XBP1.H12RSNP.1.M.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	XBP1.H12RSNP.1.M.B
Gene (human)	XBP1 (GeneCards)
Gene synonyms (human)	TREB5, XBP2
Gene (mouse)	Xbp1
Gene synonyms (mouse)	Treb5
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	17
Consensus	nddRbGRTGACGYvnYv
GC content	52.52%
Information content (bits; total / per base)	12.408 / 0.73
Data sources	Methyl-HT-SELEX
Aligned words	373

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
Human	4 (19)	0.639	0.673	0.521	0.558	0.651	0.679	1.873	1.941	61.824	78.854
Mouse	5 (34)	0.698	0.731	0.575	0.613	0.677	0.701	1.973	2.15	48.748	102.155

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 6 experiments	median	0.928	0.891	0.879	0.836	0.803	0.768
Overall, 6 experiments	best	0.972	0.957	0.938	0.915	0.87	0.844
Methyl HT-SELEX, 2 experiments	median	0.95	0.923	0.91	0.877	0.841	0.81
Methyl HT-SELEX, 2 experiments	best	0.97	0.954	0.937	0.912	0.87	0.844
Non-Methyl HT-SELEX, 4 experiments	median	0.856	0.837	0.751	0.741	0.676	0.673
Non-Methyl HT-SELEX, 4 experiments	best	0.972	0.957	0.938	0.915	0.869	0.844

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.691	0.096	0.668	0.471

TF superclass	Basic domains {1} (TFClass)
TF class	Basic leucine zipper factors (bZIP) {1.1} (TFClass)
TF family	XBP1-related {1.1.5} (TFClass)
TF subfamily	{1.1.5.0} (TFClass)
TFClass ID	TFClass: 1.1.5.0.1
HGNC	HGNC:12801
MGI	MGI:98970
EntrezGene (human)	GeneID:7494 (SSTAR profile)
EntrezGene (mouse)	GeneID:22433 (SSTAR profile)
UniProt ID (human)	XBP1_HUMAN
UniProt ID (mouse)	XBP1_MOUSE
UniProt AC (human)	P17861 (TFClass)
UniProt AC (mouse)	O35426 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	4 human, 5 mouse
HT-SELEX	4
Methyl-HT-SELEX	2

PCM	XBP1.H12RSNP.1.M.B.pcm
PWM	XBP1.H12RSNP.1.M.B.pwm
PFM	XBP1.H12RSNP.1.M.B.pfm
Alignment	XBP1.H12RSNP.1.M.B.words.tsv
Threshold to P-value map	XBP1.H12RSNP.1.M.B.thr
Motif in other formats
JASPAR format	XBP1.H12RSNP.1.M.B_jaspar_format.txt
MEME format	XBP1.H12RSNP.1.M.B_meme_format.meme
Transfac format	XBP1.H12RSNP.1.M.B_transfac_format.txt
Homer format	XBP1.H12RSNP.1.M.B_homer_format_0.001.txt XBP1.H12RSNP.1.M.B_homer_format_0.0005.txt XBP1.H12RSNP.1.M.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	69.5	72.5	142.5	88.5
02	72.0	52.0	76.0	173.0
03	154.0	49.0	102.0	68.0
04	217.0	15.0	126.0	15.0
05	33.0	76.0	116.0	148.0
06	10.0	34.0	328.0	1.0
07	270.0	51.0	52.0	0.0
08	0.0	5.0	0.0	368.0
09	2.0	2.0	361.0	8.0
10	372.0	1.0	0.0	0.0
11	1.0	289.0	36.0	47.0
12	13.0	1.0	277.0	82.0
13	34.0	138.0	7.0	194.0
14	118.0	77.0	148.0	30.0
15	95.0	47.0	128.0	103.0
16	38.0	230.0	41.0	64.0
17	78.5	107.5	142.5	44.5

PFM

	A	C	G	T
01	0.186	0.194	0.382	0.237
02	0.193	0.139	0.204	0.464
03	0.413	0.131	0.273	0.182
04	0.582	0.04	0.338	0.04
05	0.088	0.204	0.311	0.397
06	0.027	0.091	0.879	0.003
07	0.724	0.137	0.139	0.0
08	0.0	0.013	0.0	0.987
09	0.005	0.005	0.968	0.021
10	0.997	0.003	0.0	0.0
11	0.003	0.775	0.097	0.126
12	0.035	0.003	0.743	0.22
13	0.091	0.37	0.019	0.52
14	0.316	0.206	0.397	0.08
15	0.255	0.126	0.343	0.276
16	0.102	0.617	0.11	0.172
17	0.21	0.288	0.382	0.119

PWM

	A	C	G	T
01	-0.289	-0.247	0.419	-0.051
02	-0.254	-0.572	-0.201	0.611
03	0.495	-0.629	0.088	-0.31
04	0.836	-1.749	0.297	-1.749
05	-1.011	-0.201	0.215	0.456
06	-2.11	-0.982	1.246	-3.643
07	1.053	-0.591	-0.572	-4.159
08	-4.159	-2.682	-4.159	1.361
09	-3.304	-3.304	1.342	-2.302
10	1.372	-3.643	-4.159	-4.159
11	-3.643	1.121	-0.927	-0.67
12	-1.878	-3.643	1.078	-0.126
13	-0.982	0.387	-2.413	0.724
14	0.232	-0.188	0.456	-1.102
15	0.018	-0.67	0.312	0.098
16	-0.875	0.893	-0.802	-0.369
17	-0.169	0.14	0.419	-0.723

Standard thresholds

P-value	Threshold
0.001	4.12636
0.0005	5.15906
0.0001	7.24476