SP1.H12INVITRO.2.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SP1.H12INVITRO.2.P.B
Gene (human)	SP1 (GeneCards)
Gene synonyms (human)	TSFP1
Gene (mouse)	Sp1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	21
Consensus	vvndRKGGGCGGGGCYdvvvv
GC content	74.43%
Information content (bits; total / per base)	17.156 / 0.817
Data sources	ChIP-Seq
Aligned words	922

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
Human	14 (91)	0.862	0.965	0.716	0.911	0.94	0.992	4.619	6.441	64.824	176.292
Mouse	10 (52)	0.88	0.946	0.78	0.873	0.894	0.96	4.175	4.72	51.301	144.119

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.973	0.957	0.859	0.855	0.659	0.707
Overall, 3 experiments	best	0.979	0.965	0.932	0.915	0.74	0.77
Methyl HT-SELEX, 1 experiments	median	0.973	0.957	0.859	0.855	0.659	0.707
Methyl HT-SELEX, 1 experiments	best	0.973	0.957	0.859	0.855	0.659	0.707
Non-Methyl HT-SELEX, 2 experiments	median	0.96	0.94	0.851	0.846	0.672	0.711
Non-Methyl HT-SELEX, 2 experiments	best	0.979	0.965	0.932	0.915	0.74	0.77

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.256	0.557	0.025	0.011

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	Three-zinc finger Kruppel-related {2.3.1} (TFClass)
TF subfamily	Sp1-like {2.3.1.1} (TFClass)
TFClass ID	TFClass: 2.3.1.1.1
HGNC	HGNC:11205
MGI	MGI:98372
EntrezGene (human)	GeneID:6667 (SSTAR profile)
EntrezGene (mouse)	GeneID:20683 (SSTAR profile)
UniProt ID (human)	SP1_HUMAN
UniProt ID (mouse)	SP1_MOUSE
UniProt AC (human)	P08047 (TFClass)
UniProt AC (mouse)	O89090 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	14 human, 10 mouse
HT-SELEX	2
Methyl-HT-SELEX	1

PCM	SP1.H12INVITRO.2.P.B.pcm
PWM	SP1.H12INVITRO.2.P.B.pwm
PFM	SP1.H12INVITRO.2.P.B.pfm
Alignment	SP1.H12INVITRO.2.P.B.words.tsv
Threshold to P-value map	SP1.H12INVITRO.2.P.B.thr
Motif in other formats
JASPAR format	SP1.H12INVITRO.2.P.B_jaspar_format.txt
MEME format	SP1.H12INVITRO.2.P.B_meme_format.meme
Transfac format	SP1.H12INVITRO.2.P.B_transfac_format.txt
Homer format	SP1.H12INVITRO.2.P.B_homer_format_0.001.txt SP1.H12INVITRO.2.P.B_homer_format_0.0005.txt SP1.H12INVITRO.2.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	163.0	153.0	497.0	109.0
02	132.0	154.0	506.0	130.0
03	241.0	216.0	330.0	135.0
04	431.0	107.0	249.0	135.0
05	323.0	35.0	523.0	41.0
06	120.0	2.0	637.0	163.0
07	124.0	1.0	796.0	1.0
08	11.0	0.0	910.0	1.0
09	6.0	0.0	916.0	0.0
10	24.0	834.0	0.0	64.0
11	9.0	4.0	903.0	6.0
12	9.0	5.0	784.0	124.0
13	129.0	2.0	762.0	29.0
14	92.0	23.0	782.0	25.0
15	86.0	741.0	17.0	78.0
16	73.0	557.0	94.0	198.0
17	302.0	111.0	216.0	293.0
18	211.0	128.0	476.0	107.0
19	226.0	116.0	504.0	76.0
20	180.0	157.0	497.0	88.0
21	143.0	274.0	393.0	112.0

PFM

	A	C	G	T
01	0.177	0.166	0.539	0.118
02	0.143	0.167	0.549	0.141
03	0.261	0.234	0.358	0.146
04	0.467	0.116	0.27	0.146
05	0.35	0.038	0.567	0.044
06	0.13	0.002	0.691	0.177
07	0.134	0.001	0.863	0.001
08	0.012	0.0	0.987	0.001
09	0.007	0.0	0.993	0.0
10	0.026	0.905	0.0	0.069
11	0.01	0.004	0.979	0.007
12	0.01	0.005	0.85	0.134
13	0.14	0.002	0.826	0.031
14	0.1	0.025	0.848	0.027
15	0.093	0.804	0.018	0.085
16	0.079	0.604	0.102	0.215
17	0.328	0.12	0.234	0.318
18	0.229	0.139	0.516	0.116
19	0.245	0.126	0.547	0.082
20	0.195	0.17	0.539	0.095
21	0.155	0.297	0.426	0.121

PWM

	A	C	G	T
01	-0.343	-0.406	0.764	-0.741
02	-0.552	-0.4	0.782	-0.567
03	0.044	-0.064	0.357	-0.53
04	0.622	-0.759	0.077	-0.53
05	0.335	-1.845	0.815	-1.693
06	-0.646	-4.138	1.012	-0.343
07	-0.614	-4.452	1.234	-4.452
08	-2.906	-4.913	1.368	-4.452
09	-3.406	-4.913	1.374	-4.913
10	-2.201	1.281	-4.913	-1.262
11	-3.077	-3.706	1.36	-3.406
12	-3.077	-3.545	1.219	-0.614
13	-0.575	-4.138	1.191	-2.023
14	-0.907	-2.241	1.216	-2.163
15	-0.974	1.163	-2.519	-1.069
16	-1.134	0.878	-0.886	-0.151
17	0.268	-0.723	-0.064	0.238
18	-0.088	-0.582	0.721	-0.759
19	-0.02	-0.679	0.778	-1.095
20	-0.245	-0.381	0.764	-0.951
21	-0.473	0.172	0.531	-0.714

Standard thresholds

P-value	Threshold
0.001	1.92776
0.0005	3.23856
0.0001	5.96766