HLF.H14INVITRO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HLF.H14INVITRO.1.SM.B
Gene (human)	HLF (GeneCards)
Gene synonyms (human)
Gene (mouse)	Hlf
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	11
Consensus	bRTTACGYMWb
GC content	41.49%
Information content (bits; total / per base)	11.5 / 1.045
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	9978
Previous names	HLF.H12INVITRO.1.SM.B

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	1 (7)	0.946	0.95	0.889	0.901	0.931	0.936	3.764	3.824	885.0	917.699
Mouse	3 (16)	0.86	0.891	0.739	0.79	0.83	0.86	2.639	2.811	277.833	304.745

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.836	0.828	0.696	0.696	0.616	0.624
Overall, 6 experiments	best	0.992	0.987	0.986	0.978	0.975	0.963
Methyl HT-SELEX, 1 experiments	median	0.992	0.987	0.986	0.978	0.975	0.963
Methyl HT-SELEX, 1 experiments	best	0.992	0.987	0.986	0.978	0.975	0.963
Non-Methyl HT-SELEX, 5 experiments	median	0.758	0.748	0.643	0.637	0.585	0.587
Non-Methyl HT-SELEX, 5 experiments	best	0.992	0.986	0.986	0.977	0.974	0.961

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.3	1.22	0.114	0.144

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.909	0.375	0.874	0.526
batch 2	0.845	0.586	0.759	0.572

TF superclass	Basic domains {1} (TFClass)
TF class	Basic leucine zipper factors (bZIP) {1.1} (TFClass)
TF family	C/EBP-related {1.1.8} (TFClass)
TF subfamily	PAR {1.1.8.2} (TFClass)
TFClass ID	TFClass: 1.1.8.2.2
HGNC	HGNC:4977
MGI	MGI:96108
EntrezGene (human)	GeneID:3131 (SSTAR profile)
EntrezGene (mouse)	GeneID:217082 (SSTAR profile)
UniProt ID (human)	HLF_HUMAN
UniProt ID (mouse)	HLF_MOUSE
UniProt AC (human)	Q16534 (TFClass)
UniProt AC (mouse)	Q8BW74 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 3 mouse
HT-SELEX	5
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	HLF.H14INVITRO.1.SM.B.pcm
PWM	HLF.H14INVITRO.1.SM.B.pwm
PFM	HLF.H14INVITRO.1.SM.B.pfm
Threshold to P-value map	HLF.H14INVITRO.1.SM.B.thr
Motif in other formats
JASPAR format	HLF.H14INVITRO.1.SM.B_jaspar_format.txt
MEME format	HLF.H14INVITRO.1.SM.B_meme_format.meme
Transfac format	HLF.H14INVITRO.1.SM.B_transfac_format.txt
Homer format	HLF.H14INVITRO.1.SM.B_homer_format_0.001.txt HLF.H14INVITRO.1.SM.B_homer_format_0.0005.txt HLF.H14INVITRO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1215.25	3617.25	2568.25	2577.25
02	1573.0	1352.0	7042.0	11.0
03	0.0	6.0	0.0	9972.0
04	14.0	1.0	18.0	9945.0
05	9932.0	6.0	37.0	3.0
06	2.0	7138.0	9.0	2829.0
07	702.0	112.0	9162.0	2.0
08	367.0	2690.0	167.0	6754.0
09	5953.0	1816.0	1710.0	499.0
10	6916.75	795.75	1111.75	1153.75
11	1175.25	3330.25	2854.25	2618.25

PFM

	A	C	G	T
01	0.122	0.363	0.257	0.258
02	0.158	0.135	0.706	0.001
03	0.0	0.001	0.0	0.999
04	0.001	0.0	0.002	0.997
05	0.995	0.001	0.004	0.0
06	0.0	0.715	0.001	0.284
07	0.07	0.011	0.918	0.0
08	0.037	0.27	0.017	0.677
09	0.597	0.182	0.171	0.05
10	0.693	0.08	0.111	0.116
11	0.118	0.334	0.286	0.262

PWM

	A	C	G	T
01	-0.718	0.371	0.029	0.033
02	-0.461	-0.612	1.037	-5.235
03	-6.989	-5.706	-6.989	1.385
04	-5.031	-6.628	-4.812	1.382
05	1.381	-5.706	-4.151	-6.155
06	-6.364	1.051	-5.398	0.126
07	-1.266	-3.084	1.3	-6.364
08	-1.911	0.075	-2.691	0.995
09	0.869	-0.317	-0.377	-1.606
10	1.019	-1.141	-0.807	-0.77
11	-0.752	0.289	0.135	0.048

Standard thresholds

P-value	Threshold
0.001	4.138345
0.0005	5.43717
0.0001	7.576795