SP1.H12RSNP.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SP1.H12RSNP.0.P.B
Gene (human)	SP1 (GeneCards)
Gene synonyms (human)	TSFP1
Gene (mouse)	Sp1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	14
Consensus	nRKGGGCGGGGCbd
GC content	77.72%
Information content (bits; total / per base)	14.817 / 1.058
Data sources	ChIP-Seq
Aligned words	985

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)	0.878	0.971	0.756	0.932	0.928	0.987	4.159	5.518	68.137	213.194
Mouse	10 (52)	0.896	0.956	0.814	0.901	0.898	0.96	3.94	4.423	65.98	168.432

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.993	0.989	0.944	0.928	0.744	0.777
Overall, 3 experiments	best	0.995	0.991	0.969	0.963	0.768	0.805
Methyl HT-SELEX, 1 experiments	median	0.993	0.989	0.899	0.903	0.679	0.736
Methyl HT-SELEX, 1 experiments	best	0.993	0.989	0.899	0.903	0.679	0.736
Non-Methyl HT-SELEX, 2 experiments	median	0.988	0.98	0.957	0.946	0.756	0.791
Non-Methyl HT-SELEX, 2 experiments	best	0.995	0.991	0.969	0.963	0.768	0.805

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.486	1.316	0.024	0.016

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.0.P.B.pcm
PWM	SP1.H12RSNP.0.P.B.pwm
PFM	SP1.H12RSNP.0.P.B.pfm
Alignment	SP1.H12RSNP.0.P.B.words.tsv
Threshold to P-value map	SP1.H12RSNP.0.P.B.thr
Motif in other formats
JASPAR format	SP1.H12RSNP.0.P.B_jaspar_format.txt
MEME format	SP1.H12RSNP.0.P.B_meme_format.meme
Transfac format	SP1.H12RSNP.0.P.B_transfac_format.txt
Homer format	SP1.H12RSNP.0.P.B_homer_format_0.001.txt SP1.H12RSNP.0.P.B_homer_format_0.0005.txt SP1.H12RSNP.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	363.0	174.0	262.0	186.0
02	252.0	75.0	609.0	49.0
03	107.0	12.0	611.0	255.0
04	96.0	1.0	886.0	2.0
05	3.0	4.0	976.0	2.0
06	5.0	3.0	977.0	0.0
07	66.0	849.0	0.0	70.0
08	19.0	7.0	953.0	6.0
09	5.0	3.0	800.0	177.0
10	177.0	3.0	769.0	36.0
11	64.0	27.0	852.0	42.0
12	50.0	833.0	24.0	78.0
13	70.0	512.0	103.0	300.0
14	226.0	133.0	260.0	366.0

PFM

	A	C	G	T
01	0.369	0.177	0.266	0.189
02	0.256	0.076	0.618	0.05
03	0.109	0.012	0.62	0.259
04	0.097	0.001	0.899	0.002
05	0.003	0.004	0.991	0.002
06	0.005	0.003	0.992	0.0
07	0.067	0.862	0.0	0.071
08	0.019	0.007	0.968	0.006
09	0.005	0.003	0.812	0.18
10	0.18	0.003	0.781	0.037
11	0.065	0.027	0.865	0.043
12	0.051	0.846	0.024	0.079
13	0.071	0.52	0.105	0.305
14	0.229	0.135	0.264	0.372

PWM

	A	C	G	T
01	0.386	-0.344	0.062	-0.278
02	0.023	-1.173	0.901	-1.587
03	-0.825	-2.894	0.905	0.035
04	-0.931	-4.512	1.275	-4.199
05	-3.961	-3.769	1.372	-4.199
06	-3.608	-3.961	1.373	-4.969
07	-1.298	1.233	-4.969	-1.241
08	-2.482	-3.347	1.348	-3.469
09	-3.608	-3.961	1.173	-0.327
10	-0.327	-3.961	1.134	-1.883
11	-1.328	-2.156	1.236	-1.735
12	-1.567	1.214	-2.266	-1.135
13	-1.241	0.728	-0.862	0.196
14	-0.085	-0.61	0.054	0.394

Standard thresholds

P-value	Threshold
0.001	2.89921
0.0005	4.11856
0.0001	6.634065