LBX2.H12INVIVO.2.M.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	LBX2.H12INVIVO.2.M.D
Gene (human)	LBX2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Lbx2
Gene synonyms (mouse)	Lbx2h
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	D

Motif length	14
Consensus	nbMTMATTAAYbnn
GC content	32.71%
Information content (bits; total / per base)	12.005 / 0.857
Data sources	Methyl-HT-SELEX
Aligned words	1842

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.938	0.912	0.878	0.849	0.768	0.759
Overall, 4 experiments	best	0.991	0.987	0.982	0.973	0.959	0.945
Methyl HT-SELEX, 1 experiments	median	0.681	0.654	0.612	0.596	0.57	0.564
Methyl HT-SELEX, 1 experiments	best	0.681	0.654	0.612	0.596	0.57	0.564
Non-Methyl HT-SELEX, 3 experiments	median	0.972	0.957	0.94	0.917	0.839	0.826
Non-Methyl HT-SELEX, 3 experiments	best	0.991	0.987	0.982	0.973	0.959	0.945

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	NK-related {3.1.2} (TFClass)
TF subfamily	LBX {3.1.2.10} (TFClass)
TFClass ID	TFClass: 3.1.2.10.2
HGNC	HGNC:15525
MGI	MGI:1342288
EntrezGene (human)	GeneID:85474 (SSTAR profile)
EntrezGene (mouse)	GeneID:16815 (SSTAR profile)
UniProt ID (human)	LBX2_HUMAN
UniProt ID (mouse)	LBX2_MOUSE
UniProt AC (human)	Q6XYB7 (TFClass)
UniProt AC (mouse)	Q9WUN8 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	LBX2.H12INVIVO.2.M.D.pcm
PWM	LBX2.H12INVIVO.2.M.D.pwm
PFM	LBX2.H12INVIVO.2.M.D.pfm
Alignment	LBX2.H12INVIVO.2.M.D.words.tsv
Threshold to P-value map	LBX2.H12INVIVO.2.M.D.thr
Motif in other formats
JASPAR format	LBX2.H12INVIVO.2.M.D_jaspar_format.txt
MEME format	LBX2.H12INVIVO.2.M.D_meme_format.meme
Transfac format	LBX2.H12INVIVO.2.M.D_transfac_format.txt
Homer format	LBX2.H12INVIVO.2.M.D_homer_format_0.001.txt LBX2.H12INVIVO.2.M.D_homer_format_0.0005.txt LBX2.H12INVIVO.2.M.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	525.0	329.0	547.0	441.0
02	263.25	803.25	498.25	277.25
03	278.0	1278.0	128.0	158.0
04	27.0	185.0	28.0	1602.0
05	1029.0	804.0	1.0	8.0
06	1203.0	9.0	630.0	0.0
07	1.0	1.0	0.0	1840.0
08	0.0	3.0	0.0	1839.0
09	1823.0	3.0	16.0	0.0
10	1464.0	92.0	234.0	52.0
11	31.0	535.0	247.0	1029.0
12	231.0	292.0	467.0	852.0
13	950.75	296.75	296.75	297.75
14	565.75	370.75	339.75	565.75

PFM

	A	C	G	T
01	0.285	0.179	0.297	0.239
02	0.143	0.436	0.27	0.151
03	0.151	0.694	0.069	0.086
04	0.015	0.1	0.015	0.87
05	0.559	0.436	0.001	0.004
06	0.653	0.005	0.342	0.0
07	0.001	0.001	0.0	0.999
08	0.0	0.002	0.0	0.998
09	0.99	0.002	0.009	0.0
10	0.795	0.05	0.127	0.028
11	0.017	0.29	0.134	0.559
12	0.125	0.159	0.254	0.463
13	0.516	0.161	0.161	0.162
14	0.307	0.201	0.184	0.307

PWM

	A	C	G	T
01	0.131	-0.335	0.171	-0.043
02	-0.556	0.555	0.078	-0.505
03	-0.502	1.018	-1.27	-1.062
04	-2.773	-0.906	-2.739	1.244
05	0.802	0.556	-5.079	-3.846
06	0.958	-3.749	0.312	-5.505
07	-5.079	-5.079	-5.505	1.382
08	-5.505	-4.551	-5.505	1.382
09	1.373	-4.551	-3.253	-5.505
10	1.154	-1.594	-0.673	-2.15
11	-2.644	0.149	-0.619	0.802
12	-0.686	-0.453	0.014	0.613
13	0.723	-0.437	-0.437	-0.434
14	0.205	-0.216	-0.303	0.205

Standard thresholds

P-value	Threshold
0.001	3.96421
0.0005	5.19251
0.0001	7.43371