FLI1.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	FLI1.H12RSNP.0.PSM.A
Gene (human)	FLI1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Fli1
Gene synonyms (mouse)	Fli-1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	nWCCGGAAGTvn
GC content	56.63%
Information content (bits; total / per base)	15.659 / 1.305
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9235

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	35 (207)	0.868	0.947	0.768	0.886	0.736	0.897	2.256	3.597	101.854	290.31
Mouse	25 (133)	0.896	0.966	0.803	0.944	0.83	0.94	3.078	4.429	121.538	355.276

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 9 experiments	median	0.98	0.972	0.799	0.816	0.641	0.684
Overall, 9 experiments	best	0.999	0.999	0.997	0.996	0.954	0.955
Methyl HT-SELEX, 2 experiments	median	0.647	0.652	0.556	0.574	0.522	0.54
Methyl HT-SELEX, 2 experiments	best	0.666	0.68	0.558	0.585	0.524	0.545
Non-Methyl HT-SELEX, 7 experiments	median	0.993	0.99	0.94	0.935	0.765	0.79
Non-Methyl HT-SELEX, 7 experiments	best	0.999	0.999	0.997	0.996	0.954	0.955

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	4.071	14.472	0.24	0.148

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.885	0.754	0.881	0.583
batch 2	0.82	0.73	0.734	0.622

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Tryptophan cluster factors {3.5} (TFClass)
TF family	Ets-related {3.5.2} (TFClass)
TF subfamily	ETS-like {3.5.2.1} (TFClass)
TFClass ID	TFClass: 3.5.2.1.6
HGNC	HGNC:3749
MGI	MGI:95554
EntrezGene (human)	GeneID:2313 (SSTAR profile)
EntrezGene (mouse)	GeneID:14247 (SSTAR profile)
UniProt ID (human)	FLI1_HUMAN
UniProt ID (mouse)	FLI1_MOUSE
UniProt AC (human)	Q01543 (TFClass)
UniProt AC (mouse)	P26323 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	35 human, 25 mouse
HT-SELEX	7
Methyl-HT-SELEX	2

PCM	FLI1.H12RSNP.0.PSM.A.pcm
PWM	FLI1.H12RSNP.0.PSM.A.pwm
PFM	FLI1.H12RSNP.0.PSM.A.pfm
Alignment	FLI1.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	FLI1.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	FLI1.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	FLI1.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	FLI1.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	FLI1.H12RSNP.0.PSM.A_homer_format_0.001.txt FLI1.H12RSNP.0.PSM.A_homer_format_0.0005.txt FLI1.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2100.75	1997.75	2968.75	2167.75
02	7071.0	31.0	778.0	1355.0
03	4.0	9156.0	74.0	1.0
04	12.0	9223.0	0.0	0.0
05	0.0	0.0	9235.0	0.0
06	0.0	0.0	9235.0	0.0
07	9235.0	0.0	0.0	0.0
08	9199.0	0.0	0.0	36.0
09	2291.0	0.0	6944.0	0.0
10	8.0	1497.0	50.0	7680.0
11	2193.75	1245.75	4689.75	1105.75
12	2063.75	3073.75	2563.75	1533.75

PFM

	A	C	G	T
01	0.227	0.216	0.321	0.235
02	0.766	0.003	0.084	0.147
03	0.0	0.991	0.008	0.0
04	0.001	0.999	0.0	0.0
05	0.0	0.0	1.0	0.0
06	0.0	0.0	1.0	0.0
07	1.0	0.0	0.0	0.0
08	0.996	0.0	0.0	0.004
09	0.248	0.0	0.752	0.0
10	0.001	0.162	0.005	0.832
11	0.238	0.135	0.508	0.12
12	0.223	0.333	0.278	0.166

PWM

	A	C	G	T
01	-0.094	-0.145	0.251	-0.063
02	1.119	-4.24	-1.086	-0.532
03	-5.908	1.377	-3.411	-6.557
04	-5.086	1.384	-6.92	-6.92
05	-6.92	-6.92	1.386	-6.92
06	-6.92	-6.92	1.386	-6.92
07	1.386	-6.92	-6.92	-6.92
08	1.382	-6.92	-6.92	-4.1
09	-0.008	-6.92	1.101	-6.92
10	-5.415	-0.433	-3.789	1.201
11	-0.051	-0.616	0.708	-0.735
12	-0.112	0.286	0.105	-0.408

Standard thresholds

P-value	Threshold
0.001	-0.900035
0.0005	1.215595
0.0001	4.61867