PTF1A.H12INVIVO.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PTF1A.H12INVIVO.1.PS.A
Gene (human)	PTF1A (GeneCards)
Gene synonyms (human)	BHLHA29, PTF1P48
Gene (mouse)	Ptf1a
Gene synonyms (mouse)	Ptf1p48
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	8
Consensus	CASCTGbb
GC content	59.75%
Information content (bits; total / per base)	9.06 / 1.132
Data sources	ChIP-Seq + HT-SELEX
Aligned words	996

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
Mouse	8 (52)	0.871	0.913	0.779	0.828	0.785	0.838	2.052	2.242	205.905	319.268

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 1 experiments	median	0.942	0.921	0.831	0.815	0.704	0.709
Non-Methyl HT-SELEX, 1 experiments	best	0.942	0.921	0.831	0.815	0.704	0.709

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	Tal-related {1.2.3} (TFClass)
TF subfamily	TWIST {1.2.3.2} (TFClass)
TFClass ID	TFClass: 1.2.3.2.7
HGNC	HGNC:23734
MGI	MGI:1328312
EntrezGene (human)	GeneID:256297 (SSTAR profile)
EntrezGene (mouse)	GeneID:19213 (SSTAR profile)
UniProt ID (human)	PTF1A_HUMAN
UniProt ID (mouse)	PTF1A_MOUSE
UniProt AC (human)	Q7RTS3 (TFClass)
UniProt AC (mouse)	Q9QX98 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 8 mouse
HT-SELEX	1
Methyl-HT-SELEX	0

PCM	PTF1A.H12INVIVO.1.PS.A.pcm
PWM	PTF1A.H12INVIVO.1.PS.A.pwm
PFM	PTF1A.H12INVIVO.1.PS.A.pfm
Alignment	PTF1A.H12INVIVO.1.PS.A.words.tsv
Threshold to P-value map	PTF1A.H12INVIVO.1.PS.A.thr
Motif in other formats
JASPAR format	PTF1A.H12INVIVO.1.PS.A_jaspar_format.txt
MEME format	PTF1A.H12INVIVO.1.PS.A_meme_format.meme
Transfac format	PTF1A.H12INVIVO.1.PS.A_transfac_format.txt
Homer format	PTF1A.H12INVIVO.1.PS.A_homer_format_0.001.txt PTF1A.H12INVIVO.1.PS.A_homer_format_0.0005.txt PTF1A.H12INVIVO.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	62.0	888.0	29.0	17.0
02	910.0	33.0	10.0	43.0
03	29.0	421.0	424.0	122.0
04	31.0	955.0	4.0	6.0
05	10.0	1.0	1.0	984.0
06	3.0	4.0	976.0	13.0
07	43.0	262.0	257.0	434.0
08	128.0	190.0	306.0	372.0

PFM

	A	C	G	T
01	0.062	0.892	0.029	0.017
02	0.914	0.033	0.01	0.043
03	0.029	0.423	0.426	0.122
04	0.031	0.959	0.004	0.006
05	0.01	0.001	0.001	0.988
06	0.003	0.004	0.98	0.013
07	0.043	0.263	0.258	0.436
08	0.129	0.191	0.307	0.373

PWM

	A	C	G	T
01	-1.37	1.267	-2.099	-2.594
02	1.291	-1.977	-3.063	-1.724
03	-2.099	0.522	0.529	-0.706
04	-2.036	1.339	-3.779	-3.48
05	-3.063	-4.522	-4.522	1.369
06	-3.971	-3.779	1.361	-2.835
07	-1.724	0.051	0.031	0.553
08	-0.659	-0.268	0.205	0.399

Standard thresholds

P-value	Threshold
0.001	4.771355
0.0005	5.820365
0.0001	7.584405