GFI1.H12CORE.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GFI1.H12CORE.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	10
Consensus	RChSWGRTTb
GC content	47.87%
Information content (bits; total / per base)	9.583 / 0.958
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	996

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)	0.828	0.894	0.756	0.835	0.819	0.878	3.168	3.421	127.921	295.367
Mouse	5 (31)	0.772	0.902	0.666	0.825	0.756	0.876	2.415	3.228	89.538	272.06

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.999	0.998	0.998	0.997	0.992	0.99
Overall, 2 experiments	best	0.999	0.998	0.998	0.997	0.993	0.991
Methyl HT-SELEX, 1 experiments	median	0.999	0.998	0.998	0.997	0.993	0.991
Methyl HT-SELEX, 1 experiments	best	0.999	0.998	0.998	0.997	0.993	0.991
Non-Methyl HT-SELEX, 1 experiments	median	0.999	0.997	0.998	0.996	0.991	0.989
Non-Methyl HT-SELEX, 1 experiments	best	0.999	0.997	0.998	0.996	0.991	0.989

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.825	0.614	0.796	0.641

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.H12CORE.0.PSM.A.pcm
PWM	GFI1.H12CORE.0.PSM.A.pwm
PFM	GFI1.H12CORE.0.PSM.A.pfm
Alignment	GFI1.H12CORE.0.PSM.A.words.tsv
Threshold to P-value map	GFI1.H12CORE.0.PSM.A.thr
Motif in other formats
JASPAR format	GFI1.H12CORE.0.PSM.A_jaspar_format.txt
MEME format	GFI1.H12CORE.0.PSM.A_meme_format.meme
Transfac format	GFI1.H12CORE.0.PSM.A_transfac_format.txt
Homer format	GFI1.H12CORE.0.PSM.A_homer_format_0.001.txt GFI1.H12CORE.0.PSM.A_homer_format_0.0005.txt GFI1.H12CORE.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	125.0	73.0	726.0	72.0
02	31.0	834.0	50.0	81.0
03	354.0	154.0	78.0	410.0
04	11.0	285.0	636.0	64.0
05	416.0	23.0	44.0	513.0
06	5.0	15.0	970.0	6.0
07	747.0	77.0	159.0	13.0
08	6.0	51.0	45.0	894.0
09	9.0	4.0	39.0	944.0
10	45.0	139.0	366.0	446.0

PFM

	A	C	G	T
01	0.126	0.073	0.729	0.072
02	0.031	0.837	0.05	0.081
03	0.355	0.155	0.078	0.412
04	0.011	0.286	0.639	0.064
05	0.418	0.023	0.044	0.515
06	0.005	0.015	0.974	0.006
07	0.75	0.077	0.16	0.013
08	0.006	0.051	0.045	0.898
09	0.009	0.004	0.039	0.948
10	0.045	0.14	0.367	0.448

PWM

	A	C	G	T
01	-0.682	-1.211	1.066	-1.224
02	-2.036	1.204	-1.578	-1.109
03	0.35	-0.476	-1.146	0.496
04	-2.981	0.134	0.934	-1.339
05	0.51	-2.317	-1.702	0.719
06	-3.618	-2.707	1.355	-3.48
07	1.094	-1.158	-0.445	-2.835
08	-3.48	-1.559	-1.68	1.273
09	-3.152	-3.779	-1.817	1.328
10	-1.68	-0.578	0.383	0.58

Standard thresholds

P-value	Threshold
0.001	4.823575
0.0005	5.652885
0.0001	7.35558