ASCL1.H12RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ASCL1.H12RSNP.0.PSM.A
Gene (human)	ASCL1 (GeneCards)
Gene synonyms (human)	ASH1, BHLHA46, HASH1
Gene (mouse)	Ascl1
Gene synonyms (mouse)	Ash1, Mash-1, Mash1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	17
Consensus	nnRRCAGCTGCbdhnnn
GC content	55.6%
Information content (bits; total / per base)	15.495 / 0.911
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	359

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	14 (78)	0.761	0.905	0.691	0.846	0.731	0.886	2.155	3.041	177.358	290.658
Mouse	11 (68)	0.881	0.952	0.821	0.915	0.83	0.928	2.672	3.402	223.731	411.097

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 2 experiments	median	0.936	0.919	0.813	0.801	0.683	0.695
Overall, 2 experiments	best	0.956	0.938	0.858	0.838	0.722	0.727
Methyl HT-SELEX, 1 experiments	median	0.916	0.899	0.769	0.765	0.644	0.663
Methyl HT-SELEX, 1 experiments	best	0.916	0.899	0.769	0.765	0.644	0.663
Non-Methyl HT-SELEX, 1 experiments	median	0.956	0.938	0.858	0.838	0.722	0.727
Non-Methyl HT-SELEX, 1 experiments	best	0.956	0.938	0.858	0.838	0.722	0.727

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	23.6	4.905	0.338	0.22

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.521	0.062	0.355	0.123

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	MyoD-ASC-related {1.2.2} (TFClass)
TF subfamily	ASC {1.2.2.2} (TFClass)
TFClass ID	TFClass: 1.2.2.2.1
HGNC	HGNC:738
MGI	MGI:96919
EntrezGene (human)	GeneID:429 (SSTAR profile)
EntrezGene (mouse)	GeneID:17172 (SSTAR profile)
UniProt ID (human)	ASCL1_HUMAN
UniProt ID (mouse)	ASCL1_MOUSE
UniProt AC (human)	P50553 (TFClass)
UniProt AC (mouse)	Q02067 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	14 human, 11 mouse
HT-SELEX	1
Methyl-HT-SELEX	1

PCM	ASCL1.H12RSNP.0.PSM.A.pcm
PWM	ASCL1.H12RSNP.0.PSM.A.pwm
PFM	ASCL1.H12RSNP.0.PSM.A.pfm
Alignment	ASCL1.H12RSNP.0.PSM.A.words.tsv
Threshold to P-value map	ASCL1.H12RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	ASCL1.H12RSNP.0.PSM.A_jaspar_format.txt
MEME format	ASCL1.H12RSNP.0.PSM.A_meme_format.meme
Transfac format	ASCL1.H12RSNP.0.PSM.A_transfac_format.txt
Homer format	ASCL1.H12RSNP.0.PSM.A_homer_format_0.001.txt ASCL1.H12RSNP.0.PSM.A_homer_format_0.0005.txt ASCL1.H12RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	83.25	86.25	118.25	71.25
02	65.0	64.0	138.0	92.0
03	220.0	5.0	77.0	57.0
04	180.0	21.0	158.0	0.0
05	0.0	359.0	0.0	0.0
06	359.0	0.0	0.0	0.0
07	0.0	0.0	359.0	0.0
08	0.0	359.0	0.0	0.0
09	0.0	0.0	0.0	359.0
10	0.0	0.0	359.0	0.0
11	1.0	297.0	0.0	61.0
12	17.0	128.0	56.0	158.0
13	90.0	38.0	97.0	134.0
14	64.0	110.0	33.0	152.0
15	78.0	118.0	57.0	106.0
16	69.25	106.25	62.25	121.25
17	86.0	112.0	75.0	86.0

PFM

	A	C	G	T
01	0.232	0.24	0.329	0.198
02	0.181	0.178	0.384	0.256
03	0.613	0.014	0.214	0.159
04	0.501	0.058	0.44	0.0
05	0.0	1.0	0.0	0.0
06	1.0	0.0	0.0	0.0
07	0.0	0.0	1.0	0.0
08	0.0	1.0	0.0	0.0
09	0.0	0.0	0.0	1.0
10	0.0	0.0	1.0	0.0
11	0.003	0.827	0.0	0.17
12	0.047	0.357	0.156	0.44
13	0.251	0.106	0.27	0.373
14	0.178	0.306	0.092	0.423
15	0.217	0.329	0.159	0.295
16	0.193	0.296	0.173	0.338
17	0.24	0.312	0.209	0.24

PWM

	A	C	G	T
01	-0.074	-0.039	0.272	-0.227
02	-0.317	-0.332	0.425	0.024
03	0.887	-2.646	-0.151	-0.445
04	0.688	-1.401	0.559	-4.127
05	-4.127	1.374	-4.127	-4.127
06	1.374	-4.127	-4.127	-4.127
07	-4.127	-4.127	1.374	-4.127
08	-4.127	1.374	-4.127	-4.127
09	-4.127	-4.127	-4.127	1.374
10	-4.127	-4.127	1.374	-4.127
11	-3.609	1.185	-4.127	-0.379
12	-1.597	0.35	-0.462	0.559
13	0.003	-0.838	0.076	0.395
14	-0.332	0.2	-0.973	0.52
15	-0.138	0.27	-0.445	0.164
16	-0.255	0.166	-0.359	0.297
17	-0.042	0.218	-0.176	-0.042

Standard thresholds

P-value	Threshold
0.001	2.00371
0.0005	3.59991
0.0001	6.04346