PTF1A.H12INVIVO.0.P.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PTF1A.H12INVIVO.0.P.B
Gene (human)	PTF1A (GeneCards)
Gene synonyms (human)	BHLHA29, PTF1P48
Gene (mouse)	Ptf1a
Gene synonyms (mouse)	Ptf1p48
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	19
Consensus	vCASCTGbnnnndYhYhhv
GC content	51.79%
Information content (bits; total / per base)	12.103 / 0.637
Data sources	ChIP-Seq
Aligned words	1000

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)	0.866	0.924	0.8	0.864	0.836	0.894	3.24	3.846	224.27	412.638

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 1 experiments	median	0.901	0.852	0.821	0.78	0.704	0.693
Non-Methyl HT-SELEX, 1 experiments	best	0.901	0.852	0.821	0.78	0.704	0.693

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.0.P.B.pcm
PWM	PTF1A.H12INVIVO.0.P.B.pwm
PFM	PTF1A.H12INVIVO.0.P.B.pfm
Alignment	PTF1A.H12INVIVO.0.P.B.words.tsv
Threshold to P-value map	PTF1A.H12INVIVO.0.P.B.thr
Motif in other formats
JASPAR format	PTF1A.H12INVIVO.0.P.B_jaspar_format.txt
MEME format	PTF1A.H12INVIVO.0.P.B_meme_format.meme
Transfac format	PTF1A.H12INVIVO.0.P.B_transfac_format.txt
Homer format	PTF1A.H12INVIVO.0.P.B_homer_format_0.001.txt PTF1A.H12INVIVO.0.P.B_homer_format_0.0005.txt PTF1A.H12INVIVO.0.P.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	378.0	283.0	254.0	85.0
02	19.0	977.0	2.0	2.0
03	962.0	4.0	0.0	34.0
04	7.0	266.0	628.0	99.0
05	52.0	819.0	121.0	8.0
06	9.0	5.0	2.0	984.0
07	2.0	2.0	990.0	6.0
08	92.0	233.0	217.0	458.0
09	143.0	198.0	315.0	344.0
10	165.0	297.0	193.0	345.0
11	338.0	287.0	168.0	207.0
12	308.0	235.0	153.0	304.0
13	337.0	135.0	146.0	382.0
14	76.0	283.0	50.0	591.0
15	189.0	191.0	55.0	565.0
16	64.0	634.0	133.0	169.0
17	215.0	524.0	57.0	204.0
18	240.0	519.0	106.0	135.0
19	472.0	182.0	176.0	170.0

PFM

	A	C	G	T
01	0.378	0.283	0.254	0.085
02	0.019	0.977	0.002	0.002
03	0.962	0.004	0.0	0.034
04	0.007	0.266	0.628	0.099
05	0.052	0.819	0.121	0.008
06	0.009	0.005	0.002	0.984
07	0.002	0.002	0.99	0.006
08	0.092	0.233	0.217	0.458
09	0.143	0.198	0.315	0.344
10	0.165	0.297	0.193	0.345
11	0.338	0.287	0.168	0.207
12	0.308	0.235	0.153	0.304
13	0.337	0.135	0.146	0.382
14	0.076	0.283	0.05	0.591
15	0.189	0.191	0.055	0.565
16	0.064	0.634	0.133	0.169
17	0.215	0.524	0.057	0.204
18	0.24	0.519	0.106	0.135
19	0.472	0.182	0.176	0.17

PWM

	A	C	G	T
01	0.411	0.123	0.016	-1.066
02	-2.497	1.358	-4.213	-4.213
03	1.342	-3.783	-4.982	-1.952
04	-3.362	0.062	0.917	-0.916
05	-1.544	1.182	-0.718	-3.253
06	-3.156	-3.622	-4.213	1.365
07	-4.213	-4.213	1.371	-3.484
08	-0.988	-0.07	-0.141	0.602
09	-0.553	-0.231	0.23	0.317
10	-0.412	0.171	-0.257	0.32
11	0.3	0.137	-0.394	-0.187
12	0.207	-0.061	-0.487	0.194
13	0.297	-0.61	-0.533	0.422
14	-1.175	0.123	-1.582	0.856
15	-0.278	-0.267	-1.49	0.812
16	-1.343	0.926	-0.625	-0.388
17	-0.15	0.736	-1.455	-0.202
18	-0.041	0.727	-0.849	-0.61
19	0.632	-0.315	-0.348	-0.382

Standard thresholds

P-value	Threshold
0.001	4.10576
0.0005	5.17551
0.0001	7.28506