PTF1A.H12INVITRO.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PTF1A.H12INVITRO.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	12
Consensus	dhRWCAGCTGbb
GC content	55.01%
Information content (bits; total / per base)	13.394 / 1.116
Data sources	ChIP-Seq + HT-SELEX
Aligned words	7967

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)	0.834	0.868	0.668	0.729	0.708	0.763	1.785	2.064	144.397	215.886

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 1 experiments	median	0.973	0.966	0.852	0.844	0.715	0.727
Non-Methyl HT-SELEX, 1 experiments	best	0.973	0.966	0.852	0.844	0.715	0.727

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.H12INVITRO.1.PS.A.pcm
PWM	PTF1A.H12INVITRO.1.PS.A.pwm
PFM	PTF1A.H12INVITRO.1.PS.A.pfm
Alignment	PTF1A.H12INVITRO.1.PS.A.words.tsv
Threshold to P-value map	PTF1A.H12INVITRO.1.PS.A.thr
Motif in other formats
JASPAR format	PTF1A.H12INVITRO.1.PS.A_jaspar_format.txt
MEME format	PTF1A.H12INVITRO.1.PS.A_meme_format.meme
Transfac format	PTF1A.H12INVITRO.1.PS.A_transfac_format.txt
Homer format	PTF1A.H12INVITRO.1.PS.A_homer_format_0.001.txt PTF1A.H12INVITRO.1.PS.A_homer_format_0.0005.txt PTF1A.H12INVITRO.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1903.0	1346.0	3230.0	1488.0
02	782.5	3349.5	606.5	3228.5
03	2677.0	290.0	4804.0	196.0
04	2341.0	466.0	374.0	4786.0
05	1.0	7954.0	0.0	12.0
06	7967.0	0.0	0.0	0.0
07	0.0	141.0	7689.0	137.0
08	97.0	7803.0	66.0	1.0
09	11.0	2.0	4.0	7950.0
10	62.0	45.0	7770.0	90.0
11	872.5	1880.5	1442.5	3771.5
12	1241.5	1653.5	1679.5	3392.5

PFM

	A	C	G	T
01	0.239	0.169	0.405	0.187
02	0.098	0.42	0.076	0.405
03	0.336	0.036	0.603	0.025
04	0.294	0.058	0.047	0.601
05	0.0	0.998	0.0	0.002
06	1.0	0.0	0.0	0.0
07	0.0	0.018	0.965	0.017
08	0.012	0.979	0.008	0.0
09	0.001	0.0	0.001	0.998
10	0.008	0.006	0.975	0.011
11	0.11	0.236	0.181	0.473
12	0.156	0.208	0.211	0.426

PWM

	A	C	G	T
01	-0.046	-0.391	0.483	-0.291
02	-0.933	0.519	-1.186	0.483
03	0.295	-1.92	0.88	-2.308
04	0.161	-1.449	-1.668	0.876
05	-6.421	1.384	-6.789	-4.941
06	1.385	-6.789	-6.789	-6.789
07	-6.789	-2.633	1.35	-2.662
08	-3.0	1.365	-3.375	-6.421
09	-5.014	-6.152	-5.766	1.383
10	-3.435	-3.743	1.36	-3.073
11	-0.824	-0.057	-0.322	0.638
12	-0.472	-0.186	-0.17	0.532

Standard thresholds

P-value	Threshold
0.001	2.595275
0.0005	4.05373
0.0001	7.00119