HAND2.H12RSNP.2.S.D motif - HOmo sapiens COmprehensive MOdel COllection

Motif	HAND2.H12RSNP.2.S.D
Gene (human)	HAND2 (GeneCards)
Gene synonyms (human)	BHLHA26, DHAND
Gene (mouse)	Hand2
Gene synonyms (mouse)	Dhand, Hed, Thing2
LOGO
LOGO (reverse complement)
Motif subtype	2
Quality	D

Motif length	12
Consensus	nhRCACCTGYdh
GC content	59.74%
Information content (bits; total / per base)	13.72 / 1.143
Data sources	HT-SELEX
Aligned words	428

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 (26)	0.48	0.494	0.318	0.331	0.514	0.54	1.013	1.118	3.151	6.108
Mouse	1 (7)	0.502	0.508	0.342	0.349	0.52	0.542	1.046	1.11	1.824	3.201

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Non-Methyl HT-SELEX, 1 experiments	median	0.827	0.807	0.672	0.678	0.588	0.606
Non-Methyl HT-SELEX, 1 experiments	best	0.827	0.807	0.672	0.678	0.588	0.606

TF superclass	Basic domains {1} (TFClass)
TF class	Basic helix-loop-helix factors (bHLH) {1.2} (TFClass)
TF family	Tal-related {1.2.3} (TFClass)
TF subfamily	TWIST {1.2.3.2} (TFClass)
TFClass ID	TFClass: 1.2.3.2.4
HGNC	HGNC:4808
MGI	MGI:103580
EntrezGene (human)	GeneID:9464 (SSTAR profile)
EntrezGene (mouse)	GeneID:15111 (SSTAR profile)
UniProt ID (human)	HAND2_HUMAN
UniProt ID (mouse)	HAND2_MOUSE
UniProt AC (human)	P61296 (TFClass)
UniProt AC (mouse)	Q61039 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	4 human, 1 mouse
HT-SELEX	1
Methyl-HT-SELEX	0

PCM	HAND2.H12RSNP.2.S.D.pcm
PWM	HAND2.H12RSNP.2.S.D.pwm
PFM	HAND2.H12RSNP.2.S.D.pfm
Alignment	HAND2.H12RSNP.2.S.D.words.tsv
Threshold to P-value map	HAND2.H12RSNP.2.S.D.thr
Motif in other formats
JASPAR format	HAND2.H12RSNP.2.S.D_jaspar_format.txt
MEME format	HAND2.H12RSNP.2.S.D_meme_format.meme
Transfac format	HAND2.H12RSNP.2.S.D_transfac_format.txt
Homer format	HAND2.H12RSNP.2.S.D_homer_format_0.001.txt HAND2.H12RSNP.2.S.D_homer_format_0.0005.txt HAND2.H12RSNP.2.S.D_homer_format_0.0001.txt

PCM

	A	C	G	T
01	89.0	93.0	149.0	97.0
02	149.25	114.25	18.25	146.25
03	172.0	51.0	202.0	3.0
04	0.0	428.0	0.0	0.0
05	428.0	0.0	0.0	0.0
06	0.0	428.0	0.0	0.0
07	0.0	428.0	0.0	0.0
08	0.0	0.0	0.0	428.0
09	1.0	0.0	427.0	0.0
10	4.0	284.0	54.0	86.0
11	182.75	62.75	91.75	90.75
12	90.75	175.75	61.75	99.75

PFM

	A	C	G	T
01	0.208	0.217	0.348	0.227
02	0.349	0.267	0.043	0.342
03	0.402	0.119	0.472	0.007
04	0.0	1.0	0.0	0.0
05	1.0	0.0	0.0	0.0
06	0.0	1.0	0.0	0.0
07	0.0	1.0	0.0	0.0
08	0.0	0.0	0.0	1.0
09	0.002	0.0	0.998	0.0
10	0.009	0.664	0.126	0.201
11	0.427	0.147	0.214	0.212
12	0.212	0.411	0.144	0.233

PWM

	A	C	G	T
01	-0.181	-0.138	0.327	-0.097
02	0.329	0.065	-1.703	0.309
03	0.469	-0.726	0.629	-3.18
04	-4.272	1.376	-4.272	-4.272
05	1.376	-4.272	-4.272	-4.272
06	-4.272	1.376	-4.272	-4.272
07	-4.272	1.376	-4.272	-4.272
08	-4.272	-4.272	-4.272	1.376
09	-3.765	-4.272	1.373	-4.272
10	-2.979	0.967	-0.67	-0.215
11	0.529	-0.524	-0.151	-0.162
12	-0.162	0.491	-0.54	-0.069

Standard thresholds

P-value	Threshold
0.001	3.073125
0.0005	4.00444
0.0001	7.200495