SALL3.H13INVIVO.0.PSG.A motif - HOmo sapiens COmprehensive MOdel COllection

Motif	SALL3.H13INVIVO.0.PSG.A
Gene (human)	SALL3 (GeneCards)
Gene synonyms (human)	ZNF796
Gene (mouse)	Sall3
Gene synonyms (mouse)	Sal
LOGO
LOGO (reverse complement)
Motif subtype	0
Quality	A

Motif length	19
Consensus	dvWTATKAATWWKdWWWWh
GC content	13.02%
Information content (bits; total / per base)	17.32 / 0.912
Data sources	ChIP-Seq + HT-SELEX + Genomic HT-SELEX
Aligned words	999
Previous names

ChIP-Seq benchmarking	Num. of experiments (peaksets)	auROC, median	auROC, best	auPRC, median	auPRC, best	pseudo-auROC, median	pseudo-auROC, best	Centrality, median	Centrality, best
Overall	1 (2)	0.814	0.815	0.674	0.676	0.693	0.712	7.193	9.066

HT-SELEX benchmarking		auROC10	auPRC10	auROC25	auPRC25	auROC50	auPRC50
overall, 8 experiments	median	0.966	0.948	0.925	0.897	0.796	0.798
overall, 8 experiments	best	0.992	0.987	0.976	0.964	0.945	0.928
Lysate, 4 experiments	median	0.978	0.966	0.949	0.93	0.829	0.839
Lysate, 4 experiments	best	0.988	0.98	0.976	0.964	0.945	0.928
IVT, 2 experiments	median	0.885	0.849	0.727	0.734	0.603	0.64
IVT, 2 experiments	best	0.923	0.885	0.856	0.817	0.702	0.711
GFPIVT, 2 experiments	median	0.973	0.956	0.948	0.924	0.89	0.865
GFPIVT, 2 experiments	best	0.992	0.987	0.973	0.963	0.91	0.897

Genomic HT-SELEX benchmarking		Centrality	pseudo-auROC	auROC	auPR
overall, 8 experiments	median	100.619	0.828	0.873	0.817
overall, 8 experiments	best	516.538	0.92	0.945	0.871
Lysate, 4 experiments	median	445.028	0.845	0.917	0.823
Lysate, 4 experiments	best	516.538	0.864	0.945	0.871
IVT, 2 experiments	median	78.113	0.724	0.811	0.654
IVT, 2 experiments	best	79.77	0.725	0.847	0.731
GFPIVT, 2 experiments	median	73.918	0.793	0.833	0.726
GFPIVT, 2 experiments	best	105.538	0.92	0.933	0.85

TF superclass	Zinc-coordinating DNA-binding domains {2} (TFClass)
TF class	C2H2 zinc finger factors {2.3} (TFClass)
TF family	Multiple dispersed zinc fingers {2.3.4} (TFClass)
TF subfamily	SAL-like {2.3.4.3} (TFClass)
TFClass ID	TFClass: 2.3.4.3.3
HGNC	HGNC:10527
MGI	MGI:109295
EntrezGene (human)	GeneID:27164 (SSTAR profile)
EntrezGene (mouse)	GeneID:20689 (SSTAR profile)
UniProt ID (human)	SALL3_HUMAN
UniProt ID (mouse)	SALL3_MOUSE
UniProt AC (human)	Q9BXA9 (TFClass)
UniProt AC (mouse)	Q62255 (TFClass)
GRECO-DB-TF	yes

ChIP-Seq	1 human, 0 mouse
HT-SELEX	8 overall: 4 Lysate, 2 IVT, 2 GFPIVT
Genomic HT-SELEX	8 overall: 4 Lysate, 2 IVT, 2 GFPIVT
SMiLE-Seq	0
PBM	0

PCM	SALL3.H13INVIVO.0.PSG.A.pcm
PWM	SALL3.H13INVIVO.0.PSG.A.pwm
PFM	SALL3.H13INVIVO.0.PSG.A.pfm
Threshold to P-value map	SALL3.H13INVIVO.0.PSG.A.thr
Motif in other formats
JASPAR format	SALL3.H13INVIVO.0.PSG.A_jaspar_format.txt
MEME format	SALL3.H13INVIVO.0.PSG.A_meme_format.meme
Transfac format	SALL3.H13INVIVO.0.PSG.A_transfac_format.txt
Homer format	SALL3.H13INVIVO.0.PSG.A_homer_format_0.001.txt SALL3.H13INVIVO.0.PSG.A_homer_format_0.0005.txt SALL3.H13INVIVO.0.PSG.A_homer_format_0.0001.txt

PCM

	A	C	G	T
01	513.0	44.0	207.0	235.0
02	578.0	109.0	213.0	99.0
03	578.0	1.0	7.0	413.0
04	9.0	11.0	3.0	976.0
05	991.0	3.0	3.0	2.0
06	1.0	2.0	2.0	994.0
07	0.0	22.0	538.0	439.0
08	922.0	18.0	31.0	28.0
09	793.0	1.0	12.0	193.0
10	283.0	3.0	2.0	711.0
11	421.0	58.0	26.0	494.0
12	564.0	7.0	19.0	409.0
13	57.0	84.0	101.0	757.0
14	414.0	84.0	307.0	194.0
15	634.0	50.0	47.0	268.0
16	376.0	86.0	28.0	509.0
17	572.0	21.0	45.0	361.0
18	384.0	53.0	32.0	530.0
19	254.0	99.0	93.0	553.0

PFM

	A	C	G	T
01	0.514	0.044	0.207	0.235
02	0.579	0.109	0.213	0.099
03	0.579	0.001	0.007	0.413
04	0.009	0.011	0.003	0.977
05	0.992	0.003	0.003	0.002
06	0.001	0.002	0.002	0.995
07	0.0	0.022	0.539	0.439
08	0.923	0.018	0.031	0.028
09	0.794	0.001	0.012	0.193
10	0.283	0.003	0.002	0.712
11	0.421	0.058	0.026	0.494
12	0.565	0.007	0.019	0.409
13	0.057	0.084	0.101	0.758
14	0.414	0.084	0.307	0.194
15	0.635	0.05	0.047	0.268
16	0.376	0.086	0.028	0.51
17	0.573	0.021	0.045	0.361
18	0.384	0.053	0.032	0.531
19	0.254	0.099	0.093	0.554

PWM

	A	C	G	T
01	0.716	-1.705	-0.186	-0.06
02	0.835	-0.82	-0.158	-0.915
03	0.835	-4.524	-3.361	0.5
04	-3.155	-2.984	-3.974	1.358
05	1.373	-3.974	-3.974	-4.212
06	-4.524	-4.212	-4.212	1.376
07	-4.981	-2.361	0.764	0.561
08	1.301	-2.545	-2.039	-2.135
09	1.151	-4.524	-2.908	-0.256
10	0.124	-3.974	-4.212	1.042
11	0.519	-1.438	-2.205	0.679
12	0.811	-3.361	-2.496	0.491
13	-1.454	-1.076	-0.895	1.104
14	0.503	-1.076	0.205	-0.251
15	0.927	-1.581	-1.641	0.07
16	0.407	-1.053	-2.135	0.708
17	0.825	-2.404	-1.683	0.366
18	0.428	-1.525	-2.009	0.749
19	0.017	-0.915	-0.976	0.791

Standard thresholds

P-value	Threshold
0.001	1.52086
0.0005	2.89711
0.0001	5.76641