PAX1.H12INVIVO.0.SM.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PAX1.H12INVIVO.0.SM.D
Gene (human)	PAX1 (GeneCards)
Gene synonyms (human)	HUP48
Gene (mouse)	Pax1
Gene synonyms (mouse)	Pax-1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	D

Motif length	18
Consensus	dnbhvnYSAWGCGTRACb
GC content	53.9%
Information content (bits; total / per base)	14.024 / 0.779
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	8716

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.829	0.838	0.786	0.794	0.763	0.768
Overall, 4 experiments	best	1.0	0.999	0.999	0.998	0.995	0.993
Methyl HT-SELEX, 1 experiments	median	0.999	0.999	0.997	0.996	0.987	0.984
Methyl HT-SELEX, 1 experiments	best	0.999	0.999	0.997	0.996	0.987	0.984
Non-Methyl HT-SELEX, 3 experiments	median	0.658	0.677	0.575	0.591	0.539	0.553
Non-Methyl HT-SELEX, 3 experiments	best	1.0	0.999	0.999	0.998	0.995	0.993

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.766	0.25	0.712	0.472

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Paired box factors {3.2} (TFClass)
TF family	PD {3.2.2} (TFClass)
TF subfamily	PAX1-like {3.2.2.1} (TFClass)
TFClass ID	TFClass: 3.2.2.1.1
HGNC	HGNC:8615
MGI	MGI:97485
EntrezGene (human)	GeneID:5075 (SSTAR profile)
EntrezGene (mouse)	GeneID:18503 (SSTAR profile)
UniProt ID (human)	PAX1_HUMAN
UniProt ID (mouse)	PAX1_MOUSE
UniProt AC (human)	P15863 (TFClass)
UniProt AC (mouse)	P09084 (TFClass)
GRECO-DB-TF	yes

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

PCM	PAX1.H12INVIVO.0.SM.D.pcm
PWM	PAX1.H12INVIVO.0.SM.D.pwm
PFM	PAX1.H12INVIVO.0.SM.D.pfm
Alignment	PAX1.H12INVIVO.0.SM.D.words.tsv
Threshold to P-value map	PAX1.H12INVIVO.0.SM.D.thr
Motif in other formats
JASPAR format	PAX1.H12INVIVO.0.SM.D_jaspar_format.txt
MEME format	PAX1.H12INVIVO.0.SM.D_meme_format.meme
Transfac format	PAX1.H12INVIVO.0.SM.D_transfac_format.txt
Homer format	PAX1.H12INVIVO.0.SM.D_homer_format_0.001.txt PAX1.H12INVIVO.0.SM.D_homer_format_0.0005.txt PAX1.H12INVIVO.0.SM.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2507.5	1306.5	3552.5	1349.5
02	2189.75	2256.75	1994.75	2274.75
03	518.0	1994.0	2265.0	3939.0
04	1541.0	4995.0	499.0	1681.0
05	4508.0	1294.0	2495.0	419.0
06	2465.0	1720.0	2765.0	1766.0
07	201.0	1872.0	464.0	6179.0
08	458.0	4344.0	3064.0	850.0
09	6906.0	45.0	1385.0	380.0
10	6464.0	191.0	187.0	1874.0
11	1.0	1486.0	7223.0	6.0
12	3.0	8689.0	17.0	7.0
13	1191.0	8.0	7479.0	38.0
14	36.0	167.0	238.0	8275.0
15	1790.0	70.0	6500.0	356.0
16	7280.0	273.0	353.0	810.0
17	1128.75	6963.75	225.75	397.75
18	1206.25	2858.25	3316.25	1335.25

PFM

	A	C	G	T
01	0.288	0.15	0.408	0.155
02	0.251	0.259	0.229	0.261
03	0.059	0.229	0.26	0.452
04	0.177	0.573	0.057	0.193
05	0.517	0.148	0.286	0.048
06	0.283	0.197	0.317	0.203
07	0.023	0.215	0.053	0.709
08	0.053	0.498	0.352	0.098
09	0.792	0.005	0.159	0.044
10	0.742	0.022	0.021	0.215
11	0.0	0.17	0.829	0.001
12	0.0	0.997	0.002	0.001
13	0.137	0.001	0.858	0.004
14	0.004	0.019	0.027	0.949
15	0.205	0.008	0.746	0.041
16	0.835	0.031	0.041	0.093
17	0.13	0.799	0.026	0.046
18	0.138	0.328	0.38	0.153

PWM

	A	C	G	T
01	0.14	-0.511	0.488	-0.478
02	0.005	0.035	-0.088	0.043
03	-1.433	-0.089	0.039	0.592
04	-0.346	0.829	-1.471	-0.259
05	0.726	-0.52	0.135	-1.644
06	0.123	-0.236	0.238	-0.21
07	-2.373	-0.152	-1.543	1.042
08	-1.556	0.689	0.341	-0.94
09	1.153	-3.832	-0.453	-1.742
10	1.087	-2.424	-2.444	-0.151
11	-6.503	-0.382	1.198	-5.575
12	-6.026	1.382	-4.729	-5.461
13	-0.603	-5.359	1.232	-3.992
14	-4.043	-2.556	-2.206	1.334
15	-0.196	-3.407	1.092	-1.806
16	1.206	-2.07	-1.815	-0.988
17	-0.657	1.161	-2.258	-1.696
18	-0.591	0.271	0.42	-0.489

Standard thresholds

P-value	Threshold
0.001	3.30826
0.0005	4.46881
0.0001	6.82436