HLF.H13CORE.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HLF.H13CORE.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	nvTTAYGYMWn
GC content	34.74%
Information content (bits; total / per base)	11.017 / 1.002
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	7854
Previous names	HLF.H12CORE.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)	0.951	0.956	0.894	0.898	0.947	0.951	3.963	4.014	903.469	925.31
Mouse	3 (16)	0.858	0.889	0.731	0.784	0.844	0.873	2.784	2.958	294.09	339.244

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.843	0.839	0.694	0.699	0.614	0.624
Overall, 6 experiments	best	0.99	0.983	0.986	0.976	0.974	0.961
Methyl HT-SELEX, 1 experiments	median	0.99	0.983	0.986	0.976	0.974	0.961
Methyl HT-SELEX, 1 experiments	best	0.99	0.983	0.986	0.976	0.974	0.961
Non-Methyl HT-SELEX, 5 experiments	median	0.763	0.761	0.641	0.642	0.585	0.588
Non-Methyl HT-SELEX, 5 experiments	best	0.989	0.981	0.984	0.973	0.971	0.957

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.383	1.233	0.167	0.177

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.915	0.304	0.868	0.526
batch 2	0.878	0.659	0.764	0.581

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.H13CORE.1.SM.B.pcm
PWM	HLF.H13CORE.1.SM.B.pwm
PFM	HLF.H13CORE.1.SM.B.pfm
Threshold to P-value map	HLF.H13CORE.1.SM.B.thr
Motif in other formats
JASPAR format	HLF.H13CORE.1.SM.B_jaspar_format.txt
MEME format	HLF.H13CORE.1.SM.B_meme_format.meme
Transfac format	HLF.H13CORE.1.SM.B_transfac_format.txt
Homer format	HLF.H13CORE.1.SM.B_homer_format_0.001.txt HLF.H13CORE.1.SM.B_homer_format_0.0005.txt HLF.H13CORE.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1459.0	1617.0	2499.0	2279.0
02	1870.75	1363.75	4269.75	349.75
03	9.0	0.0	224.0	7621.0
04	88.0	0.0	20.0	7746.0
05	7779.0	4.0	71.0	0.0
06	0.0	3955.0	28.0	3871.0
07	869.0	1.0	6984.0	0.0
08	322.0	1741.0	183.0	5608.0
09	5734.0	956.0	779.0	385.0
10	6097.75	468.75	604.75	682.75
11	1361.25	2215.25	2030.25	2247.25

PFM

	A	C	G	T
01	0.186	0.206	0.318	0.29
02	0.238	0.174	0.544	0.045
03	0.001	0.0	0.029	0.97
04	0.011	0.0	0.003	0.986
05	0.99	0.001	0.009	0.0
06	0.0	0.504	0.004	0.493
07	0.111	0.0	0.889	0.0
08	0.041	0.222	0.023	0.714
09	0.73	0.122	0.099	0.049
10	0.776	0.06	0.077	0.087
11	0.173	0.282	0.258	0.286

PWM

	A	C	G	T
01	-0.297	-0.194	0.241	0.149
02	-0.048	-0.364	0.776	-1.72
03	-5.164	-6.776	-2.162	1.355
04	-3.081	-6.776	-4.482	1.372
05	1.376	-5.752	-3.29	-6.776
06	-6.776	0.7	-4.174	0.678
07	-0.814	-6.407	1.268	-6.776
08	-1.802	-0.12	-2.362	1.049
09	1.071	-0.719	-0.923	-1.625
10	1.132	-1.429	-1.175	-1.054
11	-0.366	0.121	0.033	0.135

Standard thresholds

P-value	Threshold
0.001	4.479155
0.0005	5.536295
0.0001	7.47114