TGIF2.H12INVITRO.0.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TGIF2.H12INVITRO.0.S.B
Gene (human)	TGIF2 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Tgif2
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	16
Consensus	nnhTGACAGSTRWYdn
GC content	48.58%
Information content (bits; total / per base)	16.022 / 1.001
Data sources	HT-SELEX
Aligned words	2499

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	1 (7)	0.69	0.752	0.539	0.607	0.634	0.679	1.722	1.852	51.42	83.921
Mouse	1 (6)	0.886	0.887	0.807	0.809	0.876	0.892	3.343	3.416	76.638	169.699

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.974	0.958	0.951	0.933	0.889	0.853
Overall, 6 experiments	best	0.995	0.994	0.98	0.968	0.964	0.947
Methyl HT-SELEX, 2 experiments	median	0.974	0.958	0.96	0.938	0.932	0.906
Methyl HT-SELEX, 2 experiments	best	0.986	0.977	0.977	0.964	0.959	0.941
Non-Methyl HT-SELEX, 4 experiments	median	0.968	0.948	0.941	0.919	0.846	0.832
Non-Methyl HT-SELEX, 4 experiments	best	0.995	0.994	0.98	0.968	0.964	0.947

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.815	0.604	0.771	0.559

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	TALE-type HD {3.1.4} (TFClass)
TF subfamily	TGIF {3.1.4.6} (TFClass)
TFClass ID	TFClass: 3.1.4.6.2
HGNC	HGNC:15764
MGI	MGI:1915299
EntrezGene (human)	GeneID:60436 (SSTAR profile)
EntrezGene (mouse)	GeneID:228839 (SSTAR profile)
UniProt ID (human)	TGIF2_HUMAN
UniProt ID (mouse)	TGIF2_MOUSE
UniProt AC (human)	Q9GZN2 (TFClass)
UniProt AC (mouse)	Q8C0Y1 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 1 mouse
HT-SELEX	4
Methyl-HT-SELEX	2

PCM	TGIF2.H12INVITRO.0.S.B.pcm
PWM	TGIF2.H12INVITRO.0.S.B.pwm
PFM	TGIF2.H12INVITRO.0.S.B.pfm
Alignment	TGIF2.H12INVITRO.0.S.B.words.tsv
Threshold to P-value map	TGIF2.H12INVITRO.0.S.B.thr
Motif in other formats
JASPAR format	TGIF2.H12INVITRO.0.S.B_jaspar_format.txt
MEME format	TGIF2.H12INVITRO.0.S.B_meme_format.meme
Transfac format	TGIF2.H12INVITRO.0.S.B_transfac_format.txt
Homer format	TGIF2.H12INVITRO.0.S.B_homer_format_0.001.txt TGIF2.H12INVITRO.0.S.B_homer_format_0.0005.txt TGIF2.H12INVITRO.0.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	816.0	517.0	645.0	521.0
02	820.25	414.25	569.25	695.25
03	897.0	343.0	269.0	990.0
04	19.0	8.0	6.0	2466.0
05	0.0	0.0	2499.0	0.0
06	2472.0	0.0	6.0	21.0
07	2.0	2497.0	0.0	0.0
08	2493.0	1.0	5.0	0.0
09	3.0	36.0	2394.0	66.0
10	114.0	1870.0	427.0	88.0
11	133.0	191.0	114.0	2061.0
12	270.0	151.0	1866.0	212.0
13	308.0	231.0	241.0	1719.0
14	170.0	1790.0	222.0	317.0
15	1296.75	358.75	402.75	440.75
16	534.75	759.75	591.75	612.75

PFM

	A	C	G	T
01	0.327	0.207	0.258	0.208
02	0.328	0.166	0.228	0.278
03	0.359	0.137	0.108	0.396
04	0.008	0.003	0.002	0.987
05	0.0	0.0	1.0	0.0
06	0.989	0.0	0.002	0.008
07	0.001	0.999	0.0	0.0
08	0.998	0.0	0.002	0.0
09	0.001	0.014	0.958	0.026
10	0.046	0.748	0.171	0.035
11	0.053	0.076	0.046	0.825
12	0.108	0.06	0.747	0.085
13	0.123	0.092	0.096	0.688
14	0.068	0.716	0.089	0.127
15	0.519	0.144	0.161	0.176
16	0.214	0.304	0.237	0.245

PWM

	A	C	G	T
01	0.266	-0.189	0.032	-0.181
02	0.272	-0.409	-0.093	0.107
03	0.361	-0.597	-0.839	0.459
04	-3.398	-4.142	-4.367	1.371
05	-5.77	-5.77	1.384	-5.77
06	1.373	-5.77	-4.367	-3.307
07	-5.065	1.383	-5.77	-5.77
08	1.382	-5.357	-4.501	-5.77
09	-4.84	-2.804	1.341	-2.222
10	-1.687	1.094	-0.379	-1.941
11	-1.536	-1.178	-1.687	1.191
12	-0.835	-1.41	1.092	-1.075
13	-0.704	-0.99	-0.948	1.01
14	-1.293	1.051	-1.029	-0.675
15	0.729	-0.552	-0.437	-0.348
16	-0.155	0.195	-0.054	-0.019

Standard thresholds

P-value	Threshold
0.001	1.53436
0.0005	3.00851
0.0001	6.09661