SP1.H12RSNP.2.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SP1.H12RSNP.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	23
Consensus	SSSSSvRGGGGCGGGGCSdSSSS
GC content	87.99%
Information content (bits; total / per base)	24.061 / 1.046
Data sources	ChIP-Seq
Aligned words	999

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)	0.841	0.958	0.677	0.903	0.919	0.993	4.432	7.15	56.959	216.081
Mouse	10 (52)	0.856	0.917	0.745	0.817	0.842	0.92	3.812	4.337	46.19	106.553

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.907	0.861	0.782	0.761	0.614	0.649
Overall, 3 experiments	best	0.927	0.886	0.851	0.816	0.686	0.701
Methyl HT-SELEX, 1 experiments	median	0.907	0.861	0.782	0.761	0.614	0.649
Methyl HT-SELEX, 1 experiments	best	0.907	0.861	0.782	0.761	0.614	0.649
Non-Methyl HT-SELEX, 2 experiments	median	0.89	0.847	0.771	0.752	0.63	0.653
Non-Methyl HT-SELEX, 2 experiments	best	0.927	0.886	0.851	0.816	0.686	0.701

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.842	2.562	0.022	0.013

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.2.P.B.pcm
PWM	SP1.H12RSNP.2.P.B.pwm
PFM	SP1.H12RSNP.2.P.B.pfm
Alignment	SP1.H12RSNP.2.P.B.words.tsv
Threshold to P-value map	SP1.H12RSNP.2.P.B.thr
Motif in other formats
JASPAR format	SP1.H12RSNP.2.P.B_jaspar_format.txt
MEME format	SP1.H12RSNP.2.P.B_meme_format.meme
Transfac format	SP1.H12RSNP.2.P.B_transfac_format.txt
Homer format	SP1.H12RSNP.2.P.B_homer_format_0.001.txt SP1.H12RSNP.2.P.B_homer_format_0.0005.txt SP1.H12RSNP.2.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	75.0	369.0	507.0	48.0
02	97.0	282.0	556.0	64.0
03	101.0	169.0	650.0	79.0
04	53.0	207.0	678.0	61.0
05	101.0	262.0	568.0	68.0
06	319.0	289.0	295.0	96.0
07	187.0	162.0	629.0	21.0
08	21.0	2.0	870.0	106.0
09	26.0	0.0	973.0	0.0
10	0.0	0.0	999.0	0.0
11	0.0	4.0	992.0	3.0
12	23.0	972.0	0.0	4.0
13	0.0	1.0	997.0	1.0
14	3.0	0.0	948.0	48.0
15	24.0	0.0	971.0	4.0
16	12.0	22.0	952.0	13.0
17	36.0	924.0	19.0	20.0
18	35.0	621.0	230.0	113.0
19	130.0	117.0	501.0	251.0
20	106.0	182.0	674.0	37.0
21	83.0	201.0	704.0	11.0
22	110.0	258.0	590.0	41.0
23	54.0	339.0	532.0	74.0

PFM

	A	C	G	T
01	0.075	0.369	0.508	0.048
02	0.097	0.282	0.557	0.064
03	0.101	0.169	0.651	0.079
04	0.053	0.207	0.679	0.061
05	0.101	0.262	0.569	0.068
06	0.319	0.289	0.295	0.096
07	0.187	0.162	0.63	0.021
08	0.021	0.002	0.871	0.106
09	0.026	0.0	0.974	0.0
10	0.0	0.0	1.0	0.0
11	0.0	0.004	0.993	0.003
12	0.023	0.973	0.0	0.004
13	0.0	0.001	0.998	0.001
14	0.003	0.0	0.949	0.048
15	0.024	0.0	0.972	0.004
16	0.012	0.022	0.953	0.013
17	0.036	0.925	0.019	0.02
18	0.035	0.622	0.23	0.113
19	0.13	0.117	0.502	0.251
20	0.106	0.182	0.675	0.037
21	0.083	0.201	0.705	0.011
22	0.11	0.258	0.591	0.041
23	0.054	0.339	0.533	0.074

PWM

	A	C	G	T
01	-1.187	0.388	0.705	-1.621
02	-0.935	0.121	0.797	-1.342
03	-0.895	-0.387	0.952	-1.136
04	-1.525	-0.186	0.994	-1.389
05	-0.895	0.048	0.818	-1.283
06	0.243	0.145	0.165	-0.945
07	-0.287	-0.429	0.92	-2.404
08	-2.404	-4.212	1.243	-0.848
09	-2.205	-4.981	1.355	-4.981
10	-4.981	-4.981	1.381	-4.981
11	-4.981	-3.782	1.374	-3.974
12	-2.319	1.354	-4.981	-3.782
13	-4.981	-4.524	1.379	-4.524
14	-3.974	-4.981	1.329	-1.621
15	-2.28	-4.981	1.353	-3.782
16	-2.908	-2.361	1.333	-2.838
17	-1.897	1.303	-2.496	-2.449
18	-1.924	0.907	-0.082	-0.785
19	-0.647	-0.751	0.693	0.005
20	-0.848	-0.314	0.988	-1.871
21	-1.088	-0.215	1.032	-2.984
22	-0.811	0.032	0.856	-1.773
23	-1.507	0.304	0.753	-1.2

Standard thresholds

P-value	Threshold
0.001	-2.77129
0.0005	-1.07529
0.0001	2.52121