PRDM1.H14INVITRO.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PRDM1.H14INVITRO.1.PS.A
Gene (human)	PRDM1 (GeneCards)
Gene synonyms (human)	BLIMP1
Gene (mouse)	Prdm1
Gene synonyms (mouse)	Blimp1
LOGO
LOGO (reverse complement)
Motif subtype	1
Quality	A

Motif length	14
Consensus	dWWAGYGAAAGTdn
GC content	38.34%
Information content (bits; total / per base)	15.413 / 1.101
Data sources	ChIP-Seq + HT-SELEX
Aligned words	2411
Previous names	PRDM1.H12INVITRO.1.PS.A

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	6 (35)	0.894	0.981	0.856	0.968	0.888	0.974	4.383	5.929	230.108	578.357
Mouse	13 (72)	0.911	0.98	0.867	0.961	0.923	0.983	4.813	6.191	158.228	661.824

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.852	0.851	0.751	0.752	0.656	0.668
Overall, 4 experiments	best	0.99	0.985	0.966	0.956	0.851	0.853
Methyl HT-SELEX, 1 experiments	median	0.99	0.985	0.966	0.956	0.851	0.853
Methyl HT-SELEX, 1 experiments	best	0.99	0.985	0.966	0.956	0.851	0.853
Non-Methyl HT-SELEX, 3 experiments	median	0.742	0.759	0.607	0.633	0.551	0.575
Non-Methyl HT-SELEX, 3 experiments	best	0.961	0.942	0.894	0.87	0.762	0.761

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	5.92	4.94	0.144	0.126

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.856	0.651	0.791	0.641

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	More than 3 adjacent zinc fingers {2.3.3} (TFClass)
TF subfamily	PRDM1-like {2.3.3.12} (TFClass)
TFClass ID	TFClass: 2.3.3.12.1
HGNC	HGNC:9346
MGI	MGI:99655
EntrezGene (human)	GeneID:639 (SSTAR profile)
EntrezGene (mouse)	GeneID:12142 (SSTAR profile)
UniProt ID (human)	PRDM1_HUMAN
UniProt ID (mouse)	PRDM1_MOUSE
UniProt AC (human)	O75626 (TFClass)
UniProt AC (mouse)	Q60636 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	6 human, 13 mouse
HT-SELEX	3
Methyl-HT-SELEX	1
Genomic HT-SELEX	0 overall: 0 Lysate, 0 IVT, 0 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	PRDM1.H14INVITRO.1.PS.A.pcm
PWM	PRDM1.H14INVITRO.1.PS.A.pwm
PFM	PRDM1.H14INVITRO.1.PS.A.pfm
Threshold to P-value map	PRDM1.H14INVITRO.1.PS.A.thr
Motif in other formats
JASPAR format	PRDM1.H14INVITRO.1.PS.A_jaspar_format.txt
MEME format	PRDM1.H14INVITRO.1.PS.A_meme_format.meme
Transfac format	PRDM1.H14INVITRO.1.PS.A_transfac_format.txt
Homer format	PRDM1.H14INVITRO.1.PS.A_homer_format_0.001.txt PRDM1.H14INVITRO.1.PS.A_homer_format_0.0005.txt PRDM1.H14INVITRO.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	817.0	177.0	1147.0	270.0
02	1604.0	258.0	234.0	315.0
03	1784.0	193.0	176.0	258.0
04	2184.0	41.0	84.0	102.0
05	86.0	40.0	2202.0	83.0
06	61.0	284.0	279.0	1787.0
07	48.0	3.0	2356.0	4.0
08	2377.0	9.0	12.0	13.0
09	2302.0	19.0	65.0	25.0
10	2334.0	36.0	14.0	27.0
11	47.0	46.0	2261.0	57.0
12	76.0	135.0	226.0	1974.0
13	446.75	218.75	1337.75	407.75
14	765.75	496.75	589.75	558.75

PFM

	A	C	G	T
01	0.339	0.073	0.476	0.112
02	0.665	0.107	0.097	0.131
03	0.74	0.08	0.073	0.107
04	0.906	0.017	0.035	0.042
05	0.036	0.017	0.913	0.034
06	0.025	0.118	0.116	0.741
07	0.02	0.001	0.977	0.002
08	0.986	0.004	0.005	0.005
09	0.955	0.008	0.027	0.01
10	0.968	0.015	0.006	0.011
11	0.019	0.019	0.938	0.024
12	0.032	0.056	0.094	0.819
13	0.185	0.091	0.555	0.169
14	0.318	0.206	0.245	0.232

PWM

	A	C	G	T
01	0.303	-1.218	0.642	-0.799
02	0.977	-0.844	-0.941	-0.646
03	1.083	-1.132	-1.223	-0.844
04	1.285	-2.645	-1.951	-1.761
05	-1.928	-2.668	1.293	-1.963
06	-2.262	-0.749	-0.767	1.085
07	-2.494	-4.806	1.361	-4.622
08	1.37	-4.012	-3.769	-3.7
09	1.338	-3.363	-2.201	-3.111
10	1.351	-2.769	-3.635	-3.039
11	-2.514	-2.535	1.32	-2.328
12	-2.049	-1.485	-0.976	1.184
13	-0.298	-1.008	0.795	-0.389
14	0.239	-0.193	-0.022	-0.076

Standard thresholds

P-value	Threshold
0.001	2.73591
0.0005	3.92831
0.0001	6.40476