PRDM1.H14CORE.1.PS.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PRDM1.H14CORE.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	vWMAGWGAAAGTdd
GC content	38.19%
Information content (bits; total / per base)	14.958 / 1.068
Data sources	ChIP-Seq + HT-SELEX
Aligned words	1000
Previous names	PRDM1.H12CORE.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)	0.912	0.981	0.876	0.966	0.911	0.973	4.478	5.869	243.523	620.244
Mouse	13 (72)	0.913	0.977	0.865	0.954	0.929	0.982	4.868	6.026	169.423	654.409

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.849	0.849	0.747	0.748	0.647	0.662
Overall, 4 experiments	best	0.99	0.984	0.967	0.956	0.848	0.851
Methyl HT-SELEX, 1 experiments	median	0.99	0.984	0.967	0.956	0.848	0.851
Methyl HT-SELEX, 1 experiments	best	0.99	0.984	0.967	0.956	0.848	0.851
Non-Methyl HT-SELEX, 3 experiments	median	0.739	0.757	0.604	0.631	0.548	0.573
Non-Methyl HT-SELEX, 3 experiments	best	0.96	0.94	0.889	0.866	0.746	0.751

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	7.559	5.838	0.163	0.137

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.807	0.664	0.723	0.552

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.H14CORE.1.PS.A.pcm
PWM	PRDM1.H14CORE.1.PS.A.pwm
PFM	PRDM1.H14CORE.1.PS.A.pfm
Threshold to P-value map	PRDM1.H14CORE.1.PS.A.thr
Motif in other formats
JASPAR format	PRDM1.H14CORE.1.PS.A_jaspar_format.txt
MEME format	PRDM1.H14CORE.1.PS.A_meme_format.meme
Transfac format	PRDM1.H14CORE.1.PS.A_transfac_format.txt
Homer format	PRDM1.H14CORE.1.PS.A_homer_format_0.001.txt PRDM1.H14CORE.1.PS.A_homer_format_0.0005.txt PRDM1.H14CORE.1.PS.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	365.0	115.0	409.0	111.0
02	608.0	110.0	138.0	144.0
03	683.0	125.0	96.0	96.0
04	850.0	0.0	126.0	24.0
05	56.0	6.0	904.0	34.0
06	189.0	20.0	175.0	616.0
07	31.0	1.0	968.0	0.0
08	990.0	5.0	2.0	3.0
09	938.0	2.0	59.0	1.0
10	985.0	0.0	4.0	11.0
11	11.0	19.0	952.0	18.0
12	5.0	89.0	67.0	839.0
13	200.0	85.0	497.0	218.0
14	447.0	162.0	210.0	181.0

PFM

	A	C	G	T
01	0.365	0.115	0.409	0.111
02	0.608	0.11	0.138	0.144
03	0.683	0.125	0.096	0.096
04	0.85	0.0	0.126	0.024
05	0.056	0.006	0.904	0.034
06	0.189	0.02	0.175	0.616
07	0.031	0.001	0.968	0.0
08	0.99	0.005	0.002	0.003
09	0.938	0.002	0.059	0.001
10	0.985	0.0	0.004	0.011
11	0.011	0.019	0.952	0.018
12	0.005	0.089	0.067	0.839
13	0.2	0.085	0.497	0.218
14	0.447	0.162	0.21	0.181

PWM

	A	C	G	T
01	0.376	-0.769	0.49	-0.803
02	0.885	-0.812	-0.589	-0.547
03	1.001	-0.686	-0.946	-0.946
04	1.219	-4.982	-0.678	-2.281
05	-1.473	-3.484	1.28	-1.952
06	-0.278	-2.45	-0.354	0.898
07	-2.04	-4.525	1.349	-4.982
08	1.371	-3.622	-4.213	-3.975
09	1.317	-4.213	-1.422	-4.525
10	1.366	-4.982	-3.783	-2.985
11	-2.985	-2.497	1.332	-2.546
12	-3.622	-1.02	-1.298	1.206
13	-0.221	-1.066	0.684	-0.136
14	0.578	-0.43	-0.173	-0.32

Standard thresholds

P-value	Threshold
0.001	2.81671
0.0005	4.04446
0.0001	6.58456