Motif | CLOCK.H12RSNP.0.M.C |
Gene (human) | CLOCK (GeneCards) |
Gene synonyms (human) | BHLHE8, KIAA0334 |
Gene (mouse) | Clock |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | C |
Motif | CLOCK.H12RSNP.0.M.C |
Gene (human) | CLOCK (GeneCards) |
Gene synonyms (human) | BHLHE8, KIAA0334 |
Gene (mouse) | Clock |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 0 |
Quality | C |
Motif length | 13 |
Consensus | nnRCACATGTbhn |
GC content | 45.24% |
Information content (bits; total / per base) | 13.025 / 1.002 |
Data sources | Methyl-HT-SELEX |
Aligned words | 2434 |
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 | 3 (17) | 0.736 | 0.774 | 0.533 | 0.574 | 0.587 | 0.666 | 1.318 | 1.738 | 4.824 | 38.699 |
Mouse | 10 (66) | 0.754 | 0.816 | 0.554 | 0.61 | 0.662 | 0.689 | 1.62 | 1.767 | 33.427 | 57.854 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 4 experiments | median | 0.853 | 0.826 | 0.808 | 0.79 | 0.781 | 0.768 |
best | 0.994 | 0.99 | 0.99 | 0.984 | 0.977 | 0.967 | |
Methyl HT-SELEX, 1 experiments | median | 0.994 | 0.99 | 0.99 | 0.984 | 0.977 | 0.967 |
best | 0.994 | 0.99 | 0.99 | 0.984 | 0.977 | 0.967 | |
Non-Methyl HT-SELEX, 3 experiments | median | 0.725 | 0.688 | 0.636 | 0.618 | 0.585 | 0.578 |
best | 0.981 | 0.965 | 0.98 | 0.962 | 0.977 | 0.958 |
rSNP benchmarking, ADASTRA | odds-ratio | -log-Fisher's P | Pearson r | Kendall tau |
---|---|---|---|---|
# | 0.865 | 0.078 | 0.017 | 0.004 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 1 | 0.855 | 0.528 | 0.477 | 0.286 |
batch 2 | 0.818 | 0.61 | 0.376 | 0.259 |
TF superclass | Basic domains {1} (TFClass) |
TF class | Basic helix-loop-helix factors (bHLH) {1.2} (TFClass) |
TF family | PAS {1.2.5} (TFClass) |
TF subfamily | PAS-ARNT {1.2.5.2} (TFClass) |
TFClass ID | TFClass: 1.2.5.2.5 |
HGNC | HGNC:2082 |
MGI | MGI:99698 |
EntrezGene (human) | GeneID:9575 (SSTAR profile) |
EntrezGene (mouse) | GeneID:12753 (SSTAR profile) |
UniProt ID (human) | CLOCK_HUMAN |
UniProt ID (mouse) | CLOCK_MOUSE |
UniProt AC (human) | O15516 (TFClass) |
UniProt AC (mouse) | O08785 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 3 human, 10 mouse |
HT-SELEX | 3 |
Methyl-HT-SELEX | 1 |
PCM | CLOCK.H12RSNP.0.M.C.pcm |
PWM | CLOCK.H12RSNP.0.M.C.pwm |
PFM | CLOCK.H12RSNP.0.M.C.pfm |
Alignment | CLOCK.H12RSNP.0.M.C.words.tsv |
Threshold to P-value map | CLOCK.H12RSNP.0.M.C.thr |
Motif in other formats | |
JASPAR format | CLOCK.H12RSNP.0.M.C_jaspar_format.txt |
MEME format | CLOCK.H12RSNP.0.M.C_meme_format.meme |
Transfac format | CLOCK.H12RSNP.0.M.C_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 835.5 | 391.5 | 549.5 | 657.5 |
02 | 847.75 | 435.75 | 630.75 | 519.75 |
03 | 1637.0 | 309.0 | 454.0 | 34.0 |
04 | 45.0 | 2379.0 | 4.0 | 6.0 |
05 | 1570.0 | 2.0 | 862.0 | 0.0 |
06 | 0.0 | 2421.0 | 0.0 | 13.0 |
07 | 2305.0 | 0.0 | 129.0 | 0.0 |
08 | 0.0 | 0.0 | 0.0 | 2434.0 |
09 | 1.0 | 0.0 | 2433.0 | 0.0 |
10 | 5.0 | 297.0 | 73.0 | 2059.0 |
11 | 217.0 | 462.0 | 384.0 | 1371.0 |
12 | 563.25 | 629.25 | 310.25 | 931.25 |
13 | 621.5 | 609.5 | 550.5 | 652.5 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.343 | 0.161 | 0.226 | 0.27 |
02 | 0.348 | 0.179 | 0.259 | 0.214 |
03 | 0.673 | 0.127 | 0.187 | 0.014 |
04 | 0.018 | 0.977 | 0.002 | 0.002 |
05 | 0.645 | 0.001 | 0.354 | 0.0 |
06 | 0.0 | 0.995 | 0.0 | 0.005 |
07 | 0.947 | 0.0 | 0.053 | 0.0 |
08 | 0.0 | 0.0 | 0.0 | 1.0 |
09 | 0.0 | 0.0 | 1.0 | 0.0 |
10 | 0.002 | 0.122 | 0.03 | 0.846 |
11 | 0.089 | 0.19 | 0.158 | 0.563 |
12 | 0.231 | 0.259 | 0.127 | 0.383 |
13 | 0.255 | 0.25 | 0.226 | 0.268 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.316 | -0.439 | -0.102 | 0.077 |
02 | 0.331 | -0.333 | 0.036 | -0.157 |
03 | 0.988 | -0.675 | -0.292 | -2.832 |
04 | -2.565 | 1.361 | -4.631 | -4.341 |
05 | 0.946 | -5.041 | 0.347 | -5.747 |
06 | -5.747 | 1.379 | -5.747 | -3.71 |
07 | 1.329 | -5.747 | -1.539 | -5.747 |
08 | -5.747 | -5.747 | -5.747 | 1.384 |
09 | -5.333 | -5.747 | 1.383 | -5.747 |
10 | -4.476 | -0.714 | -2.097 | 1.217 |
11 | -1.025 | -0.274 | -0.458 | 0.811 |
12 | -0.077 | 0.033 | -0.671 | 0.424 |
13 | 0.021 | 0.002 | -0.1 | 0.07 |
P-value | Threshold |
---|---|
0.001 | 2.77816 |
0.0005 | 4.23016 |
0.0001 | 7.358275 |