TCF21.H12INVITRO.0.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	TCF21.H12INVITRO.0.PS.A
Gene (human)	TCF21 (GeneCards)
Gene synonyms (human)	BHLHA23, POD1
Gene (mouse)	Tcf21
Gene synonyms (mouse)	Pod1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	11
Consensus	nvCAGCTGKbn
GC content	53.08%
Information content (bits; total / per base)	10.691 / 0.972
Data sources	ChIP-Seq + HT-SELEX
Aligned words	6031

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)	0.908	0.914	0.833	0.845	0.864	0.873	2.867	2.943	504.658	653.155

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 5 experiments	median	0.915	0.887	0.808	0.784	0.697	0.692
Overall, 5 experiments	best	0.957	0.945	0.899	0.875	0.763	0.763
Methyl HT-SELEX, 1 experiments	median	0.957	0.945	0.899	0.875	0.763	0.763
Methyl HT-SELEX, 1 experiments	best	0.957	0.945	0.899	0.875	0.763	0.763
Non-Methyl HT-SELEX, 4 experiments	median	0.816	0.79	0.716	0.7	0.635	0.633
Non-Methyl HT-SELEX, 4 experiments	best	0.926	0.899	0.848	0.818	0.733	0.723

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.71	0.133	0.704	0.483

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.0.PS.A.pcm
PWM	TCF21.H12INVITRO.0.PS.A.pwm
PFM	TCF21.H12INVITRO.0.PS.A.pfm
Alignment	TCF21.H12INVITRO.0.PS.A.words.tsv
Threshold to P-value map	TCF21.H12INVITRO.0.PS.A.thr
Motif in other formats
JASPAR format	TCF21.H12INVITRO.0.PS.A_jaspar_format.txt
MEME format	TCF21.H12INVITRO.0.PS.A_meme_format.meme
Transfac format	TCF21.H12INVITRO.0.PS.A_transfac_format.txt
Homer format	TCF21.H12INVITRO.0.PS.A_homer_format_0.001.txt TCF21.H12INVITRO.0.PS.A_homer_format_0.0005.txt TCF21.H12INVITRO.0.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1663.25	1229.25	1911.25	1227.25
02	2842.0	731.0	1864.0	594.0
03	430.0	5309.0	192.0	100.0
04	5658.0	4.0	343.0	26.0
05	2.0	106.0	4997.0	926.0
06	1076.0	4609.0	346.0	0.0
07	0.0	0.0	0.0	6031.0
08	0.0	0.0	6031.0	0.0
09	95.0	135.0	2513.0	3288.0
10	730.25	883.25	838.25	3579.25
11	1617.5	1445.5	1723.5	1244.5

PFM

	A	C	G	T
01	0.276	0.204	0.317	0.203
02	0.471	0.121	0.309	0.098
03	0.071	0.88	0.032	0.017
04	0.938	0.001	0.057	0.004
05	0.0	0.018	0.829	0.154
06	0.178	0.764	0.057	0.0
07	0.0	0.0	0.0	1.0
08	0.0	0.0	1.0	0.0
09	0.016	0.022	0.417	0.545
10	0.121	0.146	0.139	0.593
11	0.268	0.24	0.286	0.206

PWM

	A	C	G	T
01	0.098	-0.204	0.237	-0.206
02	0.633	-0.722	0.212	-0.929
03	-1.251	1.258	-2.051	-2.693
04	1.321	-5.499	-1.476	-3.981
05	-5.89	-2.636	1.197	-0.487
06	-0.337	1.116	-1.467	-6.542
07	-6.542	-6.542	-6.542	1.385
08	-6.542	-6.542	1.385	-6.542
09	-2.743	-2.399	0.51	0.779
10	-0.723	-0.534	-0.586	0.864
11	0.07	-0.042	0.134	-0.192

Standard thresholds

P-value	Threshold
0.001	4.59781
0.0005	5.59943
0.0001	7.597655