SPIB.H12CORE.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SPIB.H12CORE.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	16
Consensus	vvdAAWGAGGAAGTdn
GC content	44.17%
Information content (bits; total / per base)	19.408 / 1.213
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	8860

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)	0.929	0.941	0.904	0.912	0.945	0.952	5.185	5.389	510.414	635.481
Mouse	1 (5)	0.848	0.863	0.816	0.826	0.88	0.894	4.392	4.457	380.699	415.032

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 7 experiments	median	0.991	0.985	0.96	0.957	0.843	0.835
Overall, 7 experiments	best	1.0	1.0	0.999	0.999	0.991	0.99
Methyl HT-SELEX, 3 experiments	median	0.991	0.985	0.978	0.968	0.908	0.899
Methyl HT-SELEX, 3 experiments	best	1.0	1.0	0.999	0.999	0.991	0.99
Non-Methyl HT-SELEX, 4 experiments	median	0.99	0.984	0.955	0.945	0.802	0.817
Non-Methyl HT-SELEX, 4 experiments	best	0.999	0.998	0.997	0.996	0.983	0.979

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.945	0.764	0.925	0.603
batch 2	0.757	0.473	0.794	0.608

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.H12CORE.2.SM.B.pcm
PWM	SPIB.H12CORE.2.SM.B.pwm
PFM	SPIB.H12CORE.2.SM.B.pfm
Alignment	SPIB.H12CORE.2.SM.B.words.tsv
Threshold to P-value map	SPIB.H12CORE.2.SM.B.thr
Motif in other formats
JASPAR format	SPIB.H12CORE.2.SM.B_jaspar_format.txt
MEME format	SPIB.H12CORE.2.SM.B_meme_format.meme
Transfac format	SPIB.H12CORE.2.SM.B_transfac_format.txt
Homer format	SPIB.H12CORE.2.SM.B_homer_format_0.001.txt SPIB.H12CORE.2.SM.B_homer_format_0.0005.txt SPIB.H12CORE.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1860.5	2176.5	3504.5	1318.5
02	1818.0	1717.0	4241.0	1084.0
03	3706.0	483.0	3851.0	820.0
04	7201.0	89.0	640.0	930.0
05	7799.0	13.0	66.0	982.0
06	3689.0	41.0	108.0	5022.0
07	171.0	150.0	8488.0	51.0
08	7468.0	80.0	1305.0	7.0
09	0.0	0.0	8858.0	2.0
10	0.0	1.0	8859.0	0.0
11	8860.0	0.0	0.0	0.0
12	8858.0	1.0	0.0	1.0
13	0.0	25.0	8835.0	0.0
14	7.0	22.0	11.0	8820.0
15	3656.0	233.0	3342.0	1629.0
16	1953.0	2440.0	3038.0	1429.0

PFM

	A	C	G	T
01	0.21	0.246	0.396	0.149
02	0.205	0.194	0.479	0.122
03	0.418	0.055	0.435	0.093
04	0.813	0.01	0.072	0.105
05	0.88	0.001	0.007	0.111
06	0.416	0.005	0.012	0.567
07	0.019	0.017	0.958	0.006
08	0.843	0.009	0.147	0.001
09	0.0	0.0	1.0	0.0
10	0.0	0.0	1.0	0.0
11	1.0	0.0	0.0	0.0
12	1.0	0.0	0.0	0.0
13	0.0	0.003	0.997	0.0
14	0.001	0.002	0.001	0.995
15	0.413	0.026	0.377	0.184
16	0.22	0.275	0.343	0.161

PWM

	A	C	G	T
01	-0.174	-0.018	0.458	-0.518
02	-0.197	-0.254	0.649	-0.714
03	0.514	-1.519	0.553	-0.992
04	1.178	-3.19	-1.239	-0.866
05	1.258	-4.978	-3.481	-0.812
06	0.51	-3.937	-3.001	0.818
07	-2.549	-2.678	1.343	-3.729
08	1.215	-3.294	-0.528	-5.477
09	-6.883	-6.883	1.385	-6.252
10	-6.883	-6.519	1.385	-6.883
11	1.386	-6.883	-6.883	-6.883
12	1.385	-6.519	-6.883	-6.519
13	-6.883	-4.398	1.383	-6.883
14	-5.477	-4.515	-5.118	1.381
15	0.501	-2.243	0.411	-0.307
16	-0.126	0.097	0.316	-0.438

Standard thresholds

P-value	Threshold
0.001	-3.44629
0.0005	-1.39874
0.0001	2.88066