HLF.H12INVITRO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HLF.H12INVITRO.0.P.B
Gene (human)	HLF (GeneCards)
Gene synonyms (human)
Gene (mouse)	Hlf
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	10
Consensus	RTTATGYAAb
GC content	34.3%
Information content (bits; total / per base)	12.847 / 1.285
Data sources	ChIP-Seq
Aligned words	978

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)	0.984	0.986	0.966	0.968	0.978	0.98	4.982	5.056	1041.237	1066.066
Mouse	3 (16)	0.923	0.957	0.86	0.9	0.895	0.929	3.388	3.635	396.108	452.125

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.838	0.82	0.682	0.689	0.59	0.611
Overall, 6 experiments	best	0.987	0.978	0.982	0.97	0.962	0.946
Methyl HT-SELEX, 1 experiments	median	0.987	0.978	0.982	0.97	0.962	0.946
Methyl HT-SELEX, 1 experiments	best	0.987	0.978	0.982	0.97	0.962	0.946
Non-Methyl HT-SELEX, 5 experiments	median	0.765	0.758	0.629	0.641	0.567	0.583
Non-Methyl HT-SELEX, 5 experiments	best	0.984	0.971	0.976	0.961	0.95	0.931

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	9.315	4.827	0.24	0.174

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.827	0.297	0.853	0.502
batch 2	0.837	0.678	0.789	0.565

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.H12INVITRO.0.P.B.pcm
PWM	HLF.H12INVITRO.0.P.B.pwm
PFM	HLF.H12INVITRO.0.P.B.pfm
Alignment	HLF.H12INVITRO.0.P.B.words.tsv
Threshold to P-value map	HLF.H12INVITRO.0.P.B.thr
Motif in other formats
JASPAR format	HLF.H12INVITRO.0.P.B_jaspar_format.txt
MEME format	HLF.H12INVITRO.0.P.B_meme_format.meme
Transfac format	HLF.H12INVITRO.0.P.B_transfac_format.txt
Homer format	HLF.H12INVITRO.0.P.B_homer_format_0.001.txt HLF.H12INVITRO.0.P.B_homer_format_0.0005.txt HLF.H12INVITRO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	255.0	155.0	549.0	19.0
02	3.0	5.0	1.0	969.0
03	0.0	3.0	107.0	868.0
04	707.0	14.0	256.0	1.0
05	7.0	88.0	20.0	863.0
06	97.0	4.0	873.0	4.0
07	4.0	583.0	3.0	388.0
08	956.0	15.0	5.0	2.0
09	974.0	0.0	2.0	2.0
10	40.0	487.0	185.0	266.0

PFM

	A	C	G	T
01	0.261	0.158	0.561	0.019
02	0.003	0.005	0.001	0.991
03	0.0	0.003	0.109	0.888
04	0.723	0.014	0.262	0.001
05	0.007	0.09	0.02	0.882
06	0.099	0.004	0.893	0.004
07	0.004	0.596	0.003	0.397
08	0.978	0.015	0.005	0.002
09	0.996	0.0	0.002	0.002
10	0.041	0.498	0.189	0.272

PWM

	A	C	G	T
01	0.042	-0.452	0.805	-2.475
02	-3.954	-3.601	-4.505	1.372
03	-4.963	-3.954	-0.817	1.262
04	1.057	-2.751	0.046	-4.505
05	-3.34	-1.01	-2.428	1.256
06	-0.914	-3.762	1.268	-3.762
07	-3.762	0.865	-3.954	0.459
08	1.358	-2.69	-3.601	-4.192
09	1.377	-4.963	-4.192	-4.192
10	-1.775	0.686	-0.277	0.084

Standard thresholds

P-value	Threshold
0.001	3.53096
0.0005	4.70994
0.0001	7.19692