ISL1.H12INVIVO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ISL1.H12INVIVO.0.PSM.A
Gene (human)	ISL1 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Isl1
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	12
Consensus	nbvbTAATKRvn
GC content	40.52%
Information content (bits; total / per base)	9.478 / 0.79
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9840

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	2 (14)	0.704	0.809	0.6	0.662	0.618	0.738	1.503	1.884	48.489	86.137
Mouse	4 (16)	0.833	0.853	0.724	0.756	0.745	0.765	1.977	2.095	102.678	133.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.959	0.934	0.936	0.904	0.883	0.849
Overall, 4 experiments	best	0.975	0.96	0.959	0.937	0.918	0.892
Methyl HT-SELEX, 2 experiments	median	0.966	0.946	0.944	0.917	0.89	0.862
Methyl HT-SELEX, 2 experiments	best	0.975	0.96	0.959	0.937	0.918	0.892
Non-Methyl HT-SELEX, 2 experiments	median	0.957	0.931	0.934	0.901	0.883	0.849
Non-Methyl HT-SELEX, 2 experiments	best	0.961	0.936	0.942	0.911	0.899	0.866

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.63	0.182	0.334	0.189

TF superclass	Helix-turn-helix domains {3} (TFClass)
TF class	Homeo domain factors {3.1} (TFClass)
TF family	HD-LIM {3.1.5} (TFClass)
TF subfamily	ISL {3.1.5.1} (TFClass)
TFClass ID	TFClass: 3.1.5.1.1
HGNC	HGNC:6132
MGI	MGI:101791
EntrezGene (human)	GeneID:3670 (SSTAR profile)
EntrezGene (mouse)	GeneID:16392 (SSTAR profile)
UniProt ID (human)	ISL1_HUMAN
UniProt ID (mouse)	ISL1_MOUSE
UniProt AC (human)	P61371 (TFClass)
UniProt AC (mouse)	P61372 (TFClass)
GRECO-DB-TF	yes

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

PCM	ISL1.H12INVIVO.0.PSM.A.pcm
PWM	ISL1.H12INVIVO.0.PSM.A.pwm
PFM	ISL1.H12INVIVO.0.PSM.A.pfm
Alignment	ISL1.H12INVIVO.0.PSM.A.words.tsv
Threshold to P-value map	ISL1.H12INVIVO.0.PSM.A.thr
Motif in other formats
JASPAR format	ISL1.H12INVIVO.0.PSM.A_jaspar_format.txt
MEME format	ISL1.H12INVIVO.0.PSM.A_meme_format.meme
Transfac format	ISL1.H12INVIVO.0.PSM.A_transfac_format.txt
Homer format	ISL1.H12INVIVO.0.PSM.A_homer_format_0.001.txt ISL1.H12INVIVO.0.PSM.A_homer_format_0.0005.txt ISL1.H12INVIVO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2363.0	2028.0	2786.0	2663.0
02	1643.0	4010.0	2024.0	2163.0
03	2808.0	2215.0	4058.0	759.0
04	486.0	3837.0	1279.0	4238.0
05	26.0	4.0	10.0	9800.0
06	9834.0	0.0	6.0	0.0
07	9840.0	0.0	0.0	0.0
08	0.0	2.0	2782.0	7056.0
09	11.0	56.0	4730.0	5043.0
10	1804.0	1028.0	6696.0	312.0
11	3061.0	3423.0	2393.0	963.0
12	2531.0	2441.0	2036.0	2832.0

PFM

	A	C	G	T
01	0.24	0.206	0.283	0.271
02	0.167	0.408	0.206	0.22
03	0.285	0.225	0.412	0.077
04	0.049	0.39	0.13	0.431
05	0.003	0.0	0.001	0.996
06	0.999	0.0	0.001	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.283	0.717
09	0.001	0.006	0.481	0.513
10	0.183	0.104	0.68	0.032
11	0.311	0.348	0.243	0.098
12	0.257	0.248	0.207	0.288

PWM

	A	C	G	T
01	-0.04	-0.193	0.124	0.079
02	-0.403	0.488	-0.195	-0.129
03	0.132	-0.105	0.5	-1.174
04	-1.618	0.444	-0.653	0.544
05	-4.466	-5.969	-5.299	1.382
06	1.385	-6.977	-5.693	-6.977
07	1.386	-6.977	-6.977	-6.977
08	-6.977	-6.351	0.123	1.053
09	-5.221	-3.743	0.653	0.717
10	-0.31	-0.871	1.001	-2.059
11	0.218	0.33	-0.028	-0.936
12	0.028	-0.008	-0.189	0.141

Standard thresholds

P-value	Threshold
0.001	5.38976
0.0005	6.21696
0.0001	7.4815