GFI1B.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	GFI1B.H12INVITRO.0.PSM.A
Gene (human)	GFI1B (GeneCards)
Gene synonyms (human)
Gene (mouse)	Gfi1b
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	13
Consensus	nhGCAGTGATTKv
GC content	41.31%
Information content (bits; total / per base)	16.769 / 1.29
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9939

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	6 (41)	0.831	0.869	0.72	0.793	0.823	0.875	2.737	3.265	137.509	267.469
Mouse	5 (27)	0.78	0.887	0.68	0.803	0.764	0.865	2.414	3.066	98.229	232.569

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.983	0.979	0.816	0.831	0.654	0.696
Overall, 2 experiments	best	0.99	0.988	0.853	0.862	0.677	0.718
Methyl HT-SELEX, 1 experiments	median	0.975	0.971	0.78	0.8	0.632	0.674
Methyl HT-SELEX, 1 experiments	best	0.975	0.971	0.78	0.8	0.632	0.674
Non-Methyl HT-SELEX, 1 experiments	median	0.99	0.988	0.853	0.862	0.677	0.718
Non-Methyl HT-SELEX, 1 experiments	best	0.99	0.988	0.853	0.862	0.677	0.718

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: 2.3.3.21.2
HGNC	HGNC:4238
MGI	MGI:1276578
EntrezGene (human)	GeneID:8328 (SSTAR profile)
EntrezGene (mouse)	GeneID:14582 (SSTAR profile)
UniProt ID (human)	GFI1B_HUMAN
UniProt ID (mouse)	GFI1B_MOUSE
UniProt AC (human)	Q5VTD9 (TFClass)
UniProt AC (mouse)	O70237 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	6 human, 5 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	GFI1B.H12INVITRO.0.PSM.A.pcm
PWM	GFI1B.H12INVITRO.0.PSM.A.pwm
PFM	GFI1B.H12INVITRO.0.PSM.A.pfm
Alignment	GFI1B.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	GFI1B.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	GFI1B.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	GFI1B.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	GFI1B.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	GFI1B.H12INVITRO.0.PSM.A_homer_format_0.001.txt GFI1B.H12INVITRO.0.PSM.A_homer_format_0.0005.txt GFI1B.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2608.0	1719.0	3007.0	2605.0
02	1507.0	2107.0	775.0	5550.0
03	747.0	51.0	9022.0	119.0
04	106.0	9638.0	30.0	165.0
05	8226.0	99.0	332.0	1282.0
06	4.0	3242.0	6597.0	96.0
07	108.0	0.0	3.0	9828.0
08	0.0	1.0	9938.0	0.0
09	9938.0	1.0	0.0	0.0
10	0.0	0.0	5.0	9934.0
11	2.0	3.0	5.0	9929.0
12	258.0	247.0	2165.0	7269.0
13	4415.5	2319.5	2065.5	1138.5

PFM

	A	C	G	T
01	0.262	0.173	0.303	0.262
02	0.152	0.212	0.078	0.558
03	0.075	0.005	0.908	0.012
04	0.011	0.97	0.003	0.017
05	0.828	0.01	0.033	0.129
06	0.0	0.326	0.664	0.01
07	0.011	0.0	0.0	0.989
08	0.0	0.0	1.0	0.0
09	1.0	0.0	0.0	0.0
10	0.0	0.0	0.001	0.999
11	0.0	0.0	0.001	0.999
12	0.026	0.025	0.218	0.731
13	0.444	0.233	0.208	0.115

PWM

	A	C	G	T
01	0.048	-0.368	0.191	0.047
02	-0.499	-0.165	-1.163	0.803
03	-1.2	-3.843	1.289	-3.021
04	-3.134	1.355	-4.344	-2.699
05	1.196	-3.201	-2.007	-0.661
06	-5.978	0.266	0.976	-3.231
07	-3.116	-6.985	-6.151	1.374
08	-6.985	-6.625	1.385	-6.985
09	1.385	-6.625	-6.985	-6.985
10	-6.985	-6.985	-5.831	1.385
11	-6.36	-6.151	-5.831	1.385
12	-2.257	-2.3	-0.138	1.073
13	0.575	-0.069	-0.185	-0.779

Standard thresholds

P-value	Threshold
0.001	-0.60214
0.0005	1.215125
0.0001	5.01697