LEUTX.H13INVIVO.0.PSGB.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	LEUTX.H13INVIVO.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	35.37%
Information content (bits; total / per base)	8.221 / 1.028
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + PBM
Aligned words	738
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)	0.771	0.794	0.611	0.641	0.785	0.804	53.535	76.076

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 3 experiments	median	0.999	0.998	0.996	0.994	0.987	0.982
overall, 3 experiments	best	0.999	0.999	0.998	0.998	0.996	0.994
Lysate, 2 experiments	median	0.996	0.994	0.988	0.984	0.951	0.946
Lysate, 2 experiments	best	0.999	0.998	0.996	0.994	0.987	0.982
GFPIVT, 1 experiments	median	0.999	0.999	0.998	0.998	0.996	0.994
GFPIVT, 1 experiments	best	0.999	0.999	0.998	0.998	0.996	0.994

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 3 experiments	median	454.699	0.931	0.977	0.916
overall, 3 experiments	best	514.229	0.937	0.981	0.945
Lysate, 2 experiments	median	496.964	0.931	0.98	0.933
Lysate, 2 experiments	best	514.229	0.933	0.981	0.945
GFPIVT, 1 experiments	median	427.533	0.933	0.968	0.897
GFPIVT, 1 experiments	best	429.699	0.937	0.975	0.91

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 8 experiments	median	0.785	0.046	0.76	0.097
Overall, 8 experiments	best	0.853	0.082	0.892	0.17

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.H13INVIVO.0.PSGB.A.pcm
PWM	LEUTX.H13INVIVO.0.PSGB.A.pwm
PFM	LEUTX.H13INVIVO.0.PSGB.A.pfm
Threshold to P-value map	LEUTX.H13INVIVO.0.PSGB.A.thr
Motif in other formats
JASPAR format	LEUTX.H13INVIVO.0.PSGB.A_jaspar_format.txt
MEME format	LEUTX.H13INVIVO.0.PSGB.A_meme_format.meme
Transfac format	LEUTX.H13INVIVO.0.PSGB.A_transfac_format.txt
Homer format	LEUTX.H13INVIVO.0.PSGB.A_homer_format_0.001.txt LEUTX.H13INVIVO.0.PSGB.A_homer_format_0.0005.txt LEUTX.H13INVIVO.0.PSGB.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	160.0	183.0	131.0	264.0
02	42.0	10.0	7.0	679.0
03	649.0	7.0	69.0	13.0
04	702.0	8.0	9.0	19.0
05	12.0	9.0	26.0	691.0
06	10.0	675.0	4.0	49.0
07	32.0	469.0	67.0	170.0
08	152.0	228.0	186.0	172.0

PFM

	A	C	G	T
01	0.217	0.248	0.178	0.358
02	0.057	0.014	0.009	0.92
03	0.879	0.009	0.093	0.018
04	0.951	0.011	0.012	0.026
05	0.016	0.012	0.035	0.936
06	0.014	0.915	0.005	0.066
07	0.043	0.636	0.091	0.23
08	0.206	0.309	0.252	0.233

PWM

	A	C	G	T
01	-0.141	-0.008	-0.339	0.356
02	-1.45	-2.771	-3.069	1.296
03	1.251	-3.069	-0.969	-2.542
04	1.33	-2.959	-2.861	-2.199
05	-2.613	-2.861	-1.907	1.314
06	-2.771	1.291	-3.495	-1.302
07	-1.711	0.928	-0.998	-0.081
08	-0.192	0.21	0.008	-0.07

Standard thresholds

P-value	Threshold
0.001	5.006805
0.0005	5.86697
0.0001	7.378625