Motif | LHX9.H12CORE.1.M.B |
Gene (human) | LHX9 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Lhx9 |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif | LHX9.H12CORE.1.M.B |
Gene (human) | LHX9 (GeneCards) |
Gene synonyms (human) | |
Gene (mouse) | Lhx9 |
Gene synonyms (mouse) | |
LOGO | |
LOGO (reverse complement) | |
Motif subtype | 1 |
Quality | B |
Motif length | 12 |
Consensus | nvYTAAYGAKbn |
GC content | 36.81% |
Information content (bits; total / per base) | 11.441 / 0.953 |
Data sources | Methyl-HT-SELEX |
Aligned words | 911 |
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 | 1 (5) | 0.782 | 0.811 | 0.653 | 0.694 | 0.708 | 0.715 | 1.911 | 1.959 | 67.347 | 109.174 |
HT-SELEX benchmarking | auROC10 | auPRC10 | auROC25 | auPRC25 | auROC50 | auPRC50 | |
---|---|---|---|---|---|---|---|
Overall, 8 experiments | median | 0.931 | 0.896 | 0.857 | 0.828 | 0.751 | 0.743 |
best | 0.975 | 0.958 | 0.963 | 0.941 | 0.93 | 0.904 | |
Methyl HT-SELEX, 3 experiments | median | 0.97 | 0.95 | 0.949 | 0.923 | 0.877 | 0.856 |
best | 0.975 | 0.958 | 0.963 | 0.941 | 0.93 | 0.904 | |
Non-Methyl HT-SELEX, 5 experiments | median | 0.909 | 0.872 | 0.788 | 0.766 | 0.651 | 0.666 |
best | 0.964 | 0.937 | 0.941 | 0.91 | 0.88 | 0.851 |
rSNP benchmarking, SNP-SELEX | auROC | auPRC | Pearson r | Kendall tau |
---|---|---|---|---|
batch 1 | 0.784 | 0.264 | 0.768 | 0.439 |
batch 2 | 0.619 | 0.441 | 0.487 | 0.33 |
TF superclass | Helix-turn-helix domains {3} (TFClass) |
TF class | Homeo domain factors {3.1} (TFClass) |
TF family | HD-LIM {3.1.5} (TFClass) |
TF subfamily | LHX2-like {3.1.5.3} (TFClass) |
TFClass ID | TFClass: 3.1.5.3.2 |
HGNC | HGNC:14222 |
MGI | MGI:1316721 |
EntrezGene (human) | GeneID:56956 (SSTAR profile) |
EntrezGene (mouse) | GeneID:16876 (SSTAR profile) |
UniProt ID (human) | LHX9_HUMAN |
UniProt ID (mouse) | LHX9_MOUSE |
UniProt AC (human) | Q9NQ69 (TFClass) |
UniProt AC (mouse) | Q9WUH2 (TFClass) |
GRECO-DB-TF | yes |
ChIP-Seq | 1 human, 0 mouse |
HT-SELEX | 5 |
Methyl-HT-SELEX | 3 |
PCM | LHX9.H12CORE.1.M.B.pcm |
PWM | LHX9.H12CORE.1.M.B.pwm |
PFM | LHX9.H12CORE.1.M.B.pfm |
Alignment | LHX9.H12CORE.1.M.B.words.tsv |
Threshold to P-value map | LHX9.H12CORE.1.M.B.thr |
Motif in other formats | |
JASPAR format | LHX9.H12CORE.1.M.B_jaspar_format.txt |
MEME format | LHX9.H12CORE.1.M.B_meme_format.meme |
Transfac format | LHX9.H12CORE.1.M.B_transfac_format.txt |
Homer format |
A | C | G | T | |
---|---|---|---|---|
01 | 316.0 | 247.0 | 166.0 | 182.0 |
02 | 358.0 | 94.0 | 400.0 | 59.0 |
03 | 42.0 | 251.0 | 56.0 | 562.0 |
04 | 0.0 | 1.0 | 5.0 | 905.0 |
05 | 909.0 | 0.0 | 2.0 | 0.0 |
06 | 904.0 | 1.0 | 6.0 | 0.0 |
07 | 0.0 | 497.0 | 6.0 | 408.0 |
08 | 0.0 | 0.0 | 542.0 | 369.0 |
09 | 887.0 | 3.0 | 21.0 | 0.0 |
10 | 63.0 | 78.0 | 621.0 | 149.0 |
11 | 105.5 | 372.5 | 259.5 | 173.5 |
12 | 220.25 | 171.25 | 224.25 | 295.25 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.347 | 0.271 | 0.182 | 0.2 |
02 | 0.393 | 0.103 | 0.439 | 0.065 |
03 | 0.046 | 0.276 | 0.061 | 0.617 |
04 | 0.0 | 0.001 | 0.005 | 0.993 |
05 | 0.998 | 0.0 | 0.002 | 0.0 |
06 | 0.992 | 0.001 | 0.007 | 0.0 |
07 | 0.0 | 0.546 | 0.007 | 0.448 |
08 | 0.0 | 0.0 | 0.595 | 0.405 |
09 | 0.974 | 0.003 | 0.023 | 0.0 |
10 | 0.069 | 0.086 | 0.682 | 0.164 |
11 | 0.116 | 0.409 | 0.285 | 0.19 |
12 | 0.242 | 0.188 | 0.246 | 0.324 |
A | C | G | T | |
---|---|---|---|---|
01 | 0.325 | 0.081 | -0.314 | -0.222 |
02 | 0.45 | -0.874 | 0.56 | -1.33 |
03 | -1.658 | 0.097 | -1.38 | 0.899 |
04 | -4.903 | -4.441 | -3.533 | 1.374 |
05 | 1.379 | -4.903 | -4.126 | -4.903 |
06 | 1.373 | -4.441 | -3.394 | -4.903 |
07 | -4.903 | 0.776 | -3.394 | 0.58 |
08 | -4.903 | -4.903 | 0.863 | 0.48 |
09 | 1.354 | -3.887 | -2.313 | -4.903 |
10 | -1.266 | -1.057 | 0.998 | -0.42 |
11 | -0.761 | 0.489 | 0.13 | -0.27 |
12 | -0.033 | -0.283 | -0.015 | 0.258 |
P-value | Threshold |
---|---|
0.001 | 3.997465 |
0.0005 | 5.41878 |
0.0001 | 7.646965 |