FOXC2.H12INVITRO.0.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXC2.H12INVITRO.0.SM.B
Gene (human)	FOXC2 (GeneCards)
Gene synonyms (human)	FKHL14, MFH1
Gene (mouse)	Foxc2
Gene synonyms (mouse)	Fkh14, Fkhl14, Mfh1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	dWTGTTTAYhYd
GC content	21.67%
Information content (bits; total / per base)	13.942 / 1.162
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9070

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.964	0.938	0.951	0.92	0.849	0.842
Overall, 4 experiments	best	0.99	0.984	0.961	0.951	0.926	0.895
Methyl HT-SELEX, 1 experiments	median	0.96	0.93	0.944	0.911	0.9	0.865
Methyl HT-SELEX, 1 experiments	best	0.96	0.93	0.944	0.911	0.9	0.865
Non-Methyl HT-SELEX, 3 experiments	median	0.968	0.941	0.957	0.929	0.798	0.818
Non-Methyl HT-SELEX, 3 experiments	best	0.99	0.984	0.961	0.951	0.926	0.895

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.752	0.464	0.76	0.569

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Fork head/winged helix factors {3.3} (TFClass)
TF family	FOX {3.3.1} (TFClass)
TF subfamily	FOXC {3.3.1.3} (TFClass)
TFClass ID	TFClass: 3.3.1.3.2
HGNC	HGNC:3801
MGI	MGI:1347481
EntrezGene (human)	GeneID:2303 (SSTAR profile)
EntrezGene (mouse)	GeneID:14234 (SSTAR profile)
UniProt ID (human)	FOXC2_HUMAN
UniProt ID (mouse)	FOXC2_MOUSE
UniProt AC (human)	Q99958 (TFClass)
UniProt AC (mouse)	Q61850 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 0 mouse
HT-SELEX	3
Methyl-HT-SELEX	1

PCM	FOXC2.H12INVITRO.0.SM.B.pcm
PWM	FOXC2.H12INVITRO.0.SM.B.pwm
PFM	FOXC2.H12INVITRO.0.SM.B.pfm
Alignment	FOXC2.H12INVITRO.0.SM.B.words.tsv
Threshold to P-value map	FOXC2.H12INVITRO.0.SM.B.thr
Motif in other formats
JASPAR format	FOXC2.H12INVITRO.0.SM.B_jaspar_format.txt
MEME format	FOXC2.H12INVITRO.0.SM.B_meme_format.meme
Transfac format	FOXC2.H12INVITRO.0.SM.B_transfac_format.txt
Homer format	FOXC2.H12INVITRO.0.SM.B_homer_format_0.001.txt FOXC2.H12INVITRO.0.SM.B_homer_format_0.0005.txt FOXC2.H12INVITRO.0.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3008.5	1073.5	1377.5	3610.5
02	1983.75	618.75	820.75	5646.75
03	31.0	16.0	9.0	9014.0
04	186.0	0.0	8884.0	0.0
05	6.0	1.0	0.0	9063.0
06	0.0	0.0	0.0	9070.0
07	5.0	1.0	433.0	8631.0
08	8323.0	17.0	650.0	80.0
09	59.0	3952.0	123.0	4936.0
10	1833.0	1108.0	1036.0	5093.0
11	778.5	1286.5	789.5	6215.5
12	4432.25	537.25	854.25	3246.25

PFM

	A	C	G	T
01	0.332	0.118	0.152	0.398
02	0.219	0.068	0.09	0.623
03	0.003	0.002	0.001	0.994
04	0.021	0.0	0.979	0.0
05	0.001	0.0	0.0	0.999
06	0.0	0.0	0.0	1.0
07	0.001	0.0	0.048	0.952
08	0.918	0.002	0.072	0.009
09	0.007	0.436	0.014	0.544
10	0.202	0.122	0.114	0.562
11	0.086	0.142	0.087	0.685
12	0.489	0.059	0.094	0.358

PWM

	A	C	G	T
01	0.283	-0.747	-0.498	0.465
02	-0.134	-1.296	-1.014	0.912
03	-4.223	-4.822	-5.305	1.379
04	-2.49	-6.904	1.365	-6.904
05	-5.614	-6.54	-6.904	1.385
06	-6.904	-6.904	-6.904	1.386
07	-5.743	-6.54	-1.651	1.336
08	1.3	-4.768	-1.247	-3.317
09	-3.612	0.555	-2.897	0.777
10	-0.212	-0.715	-0.782	0.809
11	-1.067	-0.566	-1.053	1.008
12	0.67	-1.437	-0.975	0.359

Standard thresholds

P-value	Threshold
0.001	2.22516
0.0005	3.78362
0.0001	6.92297