LEUTX.H13INVITRO.0.PSGB.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	LEUTX.H13INVITRO.0.PSGB.A
Gene (human)	LEUTX (GeneCards)
Gene synonyms (human)
Gene (mouse)
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	8
Consensus	nTAATCYn
GC content	37.26%
Information content (bits; total / per base)	8.594 / 1.074
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + PBM
Aligned words	520
Previous names

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	Centrality, median	Centrality, best
Overall	2 (4)	0.772	0.795	0.614	0.641	0.768	0.787	50.2	64.347

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 3 experiments	median	0.999	0.998	0.997	0.995	0.987	0.983
overall, 3 experiments	best	1.0	0.999	0.999	0.999	0.996	0.995
Lysate, 2 experiments	median	0.997	0.996	0.989	0.985	0.95	0.946
Lysate, 2 experiments	best	0.999	0.998	0.997	0.995	0.987	0.983
GFPIVT, 1 experiments	median	1.0	0.999	0.999	0.999	0.996	0.995
GFPIVT, 1 experiments	best	1.0	0.999	0.999	0.999	0.996	0.995

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 3 experiments	median	490.089	0.933	0.978	0.916
overall, 3 experiments	best	525.699	0.937	0.982	0.941
Lysate, 2 experiments	median	522.293	0.933	0.981	0.931
Lysate, 2 experiments	best	525.699	0.934	0.982	0.941
GFPIVT, 1 experiments	median	451.314	0.932	0.97	0.901
GFPIVT, 1 experiments	best	461.292	0.937	0.977	0.911

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 8 experiments	median	0.778	0.041	0.744	0.097
Overall, 8 experiments	best	0.852	0.08	0.876	0.173

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	Paired-related HD {3.1.3} (TFClass)
TF subfamily	LEUTX {3.1.3.13} (TFClass)
TFClass ID	TFClass: 3.1.3.13.1
HGNC	HGNC:31953
MGI
EntrezGene (human)	GeneID:342900 (SSTAR profile)
EntrezGene (mouse)
UniProt ID (human)	LEUTX_HUMAN
UniProt ID (mouse)
UniProt AC (human)	A8MZ59 (TFClass)
UniProt AC (mouse)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 0 mouse
HT-SELEX	3 overall: 2 Lysate, 0 IVT, 1 GFPIVT
Genomic HT-SELEX	3 overall: 2 Lysate, 0 IVT, 1 GFPIVT
SMiLE-Seq	0
PBM	8

PCM	LEUTX.H13INVITRO.0.PSGB.A.pcm
PWM	LEUTX.H13INVITRO.0.PSGB.A.pwm
PFM	LEUTX.H13INVITRO.0.PSGB.A.pfm
Threshold to P-value map	LEUTX.H13INVITRO.0.PSGB.A.thr
Motif in other formats
JASPAR format	LEUTX.H13INVITRO.0.PSGB.A_jaspar_format.txt
MEME format	LEUTX.H13INVITRO.0.PSGB.A_meme_format.meme
Transfac format	LEUTX.H13INVITRO.0.PSGB.A_transfac_format.txt
Homer format	LEUTX.H13INVITRO.0.PSGB.A_homer_format_0.001.txt LEUTX.H13INVITRO.0.PSGB.A_homer_format_0.0005.txt LEUTX.H13INVITRO.0.PSGB.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	147.0	135.0	87.0	151.0
02	58.0	17.0	2.0	443.0
03	440.0	0.0	59.0	21.0
04	496.0	9.0	11.0	4.0
05	0.0	0.0	15.0	505.0
06	0.0	520.0	0.0	0.0
07	26.0	339.0	65.0	90.0
08	119.0	146.0	145.0	110.0

PFM

	A	C	G	T
01	0.283	0.26	0.167	0.29
02	0.112	0.033	0.004	0.852
03	0.846	0.0	0.113	0.04
04	0.954	0.017	0.021	0.008
05	0.0	0.0	0.029	0.971
06	0.0	1.0	0.0	0.0
07	0.05	0.652	0.125	0.173
08	0.229	0.281	0.279	0.212

PWM

	A	C	G	T
01	0.122	0.037	-0.396	0.148
02	-0.792	-1.958	-3.609	1.218
03	1.211	-4.433	-0.776	-1.763
04	1.33	-2.522	-2.349	-3.163
05	-4.433	-4.433	-2.072	1.348
06	-4.433	1.377	-4.433	-4.433
07	-1.563	0.951	-0.681	-0.362
08	-0.087	0.115	0.108	-0.165

Standard thresholds

P-value	Threshold
0.001	5.391975
0.0005	5.954305
0.0001	7.488805