HLF.H12RSNP.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HLF.H12RSNP.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	14
Consensus	nbGTTACGTAAbvn
GC content	42.15%
Information content (bits; total / per base)	17.138 / 1.224
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	512

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)	0.787	0.793	0.761	0.768	0.924	0.931	3.604	3.668	708.367	777.301
Mouse	3 (16)	0.622	0.639	0.543	0.575	0.818	0.849	2.581	2.747	179.607	205.018

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.846	0.839	0.695	0.703	0.601	0.622
Overall, 6 experiments	best	0.992	0.985	0.987	0.979	0.975	0.964
Methyl HT-SELEX, 1 experiments	median	0.992	0.985	0.987	0.979	0.975	0.964
Methyl HT-SELEX, 1 experiments	best	0.992	0.985	0.987	0.979	0.975	0.964
Non-Methyl HT-SELEX, 5 experiments	median	0.754	0.747	0.632	0.638	0.57	0.583
Non-Methyl HT-SELEX, 5 experiments	best	0.99	0.984	0.985	0.975	0.971	0.957

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	1.845	0.82	0.112	0.134

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.947	0.365	0.951	0.588
batch 2	0.887	0.696	0.829	0.591

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.H12RSNP.1.SM.B.pcm
PWM	HLF.H12RSNP.1.SM.B.pwm
PFM	HLF.H12RSNP.1.SM.B.pfm
Alignment	HLF.H12RSNP.1.SM.B.words.tsv
Threshold to P-value map	HLF.H12RSNP.1.SM.B.thr
Motif in other formats
JASPAR format	HLF.H12RSNP.1.SM.B_jaspar_format.txt
MEME format	HLF.H12RSNP.1.SM.B_meme_format.meme
Transfac format	HLF.H12RSNP.1.SM.B_transfac_format.txt
Homer format	HLF.H12RSNP.1.SM.B_homer_format_0.001.txt HLF.H12RSNP.1.SM.B_homer_format_0.0005.txt HLF.H12RSNP.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	132.5	90.5	176.5	112.5
02	64.0	146.0	177.0	125.0
03	24.0	26.0	462.0	0.0
04	0.0	0.0	0.0	512.0
05	0.0	0.0	0.0	512.0
06	512.0	0.0	0.0	0.0
07	0.0	401.0	0.0	111.0
08	0.0	0.0	512.0	0.0
09	0.0	16.0	0.0	496.0
10	509.0	3.0	0.0	0.0
11	512.0	0.0	0.0	0.0
12	12.0	157.0	183.0	160.0
13	86.25	93.25	264.25	68.25
14	97.25	138.25	175.25	101.25

PFM

	A	C	G	T
01	0.259	0.177	0.345	0.22
02	0.125	0.285	0.346	0.244
03	0.047	0.051	0.902	0.0
04	0.0	0.0	0.0	1.0
05	0.0	0.0	0.0	1.0
06	1.0	0.0	0.0	0.0
07	0.0	0.783	0.0	0.217
08	0.0	0.0	1.0	0.0
09	0.0	0.031	0.0	0.969
10	0.994	0.006	0.0	0.0
11	1.0	0.0	0.0	0.0
12	0.023	0.307	0.357	0.313
13	0.168	0.182	0.516	0.133
14	0.19	0.27	0.342	0.198

PWM

	A	C	G	T
01	0.034	-0.342	0.318	-0.127
02	-0.681	0.13	0.321	-0.023
03	-1.623	-1.548	1.275	-4.42
04	-4.42	-4.42	-4.42	1.377
05	-4.42	-4.42	-4.42	1.377
06	1.377	-4.42	-4.42	-4.42
07	-4.42	1.134	-4.42	-0.141
08	-4.42	-4.42	1.377	-4.42
09	-4.42	-1.999	-4.42	1.346
10	1.371	-3.347	-4.42	-4.42
11	1.377	-4.42	-4.42	-4.42
12	-2.257	0.202	0.354	0.221
13	-0.389	-0.312	0.719	-0.618
14	-0.271	0.076	0.311	-0.231

Standard thresholds

P-value	Threshold
0.001	0.52062
0.0005	1.975965
0.0001	5.57913