SPIB.H12RSNP.1.S.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SPIB.H12RSNP.1.S.C
Gene (human)	SPIB (GeneCards)
Gene synonyms (human)
Gene (mouse)	Spib
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	C

Motif length	13
Consensus	RAAWGMGGAAGTd
GC content	40.31%
Information content (bits; total / per base)	17.316 / 1.332
Data sources	HT-SELEX
Aligned words	9956

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	4 (26)	0.943	0.953	0.908	0.922	0.94	0.949	4.802	5.104	507.352	670.553
Mouse	1 (5)	0.878	0.888	0.836	0.841	0.881	0.893	4.184	4.247	401.347	418.523

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 7 experiments	median	0.99	0.984	0.973	0.961	0.866	0.857
Overall, 7 experiments	best	1.0	0.999	0.999	0.999	0.993	0.992
Methyl HT-SELEX, 3 experiments	median	0.99	0.984	0.973	0.961	0.917	0.902
Methyl HT-SELEX, 3 experiments	best	1.0	0.999	0.999	0.999	0.993	0.992
Non-Methyl HT-SELEX, 4 experiments	median	0.993	0.988	0.968	0.96	0.826	0.838
Non-Methyl HT-SELEX, 4 experiments	best	1.0	0.999	0.999	0.998	0.991	0.989

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.96	0.787	0.94	0.608
batch 2	0.746	0.502	0.815	0.63

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Tryptophan cluster factors {3.5} (TFClass)
TF family	Ets-related {3.5.2} (TFClass)
TF subfamily	SPI-like {3.5.2.5} (TFClass)
TFClass ID	TFClass: 3.5.2.5.2
HGNC	HGNC:11242
MGI	MGI:892986
EntrezGene (human)	GeneID:6689 (SSTAR profile)
EntrezGene (mouse)	GeneID:272382 (SSTAR profile)
UniProt ID (human)	SPIB_HUMAN
UniProt ID (mouse)	SPIB_MOUSE
UniProt AC (human)	Q01892 (TFClass)
UniProt AC (mouse)	O35906 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	4 human, 1 mouse
HT-SELEX	4
Methyl-HT-SELEX	3

PCM	SPIB.H12RSNP.1.S.C.pcm
PWM	SPIB.H12RSNP.1.S.C.pwm
PFM	SPIB.H12RSNP.1.S.C.pfm
Alignment	SPIB.H12RSNP.1.S.C.words.tsv
Threshold to P-value map	SPIB.H12RSNP.1.S.C.thr
Motif in other formats
JASPAR format	SPIB.H12RSNP.1.S.C_jaspar_format.txt
MEME format	SPIB.H12RSNP.1.S.C_meme_format.meme
Transfac format	SPIB.H12RSNP.1.S.C_transfac_format.txt
Homer format	SPIB.H12RSNP.1.S.C_homer_format_0.001.txt SPIB.H12RSNP.1.S.C_homer_format_0.0005.txt SPIB.H12RSNP.1.S.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	6890.75	639.75	1371.75	1053.75
02	8210.75	309.75	525.75	909.75
03	8576.0	133.0	201.0	1046.0
04	6907.0	162.0	218.0	2669.0
05	542.0	408.0	8930.0	76.0
06	3590.0	6057.0	263.0	46.0
07	35.0	18.0	9876.0	27.0
08	16.0	15.0	9897.0	28.0
09	9913.0	12.0	5.0	26.0
10	9904.0	20.0	12.0	20.0
11	37.0	603.0	9288.0	28.0
12	201.75	264.75	82.75	9406.75
13	4274.5	853.5	2009.5	2818.5

PFM

	A	C	G	T
01	0.692	0.064	0.138	0.106
02	0.825	0.031	0.053	0.091
03	0.861	0.013	0.02	0.105
04	0.694	0.016	0.022	0.268
05	0.054	0.041	0.897	0.008
06	0.361	0.608	0.026	0.005
07	0.004	0.002	0.992	0.003
08	0.002	0.002	0.994	0.003
09	0.996	0.001	0.001	0.003
10	0.995	0.002	0.001	0.002
11	0.004	0.061	0.933	0.003
12	0.02	0.027	0.008	0.945
13	0.429	0.086	0.202	0.283

PWM

	A	C	G	T
01	1.018	-1.356	-0.595	-0.858
02	1.193	-2.077	-1.551	-1.005
03	1.236	-2.913	-2.506	-0.866
04	1.02	-2.719	-2.426	0.07
05	-1.521	-1.804	1.277	-3.46
06	0.366	0.889	-2.24	-3.943
07	-4.202	-4.81	1.378	-4.443
08	-4.914	-4.97	1.38	-4.409
09	1.381	-5.16	-5.832	-4.478
10	1.38	-4.716	-5.16	-4.716
11	-4.149	-1.415	1.316	-4.409
12	-2.502	-2.233	-3.377	1.329
13	0.54	-1.069	-0.214	0.124

Standard thresholds

P-value	Threshold
0.001	0.73856
0.0005	2.25947
0.0001	5.40307