PRDM1.H12INVITRO.0.S.B motif - HOmo sapiens COmprehensive MOdel COllection

Motif	PRDM1.H12INVITRO.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	11
Consensus	ddbKAAAGKdn
GC content	41.45%
Information content (bits; total / per base)	7.759 / 0.705
Data sources	HT-SELEX
Aligned words	9722

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	0.974	0.855	0.958	0.886	0.955	3.951	4.852	220.796	573.143
Mouse	13 (72)	0.904	0.96	0.835	0.913	0.903	0.954	3.928	4.475	177.717	608.921

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
Overall, 4 experiments	median	0.857	0.855	0.76	0.76	0.66	0.673
Overall, 4 experiments	best	0.99	0.984	0.97	0.96	0.852	0.856
Methyl HT-SELEX, 1 experiments	median	0.99	0.984	0.97	0.96	0.852	0.856
Methyl HT-SELEX, 1 experiments	best	0.99	0.984	0.97	0.96	0.852	0.856
Non-Methyl HT-SELEX, 3 experiments	median	0.746	0.759	0.611	0.634	0.554	0.577
Non-Methyl HT-SELEX, 3 experiments	best	0.968	0.951	0.909	0.887	0.765	0.77

rSNP benchmarking, ADASTRA	odds-ratio	-log-Fisher's P	Pearson r	Kendall tau
#	3.328	2.874	0.13	0.124

rSNP benchmarking, SNP-SELEX	auROC	auPRC	Pearson r	Kendall tau
batch 2	0.649	0.507	0.771	0.611

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.H12INVITRO.0.S.B.pcm
PWM	PRDM1.H12INVITRO.0.S.B.pwm
PFM	PRDM1.H12INVITRO.0.S.B.pfm
Alignment	PRDM1.H12INVITRO.0.S.B.words.tsv
Threshold to P-value map	PRDM1.H12INVITRO.0.S.B.thr
Motif in other formats
JASPAR format	PRDM1.H12INVITRO.0.S.B_jaspar_format.txt
MEME format	PRDM1.H12INVITRO.0.S.B_meme_format.meme
Transfac format	PRDM1.H12INVITRO.0.S.B_transfac_format.txt
Homer format	PRDM1.H12INVITRO.0.S.B_homer_format_0.001.txt PRDM1.H12INVITRO.0.S.B_homer_format_0.0005.txt PRDM1.H12INVITRO.0.S.B_homer_format_0.0001.txt

PCM

	A	C	G	T
01	4687.25	1566.25	1610.25	1858.25
02	1700.75	1389.75	4963.75	1667.75
03	1542.0	2119.0	1998.0	4063.0
04	882.0	422.0	7497.0	921.0
05	8609.0	143.0	140.0	830.0
06	8694.0	11.0	491.0	526.0
07	8938.0	290.0	70.0	424.0
08	280.0	320.0	8679.0	443.0
09	787.0	1089.0	1584.0	6262.0
10	1917.5	1249.5	4805.5	1749.5
11	3483.75	2000.75	1892.75	2344.75

PFM

	A	C	G	T
01	0.482	0.161	0.166	0.191
02	0.175	0.143	0.511	0.172
03	0.159	0.218	0.206	0.418
04	0.091	0.043	0.771	0.095
05	0.886	0.015	0.014	0.085
06	0.894	0.001	0.051	0.054
07	0.919	0.03	0.007	0.044
08	0.029	0.033	0.893	0.046
09	0.081	0.112	0.163	0.644
10	0.197	0.129	0.494	0.18
11	0.358	0.206	0.195	0.241

PWM

	A	C	G	T
01	0.656	-0.439	-0.411	-0.268
02	-0.357	-0.558	0.714	-0.376
03	-0.454	-0.137	-0.196	0.513
04	-1.012	-1.746	1.126	-0.969
05	1.264	-2.818	-2.839	-1.073
06	1.274	-5.209	-1.596	-1.527
07	1.302	-2.119	-3.516	-1.742
08	-2.154	-2.021	1.272	-1.698
09	-1.126	-0.802	-0.428	0.946
10	-0.237	-0.664	0.681	-0.328
11	0.36	-0.194	-0.25	-0.036

Standard thresholds

P-value	Threshold
0.001	5.02652
0.0005	5.70138
0.0001	7.076205