HLF.H12INVIVO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HLF.H12INVIVO.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	12
Consensus	nbRTTACGTAAn
GC content	36.6%
Information content (bits; total / per base)	11.893 / 0.991
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	1516

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)	0.96	0.964	0.893	0.9	0.951	0.954	3.749	3.805	909.102	920.398
Mouse	3 (16)	0.874	0.909	0.748	0.807	0.858	0.889	2.856	3.071	297.237	350.292

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.846	0.84	0.693	0.702	0.607	0.623
Overall, 6 experiments	best	0.99	0.983	0.985	0.975	0.972	0.958
Methyl HT-SELEX, 1 experiments	median	0.99	0.983	0.985	0.975	0.972	0.958
Methyl HT-SELEX, 1 experiments	best	0.99	0.983	0.985	0.975	0.972	0.958
Non-Methyl HT-SELEX, 5 experiments	median	0.762	0.756	0.632	0.641	0.577	0.585
Non-Methyl HT-SELEX, 5 experiments	best	0.989	0.981	0.983	0.971	0.969	0.954

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	2.204	1.025	0.042	0.111

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.933	0.277	0.895	0.503
batch 2	0.913	0.729	0.785	0.552

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

PCM	HLF.H12INVIVO.1.SM.B.pcm
PWM	HLF.H12INVIVO.1.SM.B.pwm
PFM	HLF.H12INVIVO.1.SM.B.pfm
Alignment	HLF.H12INVIVO.1.SM.B.words.tsv
Threshold to P-value map	HLF.H12INVIVO.1.SM.B.thr
Motif in other formats
JASPAR format	HLF.H12INVIVO.1.SM.B_jaspar_format.txt
MEME format	HLF.H12INVIVO.1.SM.B_meme_format.meme
Transfac format	HLF.H12INVIVO.1.SM.B_transfac_format.txt
Homer format	HLF.H12INVIVO.1.SM.B_homer_format_0.001.txt HLF.H12INVIVO.1.SM.B_homer_format_0.0005.txt HLF.H12INVIVO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	310.25	300.25	521.25	384.25
02	200.75	309.75	563.75	441.75
03	258.0	176.0	1059.0	23.0
04	28.0	6.0	77.0	1405.0
05	25.0	0.0	1.0	1490.0
06	1302.0	7.0	195.0	12.0
07	0.0	1008.0	14.0	494.0
08	253.0	0.0	1263.0	0.0
09	37.0	71.0	14.0	1394.0
10	1320.0	63.0	82.0	51.0
11	1265.25	57.25	78.25	115.25
12	262.0	293.0	498.0	463.0

PFM

	A	C	G	T
01	0.205	0.198	0.344	0.253
02	0.132	0.204	0.372	0.291
03	0.17	0.116	0.699	0.015
04	0.018	0.004	0.051	0.927
05	0.016	0.0	0.001	0.983
06	0.859	0.005	0.129	0.008
07	0.0	0.665	0.009	0.326
08	0.167	0.0	0.833	0.0
09	0.024	0.047	0.009	0.92
10	0.871	0.042	0.054	0.034
11	0.835	0.038	0.052	0.076
12	0.173	0.193	0.328	0.305

PWM

	A	C	G	T
01	-0.199	-0.232	0.317	0.014
02	-0.631	-0.201	0.395	0.153
03	-0.382	-0.762	1.024	-2.73
04	-2.547	-3.884	-1.575	1.307
05	-2.653	-5.338	-4.902	1.365
06	1.231	-3.764	-0.66	-3.315
07	-5.338	0.975	-3.18	0.264
08	-0.402	-5.338	1.2	-5.338
09	-2.283	-1.654	-3.18	1.299
10	1.244	-1.771	-1.514	-1.975
11	1.202	-1.863	-1.559	-1.179
12	-0.367	-0.256	0.272	0.199

Standard thresholds

P-value	Threshold
0.001	4.15156
0.0005	5.181875
0.0001	7.23612