TLX3.H12RSNP.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TLX3.H12RSNP.0.SM.B
Gene (human)	TLX3 (GeneCards)
Gene synonyms (human)	HOX11L2
Gene (mouse)	Tlx3
Gene synonyms (mouse)	Hox11l2, Rnx, Tlx1l2
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	13
Consensus	nYvTTAAKbRndn
GC content	37.99%
Information content (bits; total / per base)	10.098 / 0.777
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	398

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.713	0.656	0.648	0.609	0.596	0.577
Overall, 3 experiments	best	0.769	0.703	0.71	0.659	0.644	0.616
Methyl HT-SELEX, 2 experiments	median	0.741	0.679	0.676	0.634	0.615	0.594
Methyl HT-SELEX, 2 experiments	best	0.769	0.703	0.71	0.659	0.644	0.616
Non-Methyl HT-SELEX, 1 experiments	median	0.708	0.649	0.648	0.609	0.596	0.577
Non-Methyl HT-SELEX, 1 experiments	best	0.708	0.649	0.648	0.609	0.596	0.577

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.615	0.128	0.527	0.31

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	TLX {3.1.2.21} (TFClass)
TFClass ID	TFClass: 3.1.2.21.3
HGNC	HGNC:13532
MGI	MGI:1351209
EntrezGene (human)	GeneID:30012 (SSTAR profile)
EntrezGene (mouse)	GeneID:27140 (SSTAR profile)
UniProt ID (human)	TLX3_HUMAN
UniProt ID (mouse)	TLX3_MOUSE
UniProt AC (human)	O43711 (TFClass)
UniProt AC (mouse)	O55144 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	1
Methyl-HT-SELEX	2

PCM	TLX3.H12RSNP.0.SM.B.pcm
PWM	TLX3.H12RSNP.0.SM.B.pwm
PFM	TLX3.H12RSNP.0.SM.B.pfm
Alignment	TLX3.H12RSNP.0.SM.B.words.tsv
Threshold to P-value map	TLX3.H12RSNP.0.SM.B.thr
Motif in other formats
JASPAR format	TLX3.H12RSNP.0.SM.B_jaspar_format.txt
MEME format	TLX3.H12RSNP.0.SM.B_meme_format.meme
Transfac format	TLX3.H12RSNP.0.SM.B_transfac_format.txt
Homer format	TLX3.H12RSNP.0.SM.B_homer_format_0.001.txt TLX3.H12RSNP.0.SM.B_homer_format_0.0005.txt TLX3.H12RSNP.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	103.5	99.5	87.5	107.5
02	40.0	242.0	53.0	63.0
03	52.0	117.0	196.0	33.0
04	3.0	60.0	2.0	333.0
05	0.0	1.0	2.0	395.0
06	398.0	0.0	0.0	0.0
07	398.0	0.0	0.0	0.0
08	20.0	25.0	34.0	319.0
09	24.0	43.0	152.0	179.0
10	200.0	36.0	161.0	1.0
11	69.0	115.0	134.0	80.0
12	59.75	56.75	150.75	130.75
13	117.5	105.5	92.5	82.5

PFM

	A	C	G	T
01	0.26	0.25	0.22	0.27
02	0.101	0.608	0.133	0.158
03	0.131	0.294	0.492	0.083
04	0.008	0.151	0.005	0.837
05	0.0	0.003	0.005	0.992
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.05	0.063	0.085	0.802
09	0.06	0.108	0.382	0.45
10	0.503	0.09	0.405	0.003
11	0.173	0.289	0.337	0.201
12	0.15	0.143	0.379	0.329
13	0.295	0.265	0.232	0.207

PWM

	A	C	G	T
01	0.039	0.0	-0.126	0.076
02	-0.889	0.88	-0.617	-0.448
03	-0.635	0.16	0.671	-1.074
04	-3.112	-0.496	-3.363	1.198
05	-4.212	-3.7	-3.363	1.368
06	1.375	-4.212	-4.212	-4.212
07	1.375	-4.212	-4.212	-4.212
08	-1.547	-1.338	-1.046	1.155
09	-1.377	-0.82	0.419	0.581
10	0.691	-0.991	0.476	-3.7
11	-0.36	0.143	0.294	-0.215
12	-0.5	-0.55	0.41	0.27
13	0.164	0.058	-0.072	-0.184

Standard thresholds

P-value	Threshold
0.001	4.95726
0.0005	5.84171
0.0001	7.467275