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GSE58827: Dynamics of the Mouse Liver
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Results for Ybx1_Nfya_Nfyb_Nfyc_Cebpz
Z-value: 4.22
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Transcription factors associated with Ybx1_Nfya_Nfyb_Nfyc_Cebpz
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
| ENSMUSG00000028639.8 | Y box protein 1 | |
| ENSMUSG00000023994.7 | nuclear transcription factor-Y alpha | |
| ENSMUSG00000020248.12 | nuclear transcription factor-Y beta | |
| ENSMUSG00000032897.11 | nuclear transcription factor-Y gamma | |
| ENSMUSG00000024081.8 | CCAAT/enhancer binding protein zeta |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| Nfyc | mm10_v2_chr4_-_120815703_120815761 | 0.50 | 2.1e-03 | Click! |
| Ybx1 | mm10_v2_chr4_-_119294520_119294604 | 0.46 | 4.9e-03 | Click! |
| Nfya | mm10_v2_chr17_-_48409729_48409906 | 0.42 | 1.0e-02 | Click! |
| Nfyb | mm10_v2_chr10_-_82764088_82764144 | 0.20 | 2.5e-01 | Click! |
| Cebpz | mm10_v2_chr17_-_78937031_78937074 | 0.12 | 4.9e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr11_-_87108656 Show fit | 27.39 |
ENSMUST00000051395.8
|
proline rich 11 |
|
| chr8_+_83955507 Show fit | 26.45 |
ENSMUST00000005607.8
|
ASF1 anti-silencing function 1 homolog B (S. cerevisiae) |
|
| chr11_-_99024179 Show fit | 24.96 |
ENSMUST00000068031.7
|
topoisomerase (DNA) II alpha |
|
| chr16_-_17125106 Show fit | 23.56 |
ENSMUST00000093336.6
|
RIKEN cDNA 2610318N02 gene |
|
| chr6_+_124829582 Show fit | 23.34 |
ENSMUST00000024270.7
|
cell division cycle associated 3 |
|
| chr14_+_46760526 Show fit | 21.31 |
ENSMUST00000067426.4
|
cyclin-dependent kinase inhibitor 3 |
|
| chr6_-_86669136 Show fit | 20.39 |
ENSMUST00000001184.7
|
MAX dimerization protein 1 |
|
| chr17_+_25016343 Show fit | 19.73 |
ENSMUST00000024983.5
|
intraflagellar transport 140 |
|
| chr8_+_57511833 Show fit | 17.50 |
ENSMUST00000067925.6
|
high mobility group box 2 |
|
| chr7_-_120982260 Show fit | 17.00 |
ENSMUST00000033169.8
|
cerebellar degeneration-related 2 |
Network of associatons between targets according to the STRING database.
First level regulatory network of Ybx1_Nfya_Nfyb_Nfyc_Cebpz
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.1 | 95.7 | GO:0006334 | nucleosome assembly(GO:0006334) |
| 2.5 | 79.4 | GO:0006335 | DNA replication-dependent nucleosome assembly(GO:0006335) DNA replication-dependent nucleosome organization(GO:0034723) |
| 1.9 | 70.1 | GO:0060236 | regulation of mitotic spindle organization(GO:0060236) |
| 3.5 | 62.8 | GO:0051988 | regulation of attachment of spindle microtubules to kinetochore(GO:0051988) |
| 0.6 | 49.6 | GO:0006342 | chromatin silencing(GO:0006342) |
| 1.4 | 41.8 | GO:0051310 | metaphase plate congression(GO:0051310) |
| 2.4 | 33.0 | GO:0035845 | photoreceptor cell outer segment organization(GO:0035845) |
| 0.3 | 31.3 | GO:0007050 | cell cycle arrest(GO:0007050) |
| 4.3 | 30.4 | GO:0090306 | spindle assembly involved in meiosis(GO:0090306) |
| 6.2 | 25.0 | GO:0045091 | regulation of single stranded viral RNA replication via double stranded DNA intermediate(GO:0045091) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.7 | 132.0 | GO:0000786 | nucleosome(GO:0000786) |
| 0.3 | 92.2 | GO:0000790 | nuclear chromatin(GO:0000790) |
| 0.6 | 65.8 | GO:0000776 | kinetochore(GO:0000776) |
| 0.6 | 62.7 | GO:0005814 | centriole(GO:0005814) |
| 0.8 | 51.0 | GO:0005657 | replication fork(GO:0005657) |
| 10.0 | 49.8 | GO:0097149 | centralspindlin complex(GO:0097149) |
| 1.7 | 41.8 | GO:0005680 | anaphase-promoting complex(GO:0005680) |
| 0.8 | 39.3 | GO:0005871 | kinesin complex(GO:0005871) |
| 0.1 | 38.2 | GO:0016607 | nuclear speck(GO:0016607) |
| 0.3 | 37.7 | GO:0005913 | cell-cell adherens junction(GO:0005913) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.9 | 93.1 | GO:0003777 | microtubule motor activity(GO:0003777) |
| 1.8 | 90.4 | GO:0031492 | nucleosomal DNA binding(GO:0031492) |
| 0.4 | 79.2 | GO:0042393 | histone binding(GO:0042393) |
| 0.3 | 41.0 | GO:0017048 | Rho GTPase binding(GO:0017048) |
| 0.2 | 38.0 | GO:0008017 | microtubule binding(GO:0008017) |
| 0.1 | 33.3 | GO:0003682 | chromatin binding(GO:0003682) |
| 0.1 | 31.0 | GO:0001078 | transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding(GO:0001078) |
| 0.7 | 30.9 | GO:0061650 | ubiquitin-like protein conjugating enzyme activity(GO:0061650) |
| 6.6 | 26.3 | GO:0031720 | haptoglobin binding(GO:0031720) |
| 5.2 | 26.2 | GO:0003918 | DNA topoisomerase type II (ATP-hydrolyzing) activity(GO:0003918) DNA topoisomerase II activity(GO:0061505) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 2.8 | 177.3 | PID PLK1 PATHWAY | PLK1 signaling events |
| 2.0 | 75.5 | PID FOXM1 PATHWAY | FOXM1 transcription factor network |
| 1.3 | 49.3 | PID AURORA B PATHWAY | Aurora B signaling |
| 1.0 | 47.2 | PID FANCONI PATHWAY | Fanconi anemia pathway |
| 0.6 | 43.5 | PID TELOMERASE PATHWAY | Regulation of Telomerase |
| 1.2 | 36.6 | PID AURORA A PATHWAY | Aurora A signaling |
| 2.2 | 34.5 | SA REG CASCADE OF CYCLIN EXPR | Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases. |
| 1.2 | 23.8 | PID ATR PATHWAY | ATR signaling pathway |
| 0.5 | 22.4 | PID DELTA NP63 PATHWAY | Validated transcriptional targets of deltaNp63 isoforms |
| 0.3 | 22.0 | PID E2F PATHWAY | E2F transcription factor network |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 2.3 | 117.9 | REACTOME RNA POL I PROMOTER OPENING | Genes involved in RNA Polymerase I Promoter Opening |
| 1.0 | 83.4 | REACTOME MITOTIC PROMETAPHASE | Genes involved in Mitotic Prometaphase |
| 3.9 | 67.0 | REACTOME CYCLIN A B1 ASSOCIATED EVENTS DURING G2 M TRANSITION | Genes involved in Cyclin A/B1 associated events during G2/M transition |
| 2.1 | 55.7 | REACTOME KINESINS | Genes involved in Kinesins |
| 1.8 | 44.8 | REACTOME CHOLESTEROL BIOSYNTHESIS | Genes involved in Cholesterol biosynthesis |
| 0.5 | 43.3 | REACTOME NRAGE SIGNALS DEATH THROUGH JNK | Genes involved in NRAGE signals death through JNK |
| 1.7 | 42.5 | REACTOME DEPOSITION OF NEW CENPA CONTAINING NUCLEOSOMES AT THE CENTROMERE | Genes involved in Deposition of New CENPA-containing Nucleosomes at the Centromere |
| 2.6 | 38.9 | REACTOME UNWINDING OF DNA | Genes involved in Unwinding of DNA |
| 1.8 | 34.6 | REACTOME CONVERSION FROM APC C CDC20 TO APC C CDH1 IN LATE ANAPHASE | Genes involved in Conversion from APC/C:Cdc20 to APC/C:Cdh1 in late anaphase |
| 2.6 | 31.7 | REACTOME CDC6 ASSOCIATION WITH THE ORC ORIGIN COMPLEX | Genes involved in CDC6 association with the ORC:origin complex |