SPIB.H12INVITRO.1.S.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SPIB.H12INVITRO.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	RAAAGMGGAAGTd
GC content	39.82%
Information content (bits; total / per base)	18.914 / 1.455
Data sources	HT-SELEX
Aligned words	8799

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)	0.949	0.958	0.91	0.925	0.94	0.949	4.802	5.091	494.088	646.796
Mouse	1 (5)	0.883	0.891	0.836	0.841	0.883	0.895	4.199	4.264	389.377	401.456

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 7 experiments	median	0.991	0.985	0.973	0.96	0.868	0.86
Overall, 7 experiments	best	1.0	0.999	0.999	0.999	0.993	0.992
Methyl HT-SELEX, 3 experiments	median	0.991	0.985	0.973	0.96	0.919	0.904
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	0.989	0.97	0.962	0.828	0.84
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	0.952	0.779	0.932	0.595
batch 2	0.751	0.49	0.8	0.62

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.H12INVITRO.1.S.C.pcm
PWM	SPIB.H12INVITRO.1.S.C.pwm
PFM	SPIB.H12INVITRO.1.S.C.pfm
Alignment	SPIB.H12INVITRO.1.S.C.words.tsv
Threshold to P-value map	SPIB.H12INVITRO.1.S.C.thr
Motif in other formats
JASPAR format	SPIB.H12INVITRO.1.S.C_jaspar_format.txt
MEME format	SPIB.H12INVITRO.1.S.C_meme_format.meme
Transfac format	SPIB.H12INVITRO.1.S.C_transfac_format.txt
Homer format	SPIB.H12INVITRO.1.S.C_homer_format_0.001.txt SPIB.H12INVITRO.1.S.C_homer_format_0.0005.txt SPIB.H12INVITRO.1.S.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	6443.25	466.25	1117.25	772.25
02	7796.25	167.25	277.25	558.25
03	8013.0	38.0	79.0	669.0
04	6478.0	50.0	49.0	2222.0
05	235.0	210.0	8349.0	5.0
06	3196.0	5510.0	93.0	0.0
07	3.0	0.0	8796.0	0.0
08	0.0	0.0	8799.0	0.0
09	8799.0	0.0	0.0	0.0
10	8799.0	0.0	0.0	0.0
11	6.0	413.0	8379.0	1.0
12	128.0	165.0	56.0	8450.0
13	3821.5	753.5	1782.5	2441.5

PFM

	A	C	G	T
01	0.732	0.053	0.127	0.088
02	0.886	0.019	0.032	0.063
03	0.911	0.004	0.009	0.076
04	0.736	0.006	0.006	0.253
05	0.027	0.024	0.949	0.001
06	0.363	0.626	0.011	0.0
07	0.0	0.0	1.0	0.0
08	0.0	0.0	1.0	0.0
09	1.0	0.0	0.0	0.0
10	1.0	0.0	0.0	0.0
11	0.001	0.047	0.952	0.0
12	0.015	0.019	0.006	0.96
13	0.434	0.086	0.203	0.277

PWM

	A	C	G	T
01	1.074	-1.548	-0.676	-1.045
02	1.265	-2.564	-2.064	-1.368
03	1.292	-4.002	-3.299	-1.188
04	1.079	-3.741	-3.76	0.01
05	-2.228	-2.339	1.333	-5.713
06	0.373	0.918	-3.14	-6.877
07	-6.035	-6.877	1.385	-6.877
08	-6.877	-6.877	1.386	-6.877
09	1.386	-6.877	-6.877	-6.877
10	1.386	-6.877	-6.877	-6.877
11	-5.584	-1.668	1.337	-6.512
12	-2.828	-2.578	-3.632	1.345
13	0.552	-1.069	-0.21	0.104

Standard thresholds

P-value	Threshold
0.001	-2.23183
0.0005	-0.26409
0.0001	3.78753