TTF1.H13INVIVO.0.PSG.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TTF1.H13INVIVO.0.PSG.A
Gene (human)	TTF1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Ttf1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	21
Consensus	GTRMCASSYdGdRMYRKShMY
GC content	63.22%
Information content (bits; total / per base)	14.937 / 0.711
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX
Aligned words	497
Previous names

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	Centrality, median	Centrality, best
Overall	2 (2)	0.863	0.868	0.757	0.765	0.73	0.734	113.361	115.119

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Lysate, 2 experiments	median	1.0	1.0	0.999	0.998	0.869	0.889
Lysate, 2 experiments	best	1.0	1.0	0.999	0.998	0.878	0.896

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
Lysate, 2 experiments	median	184.357	0.914	0.936	0.91
Lysate, 2 experiments	best	486.114	0.974	0.979	0.962

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Tryptophan cluster factors {3.5} (TFClass)
TF family	Myb/SANT domain {3.5.1} (TFClass)
TF subfamily	Other Myb-like {3.5.1.0} (TFClass)
TFClass ID	TFClass: 3.5.1.0.257
HGNC
MGI
EntrezGene (human)
EntrezGene (mouse)
UniProt ID (human)	TTF1_HUMAN
UniProt ID (mouse)	TTF1_MOUSE
UniProt AC (human)	Q15361 (TFClass)
UniProt AC (mouse)	Q62187 (TFClass)
GRECO-DB-TF	no

ChIP-Seq	2 human, 0 mouse
HT-SELEX	2 overall: 2 Lysate, 0 IVT, 0 GFPIVT
Genomic HT-SELEX	2 overall: 2 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	TTF1.H13INVIVO.0.PSG.A.pcm
PWM	TTF1.H13INVIVO.0.PSG.A.pwm
PFM	TTF1.H13INVIVO.0.PSG.A.pfm
Threshold to P-value map	TTF1.H13INVIVO.0.PSG.A.thr
Motif in other formats
JASPAR format	TTF1.H13INVIVO.0.PSG.A_jaspar_format.txt
MEME format	TTF1.H13INVIVO.0.PSG.A_meme_format.meme
Transfac format	TTF1.H13INVIVO.0.PSG.A_transfac_format.txt
Homer format	TTF1.H13INVIVO.0.PSG.A_homer_format_0.001.txt TTF1.H13INVIVO.0.PSG.A_homer_format_0.0005.txt TTF1.H13INVIVO.0.PSG.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	20.0	6.0	469.0	2.0
02	22.0	25.0	35.0	415.0
03	152.0	11.0	327.0	7.0
04	53.0	353.0	43.0	48.0
05	28.0	425.0	14.0	30.0
06	420.0	10.0	26.0	41.0
07	29.0	122.0	289.0	57.0
08	13.0	185.0	232.0	67.0
09	51.0	326.0	51.0	69.0
10	178.0	42.0	120.0	157.0
11	13.0	59.0	422.0	3.0
12	86.0	75.0	84.0	252.0
13	66.0	27.0	392.0	12.0
14	254.0	208.0	22.0	13.0
15	14.0	345.0	27.0	111.0
16	270.0	18.0	156.0	53.0
17	16.0	15.0	224.0	242.0
18	16.0	281.0	165.0	35.0
19	96.0	219.0	50.0	132.0
20	136.0	296.0	30.0	35.0
21	37.0	305.0	67.0	88.0

PFM

	A	C	G	T
01	0.04	0.012	0.944	0.004
02	0.044	0.05	0.07	0.835
03	0.306	0.022	0.658	0.014
04	0.107	0.71	0.087	0.097
05	0.056	0.855	0.028	0.06
06	0.845	0.02	0.052	0.082
07	0.058	0.245	0.581	0.115
08	0.026	0.372	0.467	0.135
09	0.103	0.656	0.103	0.139
10	0.358	0.085	0.241	0.316
11	0.026	0.119	0.849	0.006
12	0.173	0.151	0.169	0.507
13	0.133	0.054	0.789	0.024
14	0.511	0.419	0.044	0.026
15	0.028	0.694	0.054	0.223
16	0.543	0.036	0.314	0.107
17	0.032	0.03	0.451	0.487
18	0.032	0.565	0.332	0.07
19	0.193	0.441	0.101	0.266
20	0.274	0.596	0.06	0.07
21	0.074	0.614	0.135	0.177

PWM

	A	C	G	T
01	-1.764	-2.813	1.319	-3.567
02	-1.675	-1.556	-1.236	1.197
03	0.199	-2.305	0.96	-2.689
04	-0.836	1.036	-1.038	-0.932
05	-1.449	1.221	-2.091	-1.383
06	1.209	-2.388	-1.519	-1.084
07	-1.415	-0.018	0.837	-0.765
08	-2.157	0.394	0.619	-0.607
09	-0.873	0.957	-0.873	-0.578
10	0.356	-1.061	-0.034	0.231
11	-2.157	-0.731	1.214	-3.319
12	-0.362	-0.497	-0.386	0.701
13	-0.622	-1.483	1.141	-2.228
14	0.709	0.51	-1.675	-2.157
15	-2.091	1.013	-1.483	-0.111
16	0.769	-1.862	0.225	-0.836
17	-1.97	-2.028	0.584	0.661
18	-1.97	0.809	0.281	-1.236
19	-0.254	0.561	-0.892	0.06
20	0.089	0.861	-1.383	-1.236
21	-1.183	0.891	-0.607	-0.34

Standard thresholds

P-value	Threshold
0.001	3.47486
0.0005	4.49466
0.0001	6.65291