ATF3.H13INVIVO.3.SM.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	ATF3.H13INVIVO.3.SM.B
Gene (human)	ATF3 (GeneCards)
Gene synonyms (human)
Gene (mouse)	Atf3
Gene synonyms (mouse)
LOGO
LOGO (reverse complement)
Motif subtype	3
Quality	B

Motif length	14
Consensus	nbRATGACGTCAYn
GC content	45.48%
Information content (bits; total / per base)	15.768 / 1.126
Data sources	HT-SELEX + Methyl-HT-SELEX
Aligned words	8441
Previous names	ATF3.H12INVIVO.3.SM.B

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	18 (118)	0.673	0.884	0.558	0.812	0.636	0.876	1.926	4.298	65.288	438.387
Mouse	13 (85)	0.766	0.796	0.622	0.7	0.74	0.767	2.245	2.923	66.036	106.854

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	1.0	1.0	1.0	1.0	0.999	0.999
Overall, 4 experiments	best	1.0	1.0	1.0	1.0	1.0	0.999
Methyl HT-SELEX, 2 experiments	median	1.0	1.0	1.0	0.999	0.999	0.998
Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	1.0	0.999	0.999
Non-Methyl HT-SELEX, 2 experiments	median	1.0	1.0	1.0	1.0	1.0	0.999
Non-Methyl HT-SELEX, 2 experiments	best	1.0	1.0	1.0	1.0	1.0	0.999

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	5.641	9.734	0.156	0.13

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 1	0.821	0.466	0.756	0.49
batch 2	0.833	0.659	0.812	0.612

TF superclass	Basic domains {1} (TFClass)
TF class	Basic leucine zipper factors (bZIP) {1.1} (TFClass)
TF family	Fos-related {1.1.2} (TFClass)
TF subfamily	ATF3-like {1.1.2.2} (TFClass)
TFClass ID	TFClass: 1.1.2.2.1
HGNC	HGNC:785
MGI	MGI:109384
EntrezGene (human)	GeneID:467 (SSTAR profile)
EntrezGene (mouse)	GeneID:11910 (SSTAR profile)
UniProt ID (human)	ATF3_HUMAN
UniProt ID (mouse)	ATF3_MOUSE
UniProt AC (human)	P18847 (TFClass)
UniProt AC (mouse)	Q60765 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	18 human, 13 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	ATF3.H13INVIVO.3.SM.B.pcm
PWM	ATF3.H13INVIVO.3.SM.B.pwm
PFM	ATF3.H13INVIVO.3.SM.B.pfm
Threshold to P-value map	ATF3.H13INVIVO.3.SM.B.thr
Motif in other formats
JASPAR format	ATF3.H13INVIVO.3.SM.B_jaspar_format.txt
MEME format	ATF3.H13INVIVO.3.SM.B_meme_format.meme
Transfac format	ATF3.H13INVIVO.3.SM.B_transfac_format.txt
Homer format	ATF3.H13INVIVO.3.SM.B_homer_format_0.001.txt ATF3.H13INVIVO.3.SM.B_homer_format_0.0005.txt ATF3.H13INVIVO.3.SM.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	2685.25	1803.25	2511.25	1441.25
02	1057.75	2250.75	1362.75	3769.75
03	1099.0	358.0	6000.0	984.0
04	7019.0	38.0	1383.0	1.0
05	0.0	6.0	0.0	8435.0
06	0.0	0.0	8429.0	12.0
07	8441.0	0.0	0.0	0.0
08	2.0	7127.0	20.0	1292.0
09	1863.0	100.0	6393.0	85.0
10	33.0	177.0	23.0	8208.0
11	1206.0	7050.0	117.0	68.0
12	7935.0	58.0	285.0	163.0
13	199.5	2888.5	1046.5	4306.5
14	1838.75	2684.75	1637.75	2279.75

PFM

	A	C	G	T
01	0.318	0.214	0.298	0.171
02	0.125	0.267	0.161	0.447
03	0.13	0.042	0.711	0.117
04	0.832	0.005	0.164	0.0
05	0.0	0.001	0.0	0.999
06	0.0	0.0	0.999	0.001
07	1.0	0.0	0.0	0.0
08	0.0	0.844	0.002	0.153
09	0.221	0.012	0.757	0.01
10	0.004	0.021	0.003	0.972
11	0.143	0.835	0.014	0.008
12	0.94	0.007	0.034	0.019
13	0.024	0.342	0.124	0.51
14	0.218	0.318	0.194	0.27

PWM

	A	C	G	T
01	0.241	-0.157	0.174	-0.381
02	-0.69	0.064	-0.437	0.58
03	-0.651	-1.769	1.044	-0.762
04	1.201	-3.96	-0.422	-6.474
05	-6.84	-5.544	-6.84	1.385
06	-6.84	-6.84	1.384	-4.998
07	1.385	-6.84	-6.84	-6.84
08	-6.206	1.216	-4.553	-0.49
09	-0.124	-3.028	1.108	-3.187
10	-4.093	-2.467	-4.426	1.358
11	-0.559	1.205	-2.874	-3.403
12	1.324	-3.557	-1.995	-2.548
13	-2.349	0.314	-0.7	0.713
14	-0.138	0.241	-0.253	0.077

Standard thresholds

P-value	Threshold
0.001	1.04161
0.0005	2.67531
0.0001	5.979165