TCF21.H12INVITRO.1.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TCF21.H12INVITRO.1.SM.B
Gene (human)	TCF21 (GeneCards)
Gene synonyms (human)	BHLHA23, POD1
Gene (mouse)	Tcf21
Gene synonyms (mouse)	Pod1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	B

Motif length	13
Consensus	nYRCCATATGKYn
GC content	45.43%
Information content (bits; total / per base)	16.02 / 1.232
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	2179

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	3 (9)	0.788	0.795	0.557	0.572	0.554	0.56	1.206	1.239	22.77	27.284

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.864	0.82	0.778	0.739	0.683	0.667
Overall, 5 experiments	best	0.995	0.994	0.941	0.933	0.794	0.806
Methyl HT-SELEX, 1 experiments	median	0.995	0.994	0.941	0.933	0.794	0.806
Methyl HT-SELEX, 1 experiments	best	0.995	0.994	0.941	0.933	0.794	0.806
Non-Methyl HT-SELEX, 4 experiments	median	0.797	0.767	0.704	0.682	0.629	0.623
Non-Methyl HT-SELEX, 4 experiments	best	0.97	0.959	0.898	0.879	0.78	0.774

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.782	0.343	0.768	0.498

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	MESP {1.2.3.3} (TFClass)
TFClass ID	TFClass: 1.2.3.3.5
HGNC	HGNC:11632
MGI	MGI:1202715
EntrezGene (human)	GeneID:6943 (SSTAR profile)
EntrezGene (mouse)	GeneID:21412 (SSTAR profile)
UniProt ID (human)	TCF21_HUMAN
UniProt ID (mouse)	TCF21_MOUSE
UniProt AC (human)	O43680 (TFClass)
UniProt AC (mouse)	O35437 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	3 human, 0 mouse
HT-SELEX	4
Methyl-HT-SELEX	1

PCM	TCF21.H12INVITRO.1.SM.B.pcm
PWM	TCF21.H12INVITRO.1.SM.B.pwm
PFM	TCF21.H12INVITRO.1.SM.B.pfm
Alignment	TCF21.H12INVITRO.1.SM.B.words.tsv
Threshold to P-value map	TCF21.H12INVITRO.1.SM.B.thr
Motif in other formats
JASPAR format	TCF21.H12INVITRO.1.SM.B_jaspar_format.txt
MEME format	TCF21.H12INVITRO.1.SM.B_meme_format.meme
Transfac format	TCF21.H12INVITRO.1.SM.B_transfac_format.txt
Homer format	TCF21.H12INVITRO.1.SM.B_homer_format_0.001.txt TCF21.H12INVITRO.1.SM.B_homer_format_0.0005.txt TCF21.H12INVITRO.1.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	726.5	560.5	519.5	372.5
02	123.5	1390.5	201.5	463.5
03	1263.0	13.0	897.0	6.0
04	336.0	1806.0	35.0	2.0
05	0.0	2179.0	0.0	0.0
06	2178.0	0.0	1.0	0.0
07	0.0	0.0	13.0	2166.0
08	2166.0	13.0	0.0	0.0
09	0.0	2.0	0.0	2177.0
10	0.0	0.0	2178.0	1.0
11	2.0	139.0	1235.0	803.0
12	232.75	452.75	104.75	1388.75
13	577.75	744.75	384.75	471.75

PFM

	A	C	G	T
01	0.333	0.257	0.238	0.171
02	0.057	0.638	0.092	0.213
03	0.58	0.006	0.412	0.003
04	0.154	0.829	0.016	0.001
05	0.0	1.0	0.0	0.0
06	1.0	0.0	0.0	0.0
07	0.0	0.0	0.006	0.994
08	0.994	0.006	0.0	0.0
09	0.0	0.001	0.0	0.999
10	0.0	0.0	1.0	0.0
11	0.001	0.064	0.567	0.369
12	0.107	0.208	0.048	0.637
13	0.265	0.342	0.177	0.216

PWM

	A	C	G	T
01	0.287	0.028	-0.047	-0.378
02	-1.472	0.935	-0.989	-0.161
03	0.839	-3.601	0.497	-4.234
04	-0.481	1.196	-2.695	-4.937
05	-5.651	1.384	-5.651	-5.651
06	1.383	-5.651	-5.232	-5.651
07	-5.651	-5.651	-3.601	1.378
08	1.378	-3.601	-5.651	-5.651
09	-5.651	-4.937	-5.651	1.383
10	-5.651	-5.651	1.383	-5.232
11	-4.937	-1.356	0.817	0.387
12	-0.846	-0.184	-1.634	0.934
13	0.059	0.312	-0.346	-0.143

Standard thresholds

P-value	Threshold
0.001	0.13338
0.0005	2.03291
0.0001	5.22565