GFI1.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GFI1.H12RSNP.0.PSM.A
Gene (human)	GFI1 (GeneCards)
Gene synonyms (human)	ZNF163
Gene (mouse)	Gfi1
Gene synonyms (mouse)	Gfi-1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	dRMhSWGRYTb
GC content	47.26%
Information content (bits; total / per base)	7.556 / 0.687
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1014

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	3 (15)	0.816	0.875	0.742	0.813	0.816	0.866	3.081	3.329	122.244	274.237
Mouse	5 (31)	0.752	0.883	0.631	0.8	0.753	0.864	2.378	3.142	80.051	247.921

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.999	0.997	0.997	0.996	0.987	0.984
Overall, 2 experiments	best	0.999	0.998	0.997	0.996	0.988	0.984
Methyl HT-SELEX, 1 experiments	median	0.998	0.997	0.997	0.995	0.988	0.984
Methyl HT-SELEX, 1 experiments	best	0.998	0.997	0.997	0.995	0.988	0.984
Non-Methyl HT-SELEX, 1 experiments	median	0.999	0.998	0.997	0.996	0.986	0.983
Non-Methyl HT-SELEX, 1 experiments	best	0.999	0.998	0.997	0.996	0.986	0.983

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.851	0.608	0.772	0.615

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	More than 3 adjacent zinc fingers {2.3.3} (TFClass)
TF subfamily	GFI1 {2.3.3.21} (TFClass)
TFClass ID	TFClass: 2.3.3.21.1
HGNC	HGNC:4237
MGI	MGI:103170
EntrezGene (human)	GeneID:2672 (SSTAR profile)
EntrezGene (mouse)	GeneID:14581 (SSTAR profile)
UniProt ID (human)	GFI1_HUMAN
UniProt ID (mouse)	GFI1_MOUSE
UniProt AC (human)	Q99684 (TFClass)
UniProt AC (mouse)	P70338 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	3 human, 5 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	GFI1.H12RSNP.0.PSM.A.pcm
PWM	GFI1.H12RSNP.0.PSM.A.pwm
PFM	GFI1.H12RSNP.0.PSM.A.pfm
Alignment	GFI1.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	GFI1.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	GFI1.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	GFI1.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	GFI1.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	GFI1.H12RSNP.0.PSM.A_homer_format_0.001.txt GFI1.H12RSNP.0.PSM.A_homer_format_0.0005.txt GFI1.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	208.0	94.0	363.0	349.0
02	120.0	100.0	675.0	119.0
03	148.0	731.0	74.0	61.0
04	436.0	120.0	37.0	421.0
05	43.0	290.0	612.0	69.0
06	402.0	20.0	115.0	477.0
07	31.0	21.0	956.0	6.0
08	671.0	104.0	198.0	41.0
09	73.0	150.0	59.0	732.0
10	16.0	21.0	92.0	885.0
11	62.0	130.0	309.0	513.0

PFM

	A	C	G	T
01	0.205	0.093	0.358	0.344
02	0.118	0.099	0.666	0.117
03	0.146	0.721	0.073	0.06
04	0.43	0.118	0.036	0.415
05	0.042	0.286	0.604	0.068
06	0.396	0.02	0.113	0.47
07	0.031	0.021	0.943	0.006
08	0.662	0.103	0.195	0.04
09	0.072	0.148	0.058	0.722
10	0.016	0.021	0.091	0.873
11	0.061	0.128	0.305	0.506

PWM

	A	C	G	T
01	-0.196	-0.981	0.357	0.318
02	-0.74	-0.92	0.975	-0.749
03	-0.533	1.055	-1.215	-1.403
04	0.539	-0.74	-1.886	0.505
05	-1.742	0.134	0.877	-1.283
06	0.459	-2.463	-0.782	0.629
07	-2.054	-2.418	1.322	-3.497
08	0.969	-0.881	-0.245	-1.787
09	-1.228	-0.52	-1.436	1.056
10	-2.667	-2.418	-1.002	1.245
11	-1.388	-0.661	0.197	0.701

Standard thresholds

P-value	Threshold
0.001	5.003375
0.0005	5.65428
0.0001	7.00633