BARX1.H12INVITRO.0.P.C motif - HOmo sapiens COmprehensive MOdel COllection

Motif	BARX1.H12INVITRO.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	nnWAAKKGTTW
GC content	27.75%
Information content (bits; total / per base)	10.619 / 0.965
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)	0.809	0.84	0.699	0.757	0.752	0.774	2.353	2.57	35.721	50.337

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 2 experiments	median	0.922	0.893	0.85	0.815	0.742	0.727
Non-Methyl HT-SELEX, 2 experiments	best	0.923	0.894	0.85	0.816	0.745	0.728

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.H12INVITRO.0.P.C.pcm
PWM	BARX1.H12INVITRO.0.P.C.pwm
PFM	BARX1.H12INVITRO.0.P.C.pfm
Alignment	BARX1.H12INVITRO.0.P.C.words.tsv
Threshold to P-value map	BARX1.H12INVITRO.0.P.C.thr
Motif in other formats
JASPAR format	BARX1.H12INVITRO.0.P.C_jaspar_format.txt
MEME format	BARX1.H12INVITRO.0.P.C_meme_format.meme
Transfac format	BARX1.H12INVITRO.0.P.C_transfac_format.txt
Homer format	BARX1.H12INVITRO.0.P.C_homer_format_0.001.txt BARX1.H12INVITRO.0.P.C_homer_format_0.0005.txt BARX1.H12INVITRO.0.P.C_homer_format_0.0001.txt

PCM

	A	C	G	T
01	32.0	28.0	39.0	33.0
02	24.0	50.0	26.0	32.0
03	27.0	4.0	5.0	96.0
04	129.0	0.0	2.0	1.0
05	130.0	0.0	2.0	0.0
06	9.0	2.0	29.0	92.0
07	7.0	1.0	55.0	69.0
08	8.0	9.0	113.0	2.0
09	11.0	16.0	0.0	105.0
10	9.0	3.0	4.0	116.0
11	15.0	6.0	9.0	102.0

PFM

	A	C	G	T
01	0.242	0.212	0.295	0.25
02	0.182	0.379	0.197	0.242
03	0.205	0.03	0.038	0.727
04	0.977	0.0	0.015	0.008
05	0.985	0.0	0.015	0.0
06	0.068	0.015	0.22	0.697
07	0.053	0.008	0.417	0.523
08	0.061	0.068	0.856	0.015
09	0.083	0.121	0.0	0.795
10	0.068	0.023	0.03	0.879
11	0.114	0.045	0.068	0.773

PWM

	A	C	G	T
01	-0.03	-0.158	0.162	0.0
02	-0.305	0.403	-0.229	-0.03
03	-0.193	-1.88	-1.705	1.044
04	1.336	-3.333	-2.363	-2.735
05	1.344	-3.333	-2.363	-3.333
06	-1.208	-2.363	-0.124	1.002
07	-1.426	-2.735	0.496	0.719
08	-1.311	-1.208	1.205	-2.363
09	-1.03	-0.687	-3.333	1.133
10	-1.208	-2.093	-1.88	1.231
11	-0.747	-1.556	-1.208	1.104

Standard thresholds

P-value	Threshold
0.001	4.76208
0.0005	5.55573
0.0001	7.30892