SP1.H12CORE.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SP1.H12CORE.1.SM.B
Gene (human)	SP1 (GeneCards)
Gene synonyms (human)	TSFP1
Gene (mouse)	Sp1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	14
Consensus	ndKGGGCGTGKYbn
GC content	71.33%
Information content (bits; total / per base)	14.123 / 1.009
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9496

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)	0.872	0.966	0.757	0.915	0.912	0.979	3.787	4.841	69.678	186.959
Mouse	10 (52)	0.893	0.957	0.81	0.903	0.886	0.957	3.894	4.437	66.551	157.076

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.994	0.992	0.935	0.922	0.743	0.775
Overall, 3 experiments	best	0.999	0.998	0.971	0.97	0.773	0.81
Methyl HT-SELEX, 1 experiments	median	0.994	0.992	0.887	0.891	0.686	0.734
Methyl HT-SELEX, 1 experiments	best	0.994	0.992	0.887	0.891	0.686	0.734
Non-Methyl HT-SELEX, 2 experiments	median	0.993	0.988	0.953	0.946	0.758	0.792
Non-Methyl HT-SELEX, 2 experiments	best	0.999	0.998	0.971	0.97	0.773	0.81

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.242	0.556	0.043	0.025

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.H12CORE.1.SM.B.pcm
PWM	SP1.H12CORE.1.SM.B.pwm
PFM	SP1.H12CORE.1.SM.B.pfm
Alignment	SP1.H12CORE.1.SM.B.words.tsv
Threshold to P-value map	SP1.H12CORE.1.SM.B.thr
Motif in other formats
JASPAR format	SP1.H12CORE.1.SM.B_jaspar_format.txt
MEME format	SP1.H12CORE.1.SM.B_meme_format.meme
Transfac format	SP1.H12CORE.1.SM.B_transfac_format.txt
Homer format	SP1.H12CORE.1.SM.B_homer_format_0.001.txt SP1.H12CORE.1.SM.B_homer_format_0.0005.txt SP1.H12CORE.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2141.5	1715.5	3133.5	2505.5
02	1941.5	1180.5	5121.5	1252.5
03	938.0	193.0	4039.0	4326.0
04	834.0	6.0	8607.0	49.0
05	28.0	20.0	9427.0	21.0
06	5.0	0.0	9488.0	3.0
07	63.0	9365.0	6.0	62.0
08	1.0	0.0	9493.0	2.0
09	8.0	27.0	2257.0	7204.0
10	1060.0	67.0	8093.0	276.0
11	559.0	291.0	7062.0	1584.0
12	737.0	5590.0	486.0	2683.0
13	1331.75	3830.75	1510.75	2822.75
14	2522.75	1925.75	1890.75	3156.75

PFM

	A	C	G	T
01	0.226	0.181	0.33	0.264
02	0.204	0.124	0.539	0.132
03	0.099	0.02	0.425	0.456
04	0.088	0.001	0.906	0.005
05	0.003	0.002	0.993	0.002
06	0.001	0.0	0.999	0.0
07	0.007	0.986	0.001	0.007
08	0.0	0.0	1.0	0.0
09	0.001	0.003	0.238	0.759
10	0.112	0.007	0.852	0.029
11	0.059	0.031	0.744	0.167
12	0.078	0.589	0.051	0.283
13	0.14	0.403	0.159	0.297
14	0.266	0.203	0.199	0.332

PWM

	A	C	G	T
01	-0.103	-0.325	0.277	0.054
02	-0.201	-0.698	0.768	-0.639
03	-0.927	-2.499	0.531	0.6
04	-1.044	-5.658	1.287	-3.836
05	-4.362	-4.669	1.378	-4.625
06	-5.787	-6.945	1.385	-6.108
07	-3.594	1.372	-5.658	-3.61
08	-6.583	-6.945	1.385	-6.317
09	-5.442	-4.396	-0.05	1.109
10	-0.805	-3.535	1.226	-2.145
11	-1.443	-2.092	1.09	-0.404
12	-1.168	0.856	-1.582	0.122
13	-0.577	0.478	-0.451	0.173
14	0.061	-0.209	-0.227	0.285

Standard thresholds

P-value	Threshold
0.001	2.30696
0.0005	3.78181
0.0001	6.81822