FOXG1.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FOXG1.H12INVITRO.0.PSM.A
Gene (human)	FOXG1 (GeneCards)
Gene synonyms (human)	FKH2, FKHL1, FKHL2, FKHL3, FKHL4, FOXG1A, FOXG1B, FOXG1C
Gene (mouse)	Foxg1
Gene synonyms (mouse)	Fkhl1, Foxg1b, Hfhbf1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	dTGTTTRYSbd
GC content	36.02%
Information content (bits; total / per base)	10.608 / 0.964
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9844

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
Mouse	3 (17)	0.723	0.8	0.512	0.627	0.759	0.841	2.025	2.717	102.921	271.538

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 3 experiments	median	0.858	0.806	0.779	0.735	0.701	0.672
Overall, 3 experiments	best	0.963	0.945	0.925	0.897	0.85	0.824
Methyl HT-SELEX, 1 experiments	median	0.963	0.945	0.925	0.897	0.85	0.824
Methyl HT-SELEX, 1 experiments	best	0.963	0.945	0.925	0.897	0.85	0.824
Non-Methyl HT-SELEX, 2 experiments	median	0.705	0.672	0.658	0.63	0.613	0.595
Non-Methyl HT-SELEX, 2 experiments	best	0.858	0.806	0.779	0.735	0.701	0.672

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	FOXG {3.3.1.7} (TFClass)
TFClass ID	TFClass: 3.3.1.7.1
HGNC	HGNC:3811
MGI	MGI:1347464
EntrezGene (human)	GeneID:2290 (SSTAR profile)
EntrezGene (mouse)	GeneID:15228 (SSTAR profile)
UniProt ID (human)	FOXG1_HUMAN
UniProt ID (mouse)	FOXG1_MOUSE
UniProt AC (human)	P55316 (TFClass)
UniProt AC (mouse)	Q60987 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 3 mouse
HT-SELEX	2
Methyl-HT-SELEX	1

PCM	FOXG1.H12INVITRO.0.PSM.A.pcm
PWM	FOXG1.H12INVITRO.0.PSM.A.pwm
PFM	FOXG1.H12INVITRO.0.PSM.A.pfm
Alignment	FOXG1.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	FOXG1.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	FOXG1.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	FOXG1.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	FOXG1.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	FOXG1.H12INVITRO.0.PSM.A_homer_format_0.001.txt FOXG1.H12INVITRO.0.PSM.A_homer_format_0.0005.txt FOXG1.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	3639.75	957.75	1971.75	3274.75
02	36.5	1398.5	19.5	8389.5
03	419.0	57.0	9368.0	0.0
04	2.0	167.0	5.0	9670.0
05	3.0	10.0	131.0	9700.0
06	103.0	23.0	2321.0	7397.0
07	7494.0	116.0	1454.0	780.0
08	50.0	6143.0	626.0	3025.0
09	1270.0	1408.0	6038.0	1128.0
10	1023.5	2005.5	1354.5	5460.5
11	2428.0	1356.0	2075.0	3985.0

PFM

	A	C	G	T
01	0.37	0.097	0.2	0.333
02	0.004	0.142	0.002	0.852
03	0.043	0.006	0.952	0.0
04	0.0	0.017	0.001	0.982
05	0.0	0.001	0.013	0.985
06	0.01	0.002	0.236	0.751
07	0.761	0.012	0.148	0.079
08	0.005	0.624	0.064	0.307
09	0.129	0.143	0.613	0.115
10	0.104	0.204	0.138	0.555
11	0.247	0.138	0.211	0.405

PWM

	A	C	G	T
01	0.391	-0.942	-0.221	0.285
02	-4.151	-0.564	-4.727	1.226
03	-1.766	-3.727	1.336	-6.977
04	-6.351	-2.678	-5.822	1.368
05	-6.142	-5.3	-2.917	1.371
06	-3.152	-4.579	-0.059	1.1
07	1.113	-3.036	-0.526	-1.147
08	-3.852	0.914	-1.366	0.206
09	-0.661	-0.558	0.897	-0.779
10	-0.876	-0.204	-0.596	0.796
11	-0.013	-0.595	-0.17	0.482

Standard thresholds

P-value	Threshold
0.001	4.62127
0.0005	5.64414
0.0001	7.50898