HXA11.H12INVIVO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HXA11.H12INVIVO.0.PS.A
Gene (human)	HOXA11 (GeneCards)
Gene synonyms (human)	HOX1I
Gene (mouse)	Hoxa11
Gene synonyms (mouse)	Hox-1.9, Hoxa-11
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	14
Consensus	WTTTATKRbbhbhh
GC content	31.9%
Information content (bits; total / per base)	11.213 / 0.801
Data sources	ChIP-Seq + HT-SELEX
Aligned words	980

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	2 (14)	0.796	0.852	0.679	0.729	0.768	0.851	2.5	2.893	33.959	83.796

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.858	0.803	0.767	0.727	0.652	0.648
Overall, 4 experiments	best	0.909	0.864	0.824	0.787	0.68	0.686
Methyl HT-SELEX, 1 experiments	median	0.853	0.792	0.766	0.723	0.648	0.645
Methyl HT-SELEX, 1 experiments	best	0.853	0.792	0.766	0.723	0.648	0.645
Non-Methyl HT-SELEX, 3 experiments	median	0.863	0.814	0.768	0.732	0.655	0.652
Non-Methyl HT-SELEX, 3 experiments	best	0.909	0.864	0.824	0.787	0.68	0.686

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HOX-related {3.1.1} (TFClass)
TF subfamily	HOX9-13 {3.1.1.8} (TFClass)
TFClass ID	TFClass: 3.1.1.8.9
HGNC	HGNC:5101
MGI	MGI:96172
EntrezGene (human)	GeneID:3207 (SSTAR profile)
EntrezGene (mouse)	GeneID:15396 (SSTAR profile)
UniProt ID (human)	HXA11_HUMAN
UniProt ID (mouse)	HXA11_MOUSE
UniProt AC (human)	P31270 (TFClass)
UniProt AC (mouse)	P31311 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 2 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	HXA11.H12INVIVO.0.PS.A.pcm
PWM	HXA11.H12INVIVO.0.PS.A.pwm
PFM	HXA11.H12INVIVO.0.PS.A.pfm
Alignment	HXA11.H12INVIVO.0.PS.A.words.tsv
Threshold to P-value map	HXA11.H12INVIVO.0.PS.A.thr
Motif in other formats
JASPAR format	HXA11.H12INVIVO.0.PS.A_jaspar_format.txt
MEME format	HXA11.H12INVIVO.0.PS.A_meme_format.meme
Transfac format	HXA11.H12INVIVO.0.PS.A_transfac_format.txt
Homer format	HXA11.H12INVIVO.0.PS.A_homer_format_0.001.txt HXA11.H12INVIVO.0.PS.A_homer_format_0.0005.txt HXA11.H12INVIVO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	98.0	64.0	76.0	742.0
02	3.0	10.0	7.0	960.0
03	3.0	6.0	4.0	967.0
04	204.0	17.0	21.0	738.0
05	935.0	30.0	8.0	7.0
06	11.0	54.0	43.0	872.0
07	82.0	10.0	639.0	249.0
08	398.0	21.0	494.0	67.0
09	23.0	457.0	342.0	158.0
10	96.0	416.0	157.0	311.0
11	144.0	229.0	68.0	539.0
12	146.0	195.0	276.0	363.0
13	181.0	252.0	144.0	403.0
14	178.0	209.0	127.0	466.0

PFM

	A	C	G	T
01	0.1	0.065	0.078	0.757
02	0.003	0.01	0.007	0.98
03	0.003	0.006	0.004	0.987
04	0.208	0.017	0.021	0.753
05	0.954	0.031	0.008	0.007
06	0.011	0.055	0.044	0.89
07	0.084	0.01	0.652	0.254
08	0.406	0.021	0.504	0.068
09	0.023	0.466	0.349	0.161
10	0.098	0.424	0.16	0.317
11	0.147	0.234	0.069	0.55
12	0.149	0.199	0.282	0.37
13	0.185	0.257	0.147	0.411
14	0.182	0.213	0.13	0.476

PWM

	A	C	G	T
01	-0.906	-1.323	-1.155	1.103
02	-3.956	-3.047	-3.342	1.36
03	-3.956	-3.464	-3.764	1.368
04	-0.182	-2.579	-2.385	1.098
05	1.334	-2.051	-3.234	-3.342
06	-2.965	-1.488	-1.708	1.265
07	-1.081	-3.047	0.954	0.016
08	0.483	-2.385	0.698	-1.278
09	-2.301	0.62	0.332	-0.435
10	-0.926	0.527	-0.441	0.237
11	-0.527	-0.067	-1.264	0.785
12	-0.513	-0.226	0.118	0.391
13	-0.3	0.028	-0.527	0.495
14	-0.317	-0.158	-0.651	0.64

Standard thresholds

P-value	Threshold
0.001	4.41666
0.0005	5.37766
0.0001	7.31341