SP1.H12RSNP.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SP1.H12RSNP.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	17
Consensus	nndRKGGGCGTGGCYWh
GC content	63.97%
Information content (bits; total / per base)	17.024 / 1.001
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	2479

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)	0.852	0.947	0.743	0.882	0.876	0.958	3.62	4.539	39.553	130.071
Mouse	10 (52)	0.879	0.946	0.779	0.885	0.872	0.945	3.848	4.481	51.225	138.268

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.997	0.997	0.923	0.915	0.719	0.759
Overall, 3 experiments	best	1.0	1.0	0.976	0.976	0.774	0.813
Methyl HT-SELEX, 1 experiments	median	0.997	0.997	0.894	0.901	0.694	0.741
Methyl HT-SELEX, 1 experiments	best	0.997	0.997	0.894	0.901	0.694	0.741
Non-Methyl HT-SELEX, 2 experiments	median	0.994	0.99	0.95	0.946	0.746	0.786
Non-Methyl HT-SELEX, 2 experiments	best	1.0	1.0	0.976	0.976	0.774	0.813

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.57	1.545	0.046	0.02

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.H12RSNP.1.SM.B.pcm
PWM	SP1.H12RSNP.1.SM.B.pwm
PFM	SP1.H12RSNP.1.SM.B.pfm
Alignment	SP1.H12RSNP.1.SM.B.words.tsv
Threshold to P-value map	SP1.H12RSNP.1.SM.B.thr
Motif in other formats
JASPAR format	SP1.H12RSNP.1.SM.B_jaspar_format.txt
MEME format	SP1.H12RSNP.1.SM.B_meme_format.meme
Transfac format	SP1.H12RSNP.1.SM.B_transfac_format.txt
Homer format	SP1.H12RSNP.1.SM.B_homer_format_0.001.txt SP1.H12RSNP.1.SM.B_homer_format_0.0005.txt SP1.H12RSNP.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	676.75	429.75	754.75	617.75
02	800.0	309.0	717.0	653.0
03	1031.0	247.0	547.0	654.0
04	617.0	71.0	1637.0	154.0
05	143.0	43.0	1007.0	1286.0
06	122.0	25.0	2269.0	63.0
07	24.0	53.0	2351.0	51.0
08	50.0	13.0	2391.0	25.0
09	58.0	2369.0	7.0	45.0
10	5.0	2.0	2447.0	25.0
11	12.0	5.0	226.0	2236.0
12	175.0	12.0	2265.0	27.0
13	67.0	19.0	2314.0	79.0
14	58.0	2067.0	69.0	285.0
15	87.0	1022.0	100.0	1270.0
16	824.75	121.75	130.75	1401.75
17	1089.5	489.5	429.5	470.5

PFM

	A	C	G	T
01	0.273	0.173	0.304	0.249
02	0.323	0.125	0.289	0.263
03	0.416	0.1	0.221	0.264
04	0.249	0.029	0.66	0.062
05	0.058	0.017	0.406	0.519
06	0.049	0.01	0.915	0.025
07	0.01	0.021	0.948	0.021
08	0.02	0.005	0.965	0.01
09	0.023	0.956	0.003	0.018
10	0.002	0.001	0.987	0.01
11	0.005	0.002	0.091	0.902
12	0.071	0.005	0.914	0.011
13	0.027	0.008	0.933	0.032
14	0.023	0.834	0.028	0.115
15	0.035	0.412	0.04	0.512
16	0.333	0.049	0.053	0.565
17	0.439	0.197	0.173	0.19

PWM

	A	C	G	T
01	0.088	-0.365	0.197	-0.003
02	0.255	-0.693	0.145	0.052
03	0.508	-0.915	-0.124	0.054
04	-0.004	-2.143	0.969	-1.383
05	-1.456	-2.627	0.484	0.728
06	-1.613	-3.138	1.295	-2.259
07	-3.176	-2.426	1.331	-2.463
08	-2.482	-3.727	1.348	-3.138
09	-2.339	1.339	-4.24	-2.583
10	-4.493	-5.058	1.371	-3.138
11	-3.797	-4.493	-1.003	1.281
12	-1.257	-3.797	1.294	-3.067
13	-2.199	-3.39	1.315	-2.039
14	-2.339	1.202	-2.17	-0.773
15	-1.944	0.499	-1.808	0.716
16	0.285	-1.615	-1.544	0.814
17	0.563	-0.235	-0.365	-0.275

Standard thresholds

P-value	Threshold
0.001	1.80121
0.0005	3.09871
0.0001	5.82951