MKX.H13INVIVO.0.PSGIB.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	MKX.H13INVIVO.0.PSGIB.A
Gene (human)	MKX (GeneCards)
Gene synonyms (human)	C10orf48, IRXL1
Gene (mouse)	Mkx
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	10
Consensus	bSnTGTTYbb
GC content	46.53%
Information content (bits; total / per base)	8.733 / 0.873
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX + SMiLe-Seq + PBM
Aligned words	1000
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)	0.7	0.718	0.549	0.593	0.639	0.644	20.073	26.509

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 5 experiments	median	0.824	0.751	0.767	0.707	0.693	0.657
overall, 5 experiments	best	0.905	0.848	0.876	0.819	0.821	0.771
Lysate, 2 experiments	median	0.863	0.799	0.818	0.76	0.746	0.706
Lysate, 2 experiments	best	0.903	0.846	0.869	0.812	0.799	0.755
IVT, 2 experiments	median	0.527	0.516	0.525	0.515	0.519	0.512
IVT, 2 experiments	best	0.527	0.516	0.529	0.516	0.524	0.514
GFPIVT, 1 experiments	median	0.905	0.848	0.876	0.819	0.821	0.771
GFPIVT, 1 experiments	best	0.905	0.848	0.876	0.819	0.821	0.771

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
Lysate, 2 experiments	median	57.206	0.643	0.718	0.555
Lysate, 2 experiments	best	67.292	0.653	0.727	0.564

SMiLE-Seq benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 1 experiments	median	0.521	0.511	0.514	0.508	0.508	0.506
Overall, 1 experiments	best	0.521	0.511	0.514	0.508	0.508	0.506

PBM benchmarking		auROC, QNZS	auPR, QNZS	auROC, SD	auPR, SD
Overall, 4 experiments	median	0.582	0.002	0.557	0.002
Overall, 4 experiments	best	0.601	0.002	0.561	0.002

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	TALE-type HD {3.1.4} (TFClass)
TF subfamily	MKX {3.1.4.3} (TFClass)
TFClass ID	TFClass: 3.1.4.3.1
HGNC	HGNC:23729
MGI	MGI:2687286
EntrezGene (human)	GeneID:283078 (SSTAR profile)
EntrezGene (mouse)	GeneID:210719 (SSTAR profile)
UniProt ID (human)	MKX_HUMAN
UniProt ID (mouse)	MKX_MOUSE
UniProt AC (human)	Q8IYA7 (TFClass)
UniProt AC (mouse)	Q8BIA3 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	2 human, 0 mouse
HT-SELEX	5 overall: 2 Lysate, 2 IVT, 1 GFPIVT
Genomic HT-SELEX	2 overall: 2 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	1
PBM	4

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

PCM

	A	C	G	T
01	110.0	285.0	205.0	400.0
02	68.0	612.0	163.0	157.0
03	329.0	210.0	182.0	279.0
04	34.0	6.0	14.0	946.0
05	3.0	8.0	977.0	12.0
06	3.0	4.0	2.0	991.0
07	18.0	39.0	3.0	940.0
08	39.0	448.0	75.0	438.0
09	43.0	450.0	267.0	240.0
10	85.0	567.0	136.0	212.0

PFM

	A	C	G	T
01	0.11	0.285	0.205	0.4
02	0.068	0.612	0.163	0.157
03	0.329	0.21	0.182	0.279
04	0.034	0.006	0.014	0.946
05	0.003	0.008	0.977	0.012
06	0.003	0.004	0.002	0.991
07	0.018	0.039	0.003	0.94
08	0.039	0.448	0.075	0.438
09	0.043	0.45	0.267	0.24
10	0.085	0.567	0.136	0.212

PWM

	A	C	G	T
01	-0.812	0.13	-0.197	0.467
02	-1.284	0.891	-0.424	-0.461
03	0.273	-0.173	-0.315	0.109
04	-1.952	-3.484	-2.773	1.326
05	-3.975	-3.253	1.358	-2.909
06	-3.975	-3.783	-4.213	1.372
07	-2.546	-1.821	-3.975	1.319
08	-1.821	0.58	-1.188	0.558
09	-1.728	0.585	0.065	-0.041
10	-1.066	0.815	-0.603	-0.164

Standard thresholds

P-value	Threshold
0.001	5.208795
0.0005	6.024125
0.0001	7.287885