BARX1.H12INVIVO.0.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	BARX1.H12INVIVO.0.P.C
Gene (human)	BARX1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Barx1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	C

Motif length	11
Consensus	nbWAATKSTTW
GC content	28.99%
Information content (bits; total / per base)	10.628 / 0.966
Data sources	ChIP-Seq
Aligned words	132

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	1 (7)	0.807	0.849	0.704	0.771	0.75	0.774	2.345	2.576	35.409	51.244

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.919	0.888	0.842	0.807	0.736	0.72
Non-Methyl HT-SELEX, 2 experiments	best	0.919	0.888	0.842	0.807	0.74	0.722

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	NK-related {3.1.2} (TFClass)
TF subfamily	BARX {3.1.2.2} (TFClass)
TFClass ID	TFClass: 3.1.2.2.1
HGNC	HGNC:955
MGI	MGI:103124
EntrezGene (human)	GeneID:56033 (SSTAR profile)
EntrezGene (mouse)	GeneID:12022 (SSTAR profile)
UniProt ID (human)	BARX1_HUMAN
UniProt ID (mouse)	BARX1_MOUSE
UniProt AC (human)	Q9HBU1 (TFClass)
UniProt AC (mouse)	Q9ER42 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	0 human, 1 mouse
HT-SELEX	2
Methyl-HT-SELEX	0

PCM	BARX1.H12INVIVO.0.P.C.pcm
PWM	BARX1.H12INVIVO.0.P.C.pwm
PFM	BARX1.H12INVIVO.0.P.C.pfm
Alignment	BARX1.H12INVIVO.0.P.C.words.tsv
Threshold to P-value map	BARX1.H12INVIVO.0.P.C.thr
Motif in other formats
JASPAR format	BARX1.H12INVIVO.0.P.C_jaspar_format.txt
MEME format	BARX1.H12INVIVO.0.P.C_meme_format.meme
Transfac format	BARX1.H12INVIVO.0.P.C_transfac_format.txt
Homer format	BARX1.H12INVIVO.0.P.C_homer_format_0.001.txt BARX1.H12INVIVO.0.P.C_homer_format_0.0005.txt BARX1.H12INVIVO.0.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	20.0	34.0	38.0	40.0
02	19.0	58.0	27.0	28.0
03	29.0	5.0	2.0	96.0
04	129.0	0.0	2.0	1.0
05	132.0	0.0	0.0	0.0
06	5.0	2.0	23.0	102.0
07	5.0	2.0	73.0	52.0
08	15.0	24.0	84.0	9.0
09	2.0	22.0	0.0	108.0
10	4.0	2.0	3.0	123.0
11	19.0	7.0	13.0	93.0

PFM

	A	C	G	T
01	0.152	0.258	0.288	0.303
02	0.144	0.439	0.205	0.212
03	0.22	0.038	0.015	0.727
04	0.977	0.0	0.015	0.008
05	1.0	0.0	0.0	0.0
06	0.038	0.015	0.174	0.773
07	0.038	0.015	0.553	0.394
08	0.114	0.182	0.636	0.068
09	0.015	0.167	0.0	0.818
10	0.03	0.015	0.023	0.932
11	0.144	0.053	0.098	0.705

PWM

	A	C	G	T
01	-0.478	0.029	0.136	0.186
02	-0.526	0.548	-0.193	-0.158
03	-0.124	-1.705	-2.363	1.044
04	1.336	-3.333	-2.363	-2.735
05	1.359	-3.333	-3.333	-3.333
06	-1.705	-2.363	-0.346	1.104
07	-1.705	-2.363	0.774	0.442
08	-0.747	-0.305	0.912	-1.208
09	-2.363	-0.388	-3.333	1.161
10	-1.88	-2.363	-2.093	1.289
11	-0.526	-1.426	-0.878	1.013

Standard thresholds

P-value	Threshold
0.001	4.779415
0.0005	5.6191
0.0001	7.29885