SPIB.H12INVIVO.2.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SPIB.H12INVIVO.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	nvdRWWGRGGAAGTdn
GC content	46.95%
Information content (bits; total / per base)	16.141 / 1.009
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	2497

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)	0.946	0.955	0.913	0.923	0.945	0.956	5.111	5.307	523.989	657.658
Mouse	1 (5)	0.875	0.888	0.83	0.84	0.885	0.898	4.357	4.411	406.745	430.921

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 7 experiments	median	0.989	0.982	0.957	0.955	0.845	0.836
Overall, 7 experiments	best	1.0	0.999	0.999	0.999	0.989	0.988
Methyl HT-SELEX, 3 experiments	median	0.989	0.982	0.976	0.965	0.907	0.897
Methyl HT-SELEX, 3 experiments	best	1.0	0.999	0.999	0.999	0.989	0.988
Non-Methyl HT-SELEX, 4 experiments	median	0.99	0.983	0.954	0.944	0.802	0.816
Non-Methyl HT-SELEX, 4 experiments	best	0.998	0.997	0.997	0.995	0.982	0.978

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.93	0.731	0.91	0.592
batch 2	0.746	0.459	0.777	0.605

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.H12INVIVO.2.SM.B.pcm
PWM	SPIB.H12INVIVO.2.SM.B.pwm
PFM	SPIB.H12INVIVO.2.SM.B.pfm
Alignment	SPIB.H12INVIVO.2.SM.B.words.tsv
Threshold to P-value map	SPIB.H12INVIVO.2.SM.B.thr
Motif in other formats
JASPAR format	SPIB.H12INVIVO.2.SM.B_jaspar_format.txt
MEME format	SPIB.H12INVIVO.2.SM.B_meme_format.meme
Transfac format	SPIB.H12INVIVO.2.SM.B_transfac_format.txt
Homer format	SPIB.H12INVIVO.2.SM.B_homer_format_0.001.txt SPIB.H12INVIVO.2.SM.B_homer_format_0.0005.txt SPIB.H12INVIVO.2.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	566.0	580.0	967.0	384.0
02	539.25	438.25	1192.25	327.25
03	798.0	208.0	1194.0	297.0
04	1543.0	118.0	467.0	369.0
05	1902.0	77.0	163.0	355.0
06	927.0	96.0	209.0	1265.0
07	140.0	106.0	2143.0	108.0
08	1814.0	151.0	488.0	44.0
09	12.0	11.0	2461.0	13.0
10	3.0	2.0	2481.0	11.0
11	2491.0	3.0	2.0	1.0
12	2478.0	11.0	2.0	6.0
13	6.0	31.0	2453.0	7.0
14	19.0	35.0	41.0	2402.0
15	1003.5	95.5	934.5	463.5
16	523.25	701.25	894.25	378.25

PFM

	A	C	G	T
01	0.227	0.232	0.387	0.154
02	0.216	0.176	0.477	0.131
03	0.32	0.083	0.478	0.119
04	0.618	0.047	0.187	0.148
05	0.762	0.031	0.065	0.142
06	0.371	0.038	0.084	0.507
07	0.056	0.042	0.858	0.043
08	0.726	0.06	0.195	0.018
09	0.005	0.004	0.986	0.005
10	0.001	0.001	0.994	0.004
11	0.998	0.001	0.001	0.0
12	0.992	0.004	0.001	0.002
13	0.002	0.012	0.982	0.003
14	0.008	0.014	0.016	0.962
15	0.402	0.038	0.374	0.186
16	0.21	0.281	0.358	0.151

PWM

	A	C	G	T
01	-0.098	-0.073	0.437	-0.484
02	-0.146	-0.352	0.646	-0.643
03	0.245	-1.093	0.647	-0.739
04	0.903	-1.653	-0.289	-0.524
05	1.112	-2.071	-1.334	-0.562
06	0.394	-1.855	-1.088	0.705
07	-1.484	-1.758	1.231	-1.74
08	1.065	-1.41	-0.245	-2.612
09	-3.804	-3.878	1.369	-3.735
10	-4.839	-5.065	1.378	-3.878
11	1.382	-4.839	-5.065	-5.356
12	1.376	-3.878	-5.065	-4.366
13	-4.366	-2.945	1.366	-4.247
14	-3.397	-2.83	-2.68	1.345
15	0.474	-1.86	0.402	-0.297
16	-0.176	0.116	0.358	-0.499

Standard thresholds

P-value	Threshold
0.001	1.70421
0.0005	3.10211
0.0001	6.01241