DLX2.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	DLX2.H12RSNP.0.PSM.A
Gene (human)	DLX2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Dlx2
Gene synonyms (mouse)	Tes-1, Tes1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	13
Consensus	nnnbTAATTRbnn
GC content	34.25%
Information content (bits; total / per base)	11.142 / 0.857
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9566

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
Mouse	3 (21)	0.876	0.898	0.776	0.813	0.817	0.832	2.476	2.524	115.721	151.081

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 8 experiments	median	0.986	0.976	0.98	0.967	0.969	0.952
Overall, 8 experiments	best	0.993	0.989	0.989	0.981	0.983	0.973
Methyl HT-SELEX, 2 experiments	median	0.989	0.981	0.984	0.973	0.975	0.961
Methyl HT-SELEX, 2 experiments	best	0.992	0.987	0.989	0.981	0.983	0.973
Non-Methyl HT-SELEX, 6 experiments	median	0.978	0.964	0.963	0.942	0.919	0.9
Non-Methyl HT-SELEX, 6 experiments	best	0.993	0.989	0.988	0.981	0.976	0.966

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.863	0.814	0.828	0.677

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	DLX {3.1.2.5} (TFClass)
TFClass ID	TFClass: 3.1.2.5.2
HGNC	HGNC:2915
MGI	MGI:94902
EntrezGene (human)	GeneID:1746 (SSTAR profile)
EntrezGene (mouse)	GeneID:13392 (SSTAR profile)
UniProt ID (human)	DLX2_HUMAN
UniProt ID (mouse)	DLX2_MOUSE
UniProt AC (human)	Q07687 (TFClass)
UniProt AC (mouse)	P40764 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 3 mouse
HT-SELEX	6
Methyl-HT-SELEX	2

PCM	DLX2.H12RSNP.0.PSM.A.pcm
PWM	DLX2.H12RSNP.0.PSM.A.pwm
PFM	DLX2.H12RSNP.0.PSM.A.pfm
Alignment	DLX2.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	DLX2.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	DLX2.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	DLX2.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	DLX2.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	DLX2.H12RSNP.0.PSM.A_homer_format_0.001.txt DLX2.H12RSNP.0.PSM.A_homer_format_0.0005.txt DLX2.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2688.0	2080.0	2688.0	2110.0
02	2718.25	2344.25	2819.25	1684.25
03	2487.0	1844.0	3566.0	1669.0
04	1022.0	3215.0	2230.0	3099.0
05	3.0	144.0	0.0	9419.0
06	9566.0	0.0	0.0	0.0
07	9566.0	0.0	0.0	0.0
08	0.0	0.0	0.0	9566.0
09	2.0	56.0	47.0	9461.0
10	4995.0	11.0	4453.0	107.0
11	921.0	4389.0	2483.0	1773.0
12	1686.25	2689.25	2544.25	2646.25
13	2133.0	2657.0	2330.0	2446.0

PFM

	A	C	G	T
01	0.281	0.217	0.281	0.221
02	0.284	0.245	0.295	0.176
03	0.26	0.193	0.373	0.174
04	0.107	0.336	0.233	0.324
05	0.0	0.015	0.0	0.985
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.0	0.006	0.005	0.989
10	0.522	0.001	0.466	0.011
11	0.096	0.459	0.26	0.185
12	0.176	0.281	0.266	0.277
13	0.223	0.278	0.244	0.256

PWM

	A	C	G	T
01	0.117	-0.139	0.117	-0.125
02	0.128	-0.02	0.164	-0.35
03	0.039	-0.26	0.399	-0.359
04	-0.849	0.296	-0.07	0.259
05	-6.115	-2.795	-6.951	1.37
06	1.386	-6.951	-6.951	-6.951
07	1.386	-6.951	-6.951	-6.951
08	-6.951	-6.951	-6.951	1.386
09	-6.324	-3.715	-3.883	1.375
10	0.736	-5.194	0.621	-3.087
11	-0.953	0.607	0.038	-0.299
12	-0.349	0.117	0.062	0.101
13	-0.114	0.105	-0.026	0.023

Standard thresholds

P-value	Threshold
0.001	3.13456
0.0005	4.89114
0.0001	7.98572