PRDM1.H12INVIVO.0.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PRDM1.H12INVIVO.0.S.B
Gene (human)	PRDM1 (GeneCards)
Gene synonyms (human)	BLIMP1
Gene (mouse)	Prdm1
Gene synonyms (mouse)	Blimp1
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	B

Motif length	12
Consensus	dRKKGAAAGTdn
GC content	39.34%
Information content (bits; total / per base)	13.527 / 1.127
Data sources	HT-SELEX
Aligned words	2214

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)	0.91	0.98	0.866	0.967	0.895	0.968	4.133	5.277	242.137	588.155
Mouse	13 (72)	0.917	0.973	0.87	0.948	0.915	0.966	4.198	4.995	176.473	634.959

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.855	0.854	0.756	0.757	0.653	0.669
Overall, 4 experiments	best	0.991	0.985	0.971	0.96	0.855	0.859
Methyl HT-SELEX, 1 experiments	median	0.991	0.985	0.971	0.96	0.855	0.859
Methyl HT-SELEX, 1 experiments	best	0.991	0.985	0.971	0.96	0.855	0.859
Non-Methyl HT-SELEX, 3 experiments	median	0.745	0.759	0.609	0.633	0.552	0.576
Non-Methyl HT-SELEX, 3 experiments	best	0.966	0.948	0.902	0.88	0.755	0.761

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	6.892	5.331	0.152	0.127

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.846	0.64	0.758	0.619

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

PCM	PRDM1.H12INVIVO.0.S.B.pcm
PWM	PRDM1.H12INVIVO.0.S.B.pwm
PFM	PRDM1.H12INVIVO.0.S.B.pfm
Alignment	PRDM1.H12INVIVO.0.S.B.words.tsv
Threshold to P-value map	PRDM1.H12INVIVO.0.S.B.thr
Motif in other formats
JASPAR format	PRDM1.H12INVIVO.0.S.B_jaspar_format.txt
MEME format	PRDM1.H12INVIVO.0.S.B_meme_format.meme
Transfac format	PRDM1.H12INVIVO.0.S.B_transfac_format.txt
Homer format	PRDM1.H12INVIVO.0.S.B_homer_format_0.001.txt PRDM1.H12INVIVO.0.S.B_homer_format_0.0005.txt PRDM1.H12INVIVO.0.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	1283.0	292.0	319.0	320.0
02	1584.25	162.25	257.25	210.25
03	219.0	159.0	1615.0	221.0
04	146.0	325.0	332.0	1411.0
05	20.0	6.0	2181.0	7.0
06	2211.0	1.0	1.0	1.0
07	2194.0	2.0	14.0	4.0
08	2210.0	0.0	2.0	2.0
09	16.0	10.0	2170.0	18.0
10	33.0	108.0	148.0	1925.0
11	347.25	190.25	1252.25	424.25
12	804.75	429.75	475.75	503.75

PFM

	A	C	G	T
01	0.579	0.132	0.144	0.145
02	0.716	0.073	0.116	0.095
03	0.099	0.072	0.729	0.1
04	0.066	0.147	0.15	0.637
05	0.009	0.003	0.985	0.003
06	0.999	0.0	0.0	0.0
07	0.991	0.001	0.006	0.002
08	0.998	0.0	0.001	0.001
09	0.007	0.005	0.98	0.008
10	0.015	0.049	0.067	0.869
11	0.157	0.086	0.566	0.192
12	0.363	0.194	0.215	0.228

PWM

	A	C	G	T
01	0.839	-0.636	-0.549	-0.545
02	1.049	-1.219	-0.762	-0.962
03	-0.922	-1.239	1.069	-0.913
04	-1.323	-0.53	-0.509	0.934
05	-3.232	-4.25	1.369	-4.131
06	1.382	-5.246	-5.246	-5.246
07	1.375	-4.952	-3.552	-4.54
08	1.382	-5.664	-4.952	-4.952
09	-3.434	-3.841	1.364	-3.328
10	-2.767	-1.62	-1.31	1.244
11	-0.464	-1.061	0.814	-0.265
12	0.373	-0.252	-0.151	-0.094

Standard thresholds

P-value	Threshold
0.001	3.11931
0.0005	4.42594
0.0001	7.068915