ISL1.H12INVITRO.0.PSM.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ISL1.H12INVITRO.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	41.28%
Information content (bits; total / per base)	9.668 / 0.806
Data sources	ChIP-Seq + HT-SELEX + Methyl-HT-SELEX
Aligned words	9875

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)	0.705	0.808	0.6	0.663	0.615	0.735	1.497	1.88	47.531	85.678
Mouse	4 (16)	0.833	0.854	0.726	0.763	0.745	0.767	1.994	2.122	101.968	131.509

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.96	0.935	0.936	0.904	0.883	0.849
Overall, 4 experiments	best	0.976	0.961	0.959	0.937	0.917	0.892
Methyl HT-SELEX, 2 experiments	median	0.967	0.947	0.944	0.917	0.89	0.862
Methyl HT-SELEX, 2 experiments	best	0.976	0.961	0.959	0.937	0.917	0.892
Non-Methyl HT-SELEX, 2 experiments	median	0.958	0.932	0.934	0.901	0.883	0.849
Non-Methyl HT-SELEX, 2 experiments	best	0.962	0.938	0.942	0.911	0.899	0.866

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.64	0.185	0.351	0.187

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.H12INVITRO.0.PSM.A.pcm
PWM	ISL1.H12INVITRO.0.PSM.A.pwm
PFM	ISL1.H12INVITRO.0.PSM.A.pfm
Alignment	ISL1.H12INVITRO.0.PSM.A.words.tsv
Threshold to P-value map	ISL1.H12INVITRO.0.PSM.A.thr
Motif in other formats
JASPAR format	ISL1.H12INVITRO.0.PSM.A_jaspar_format.txt
MEME format	ISL1.H12INVITRO.0.PSM.A_meme_format.meme
Transfac format	ISL1.H12INVITRO.0.PSM.A_transfac_format.txt
Homer format	ISL1.H12INVITRO.0.PSM.A_homer_format_0.001.txt ISL1.H12INVITRO.0.PSM.A_homer_format_0.0005.txt ISL1.H12INVITRO.0.PSM.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2348.25	1954.25	2926.25	2646.25
02	1639.5	4210.5	1976.5	2048.5
03	2776.0	2331.0	4136.0	632.0
04	472.0	4132.0	1256.0	4015.0
05	25.0	4.0	1.0	9845.0
06	9875.0	0.0	0.0	0.0
07	9875.0	0.0	0.0	0.0
08	0.0	0.0	2968.0	6907.0
09	14.0	41.0	4674.0	5146.0
10	1662.0	966.0	7039.0	208.0
11	3269.0	3427.0	2356.0	823.0
12	2577.75	2422.75	2091.75	2782.75

PFM

	A	C	G	T
01	0.238	0.198	0.296	0.268
02	0.166	0.426	0.2	0.207
03	0.281	0.236	0.419	0.064
04	0.048	0.418	0.127	0.407
05	0.003	0.0	0.0	0.997
06	1.0	0.0	0.0	0.0
07	1.0	0.0	0.0	0.0
08	0.0	0.0	0.301	0.699
09	0.001	0.004	0.473	0.521
10	0.168	0.098	0.713	0.021
11	0.331	0.347	0.239	0.083
12	0.261	0.245	0.212	0.282

PWM

	A	C	G	T
01	-0.05	-0.233	0.17	0.069
02	-0.409	0.533	-0.222	-0.186
03	0.117	-0.057	0.516	-1.36
04	-1.651	0.515	-0.675	0.486
05	-4.506	-5.972	-6.619	1.383
06	1.386	-6.98	-6.98	-6.98
07	1.386	-6.98	-6.98	-6.98
08	-6.98	-6.98	0.184	1.028
09	-5.021	-4.044	0.638	0.734
10	-0.395	-0.937	1.047	-2.464
11	0.281	0.328	-0.047	-1.097
12	0.043	-0.019	-0.166	0.12

Standard thresholds

P-value	Threshold
0.001	5.33011
0.0005	6.187575
0.0001	7.53685