TFE3.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TFE3.H12INVITRO.0.PSM.A
Gene (human)	TFE3 (GeneCards)
Gene synonyms (human)	BHLHE33
Gene (mouse)	Tfe3
Gene synonyms (mouse)	Tcfe3
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	nRTCACGTGvn
GC content	58.97%
Information content (bits; total / per base)	13.767 / 1.252
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9372

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	pseudo-log-auROC, median	pseudo-log-auROC, best	Centrality, median	Centrality, best
Human	1 (7)	0.793	0.802	0.7	0.717	0.759	0.773	2.557	2.653	241.0	269.509
Mouse	9 (60)	0.992	0.997	0.982	0.992	0.986	0.995	5.591	5.95	546.261	1107.824

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.98	0.973	0.896	0.895	0.815	0.822
Overall, 4 experiments	best	0.996	0.993	0.995	0.991	0.992	0.986
Methyl HT-SELEX, 1 experiments	median	0.996	0.993	0.982	0.976	0.966	0.952
Methyl HT-SELEX, 1 experiments	best	0.996	0.993	0.982	0.976	0.966	0.952
Non-Methyl HT-SELEX, 3 experiments	median	0.964	0.954	0.81	0.814	0.665	0.692
Non-Methyl HT-SELEX, 3 experiments	best	0.996	0.992	0.995	0.991	0.992	0.986

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.963	0.84	0.929	0.554
batch 2	0.655	0.334	0.627	0.419

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	bHLH-ZIP {1.2.6} (TFClass)
TF subfamily	TFE3 {1.2.6.1} (TFClass)
TFClass ID	TFClass: 1.2.6.1.1
HGNC	HGNC:11752
MGI	MGI:98511
EntrezGene (human)	GeneID:7030 (SSTAR profile)
EntrezGene (mouse)	GeneID:209446 (SSTAR profile)
UniProt ID (human)	TFE3_HUMAN
UniProt ID (mouse)	TFE3_MOUSE
UniProt AC (human)	P19532 (TFClass)
UniProt AC (mouse)	Q64092 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 9 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	TFE3.H12INVITRO.0.PSM.A.pcm
PWM	TFE3.H12INVITRO.0.PSM.A.pwm
PFM	TFE3.H12INVITRO.0.PSM.A.pfm
Alignment	TFE3.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	TFE3.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	TFE3.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	TFE3.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	TFE3.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	TFE3.H12INVITRO.0.PSM.A_homer_format_0.001.txt TFE3.H12INVITRO.0.PSM.A_homer_format_0.0005.txt TFE3.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2364.0	2294.0	2913.0	1801.0
02	3615.0	770.0	4932.0	55.0
03	19.0	313.0	1603.0	7437.0
04	0.0	9372.0	0.0	0.0
05	9372.0	0.0	0.0	0.0
06	0.0	9372.0	0.0	0.0
07	2.0	0.0	9370.0	0.0
08	8.0	93.0	0.0	9271.0
09	4.0	1.0	9333.0	34.0
10	1916.5	3680.5	2437.5	1337.5
11	1966.0	2156.0	2151.0	3099.0

PFM

	A	C	G	T
01	0.252	0.245	0.311	0.192
02	0.386	0.082	0.526	0.006
03	0.002	0.033	0.171	0.794
04	0.0	1.0	0.0	0.0
05	1.0	0.0	0.0	0.0
06	0.0	1.0	0.0	0.0
07	0.0	0.0	1.0	0.0
08	0.001	0.01	0.0	0.989
09	0.0	0.0	0.996	0.004
10	0.204	0.393	0.26	0.143
11	0.21	0.23	0.23	0.331

PWM

	A	C	G	T
01	0.009	-0.021	0.218	-0.263
02	0.433	-1.111	0.744	-3.712
03	-4.702	-2.007	-0.379	1.154
04	-6.933	1.386	-6.933	-6.933
05	1.386	-6.933	-6.933	-6.933
06	-6.933	1.386	-6.933	-6.933
07	-6.305	-6.933	1.385	-6.933
08	-5.429	-3.203	-6.933	1.375
09	-5.922	-6.57	1.381	-4.169
10	-0.201	0.451	0.04	-0.56
11	-0.175	-0.083	-0.085	0.279

Standard thresholds

P-value	Threshold
0.001	1.03459
0.0005	2.24969
0.0001	6.734945