ISL1.H13RSNP.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ISL1.H13RSNP.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	10
Consensus	YTAATTGMWK
GC content	34.16%
Information content (bits; total / per base)	9.782 / 0.978
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	1009
Previous names	ISL1.H12RSNP.0.PSM.A

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)	0.7	0.813	0.531	0.645	0.649	0.748	1.614	1.939	36.767	67.076
Mouse	4 (16)	0.82	0.844	0.67	0.712	0.722	0.764	1.844	2.06	96.748	116.745

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.929	0.888	0.899	0.852	0.836	0.795
Overall, 4 experiments	best	0.957	0.929	0.932	0.898	0.872	0.84
Methyl HT-SELEX, 2 experiments	median	0.938	0.901	0.904	0.863	0.838	0.802
Methyl HT-SELEX, 2 experiments	best	0.957	0.929	0.932	0.898	0.872	0.84
Non-Methyl HT-SELEX, 2 experiments	median	0.929	0.888	0.899	0.852	0.836	0.795
Non-Methyl HT-SELEX, 2 experiments	best	0.937	0.899	0.908	0.865	0.851	0.81

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.576	0.137	0.475	0.291

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
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	ISL1.H13RSNP.0.PSM.A.pcm
PWM	ISL1.H13RSNP.0.PSM.A.pwm
PFM	ISL1.H13RSNP.0.PSM.A.pfm
Threshold to P-value map	ISL1.H13RSNP.0.PSM.A.thr
Motif in other formats
JASPAR format	ISL1.H13RSNP.0.PSM.A_jaspar_format.txt
MEME format	ISL1.H13RSNP.0.PSM.A_meme_format.meme
Transfac format	ISL1.H13RSNP.0.PSM.A_transfac_format.txt
Homer format	ISL1.H13RSNP.0.PSM.A_homer_format_0.001.txt ISL1.H13RSNP.0.PSM.A_homer_format_0.0005.txt ISL1.H13RSNP.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	11.0	572.0	139.0	287.0
02	158.0	3.0	1.0	847.0
03	823.0	4.0	180.0	2.0
04	1001.0	2.0	2.0	4.0
05	7.0	2.0	273.0	727.0
06	12.0	0.0	300.0	697.0
07	207.0	4.0	794.0	4.0
08	302.0	507.0	188.0	12.0
09	446.0	172.0	7.0	384.0
10	80.0	136.0	161.0	632.0

PFM

	A	C	G	T
01	0.011	0.567	0.138	0.284
02	0.157	0.003	0.001	0.839
03	0.816	0.004	0.178	0.002
04	0.992	0.002	0.002	0.004
05	0.007	0.002	0.271	0.721
06	0.012	0.0	0.297	0.691
07	0.205	0.004	0.787	0.004
08	0.299	0.502	0.186	0.012
09	0.442	0.17	0.007	0.381
10	0.079	0.135	0.16	0.626

PWM

	A	C	G	T
01	-2.993	0.815	-0.59	0.128
02	-0.464	-3.984	-4.533	1.206
03	1.178	-3.792	-0.335	-4.221
04	1.373	-4.221	-4.221	-3.792
05	-3.371	-4.221	0.079	1.054
06	-2.918	-4.99	0.172	1.012
07	-0.196	-3.792	1.142	-3.792
08	0.179	0.695	-0.292	-2.918
09	0.567	-0.38	-3.371	0.418
10	-1.134	-0.612	-0.445	0.914

Standard thresholds

P-value	Threshold
0.001	5.018945
0.0005	5.94427
0.0001	7.46074