SPIB.H14INVITRO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SPIB.H14INVITRO.2.SM.B
Gene (human)	SPIB (GeneCards)
Gene synonyms (human)
Gene (mouse)	Spib
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	B

Motif length	12
Consensus	dddvGGAAGTdn
GC content	51.36%
Information content (bits; total / per base)	12.561 / 1.047
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9565
Previous names	SPIB.H12INVITRO.2.SM.B

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)	0.932	0.939	0.884	0.896	0.918	0.929	4.082	4.249	516.882	692.921
Mouse	1 (5)	0.86	0.866	0.805	0.815	0.854	0.865	3.493	3.571	367.745	434.244

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 7 experiments	median	0.99	0.983	0.968	0.964	0.872	0.861
Overall, 7 experiments	best	0.999	0.998	0.997	0.995	0.992	0.988
Methyl HT-SELEX, 3 experiments	median	0.99	0.983	0.983	0.973	0.961	0.947
Methyl HT-SELEX, 3 experiments	best	0.997	0.995	0.996	0.994	0.992	0.988
Non-Methyl HT-SELEX, 4 experiments	median	0.991	0.986	0.965	0.955	0.835	0.842
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.998	0.997	0.995	0.988	0.984

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.894	0.663	0.836	0.544
batch 2	0.712	0.395	0.672	0.52

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	SPIB.H14INVITRO.2.SM.B.pcm
PWM	SPIB.H14INVITRO.2.SM.B.pwm
PFM	SPIB.H14INVITRO.2.SM.B.pfm
Threshold to P-value map	SPIB.H14INVITRO.2.SM.B.thr
Motif in other formats
JASPAR format	SPIB.H14INVITRO.2.SM.B_jaspar_format.txt
MEME format	SPIB.H14INVITRO.2.SM.B_meme_format.meme
Transfac format	SPIB.H14INVITRO.2.SM.B_transfac_format.txt
Homer format	SPIB.H14INVITRO.2.SM.B_homer_format_0.001.txt SPIB.H14INVITRO.2.SM.B_homer_format_0.0005.txt SPIB.H14INVITRO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	4155.75	1019.75	2126.75	2262.75
02	3154.0	1046.0	2048.0	3317.0
03	1686.0	1098.0	5668.0	1113.0
04	2002.0	4417.0	2917.0	229.0
05	16.0	17.0	9500.0	32.0
06	0.0	0.0	9562.0	3.0
07	9565.0	0.0	0.0	0.0
08	9565.0	0.0	0.0	0.0
09	3.0	158.0	9404.0	0.0
10	74.0	448.0	199.0	8844.0
11	3259.5	648.5	3310.5	2346.5
12	2641.5	2763.5	2595.5	1564.5

PFM

	A	C	G	T
01	0.434	0.107	0.222	0.237
02	0.33	0.109	0.214	0.347
03	0.176	0.115	0.593	0.116
04	0.209	0.462	0.305	0.024
05	0.002	0.002	0.993	0.003
06	0.0	0.0	1.0	0.0
07	1.0	0.0	0.0	0.0
08	1.0	0.0	0.0	0.0
09	0.0	0.017	0.983	0.0
10	0.008	0.047	0.021	0.925
11	0.341	0.068	0.346	0.245
12	0.276	0.289	0.271	0.164

PWM

	A	C	G	T
01	0.552	-0.851	-0.117	-0.055
02	0.277	-0.826	-0.155	0.327
03	-0.349	-0.777	0.862	-0.764
04	-0.177	0.613	0.199	-2.337
05	-4.874	-4.821	1.379	-4.246
06	-6.951	-6.951	1.385	-6.114
07	1.386	-6.951	-6.951	-6.951
08	1.386	-6.951	-6.951	-6.951
09	-6.114	-2.704	1.369	-6.951
10	-3.446	-1.671	-2.476	1.307
11	0.31	-1.302	0.325	-0.019
12	0.099	0.145	0.082	-0.424

Standard thresholds

P-value	Threshold
0.001	2.73102
0.0005	4.389025
0.0001	7.658445