance metacluster_0/pattern_18 0.000267151	Absent
Sox17	Pattern Name Modisco Significance metacluster_0/pattern_9 0.00799584	Absent
Rfx2	Pattern Name Modisco Significance metacluster_0/pattern_14 4.76922e-07	Absent
Six2	Pattern Name Modisco Significance metacluster_0/pattern_21 3.25571e-06	Absent
Rfx1	Pattern Name Modisco Significance metacluster_0/pattern_5 0.050006699999999994 metacluster_0/pattern_7 0.05379249999999999 metacluster_0/pattern_14 8.76083e-07 metacluster_0/pattern_15 0.00583981	Absent

Unique Homer TFs: #1

TF Name	Modisco	Homer
Sox13	Absent	Pattern Name Homer Significance motif13.motif 0.058126800000000006