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GSE53960: rat RNA-Seq transcriptomic Bodymap
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Results for Tgif2_Tgif2lx1_Tgif2lx2
Z-value: 0.94
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Transcription factors associated with Tgif2_Tgif2lx1_Tgif2lx2
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| Tgif2lx2 | rn6_v1_chrX_+_90588124_90588124 | 0.17 | 2.7e-03 | Click! |
| Tgif2 | rn6_v1_chr3_+_152909189_152909189 | -0.12 | 2.7e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr3_-_72219246 Show fit | 69.98 |
ENSRNOT00000009903
|
smoothelin-like 1 |
|
| chr4_+_144382945 Show fit | 35.62 |
ENSRNOT00000007601
|
caveolin 3 |
|
| chr1_+_80321585 Show fit | 35.34 |
ENSRNOT00000022895
|
creatine kinase, M-type |
|
| chr7_-_29152442 Show fit | 33.21 |
ENSRNOT00000079774
|
myosin binding protein C, slow type |
|
| chr5_+_154522119 Show fit | 31.71 |
ENSRNOT00000072618
|
E2F transcription factor 2 |
|
| chr9_-_43116521 Show fit | 25.51 |
ENSRNOT00000039437
|
ankyrin repeat domain 23 |
|
| chr13_+_52889737 Show fit | 23.00 |
ENSRNOT00000074366
|
calcium voltage-gated channel subunit alpha1 S |
|
| chr3_-_121822436 Show fit | 21.67 |
ENSRNOT00000039794
|
cytoskeleton associated protein 2-like |
|
| chr10_+_59529785 Show fit | 20.29 |
ENSRNOT00000064840
ENSRNOT00000065181 |
ATPase sarcoplasmic/endoplasmic reticulum Ca2+ transporting 3 |
|
| chr16_+_75572070 Show fit | 15.96 |
ENSRNOT00000043486
|
defensin beta 52 |
Network of associatons between targets according to the STRING database.
First level regulatory network of Tgif2_Tgif2lx1_Tgif2lx2
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.3 | 70.9 | GO:0045907 | positive regulation of vasoconstriction(GO:0045907) |
| 0.6 | 38.2 | GO:0042398 | cellular modified amino acid biosynthetic process(GO:0042398) |
| 8.9 | 35.6 | GO:2001288 | detection of muscle stretch(GO:0035995) positive regulation of caveolin-mediated endocytosis(GO:2001288) |
| 3.7 | 33.2 | GO:0071688 | striated muscle myosin thick filament assembly(GO:0071688) |
| 5.3 | 31.7 | GO:1990086 | lens fiber cell apoptotic process(GO:1990086) |
| 2.8 | 25.5 | GO:0060297 | regulation of sarcomere organization(GO:0060297) |
| 3.8 | 23.0 | GO:0002074 | extraocular skeletal muscle development(GO:0002074) |
| 0.7 | 15.9 | GO:0006730 | one-carbon metabolic process(GO:0006730) |
| 0.1 | 13.2 | GO:0030177 | positive regulation of Wnt signaling pathway(GO:0030177) |
| 0.7 | 12.4 | GO:0050930 | induction of positive chemotaxis(GO:0050930) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 3.2 | 103.2 | GO:0031430 | M band(GO:0031430) |
| 0.7 | 43.3 | GO:0016529 | sarcoplasmic reticulum(GO:0016529) |
| 1.9 | 35.6 | GO:0016010 | dystrophin-associated glycoprotein complex(GO:0016010) glycoprotein complex(GO:0090665) |
| 0.1 | 32.2 | GO:0005667 | transcription factor complex(GO:0005667) |
| 0.4 | 25.5 | GO:0014704 | intercalated disc(GO:0014704) |
| 0.3 | 21.7 | GO:0072686 | mitotic spindle(GO:0072686) |
| 0.1 | 16.4 | GO:0016607 | nuclear speck(GO:0016607) |
| 0.1 | 15.4 | GO:0005814 | centriole(GO:0005814) |
| 0.2 | 11.9 | GO:0015030 | Cajal body(GO:0015030) |
| 0.5 | 9.5 | GO:0031588 | nucleotide-activated protein kinase complex(GO:0031588) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 3.9 | 70.0 | GO:0005523 | tropomyosin binding(GO:0005523) |
| 4.5 | 35.6 | GO:0071253 | connexin binding(GO:0071253) |
| 5.0 | 35.3 | GO:0004111 | creatine kinase activity(GO:0004111) |
| 2.6 | 33.2 | GO:0097493 | structural molecule activity conferring elasticity(GO:0097493) |
| 0.1 | 32.0 | GO:0001047 | core promoter binding(GO:0001047) |
| 1.8 | 25.5 | GO:0031432 | titin binding(GO:0031432) |
| 0.9 | 20.3 | GO:0005388 | calcium-transporting ATPase activity(GO:0005388) |
| 2.0 | 15.9 | GO:0016151 | nickel cation binding(GO:0016151) |
| 0.1 | 13.9 | GO:0051082 | unfolded protein binding(GO:0051082) |
| 0.9 | 12.4 | GO:0042609 | CD4 receptor binding(GO:0042609) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 36.0 | PID RB 1PATHWAY | Regulation of retinoblastoma protein |
| 1.5 | 35.6 | PID PDGFRA PATHWAY | PDGFR-alpha signaling pathway |
| 1.9 | 31.7 | SA REG CASCADE OF CYCLIN EXPR | Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases. |
| 0.1 | 21.6 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 0.2 | 9.4 | PID SYNDECAN 2 PATHWAY | Syndecan-2-mediated signaling events |
| 0.2 | 7.4 | PID BARD1 PATHWAY | BARD1 signaling events |
| 0.1 | 6.3 | PID BMP PATHWAY | BMP receptor signaling |
| 0.2 | 5.5 | PID INTEGRIN A9B1 PATHWAY | Alpha9 beta1 integrin signaling events |
| 0.1 | 4.8 | NABA PROTEOGLYCANS | Genes encoding proteoglycans |
| 0.1 | 4.5 | PID RAC1 PATHWAY | RAC1 signaling pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.9 | 33.2 | REACTOME STRIATED MUSCLE CONTRACTION | Genes involved in Striated Muscle Contraction |
| 1.9 | 31.7 | REACTOME CDC6 ASSOCIATION WITH THE ORC ORIGIN COMPLEX | Genes involved in CDC6 association with the ORC:origin complex |
| 0.1 | 26.6 | REACTOME METABOLISM OF AMINO ACIDS AND DERIVATIVES | Genes involved in Metabolism of amino acids and derivatives |
| 0.1 | 22.7 | REACTOME SIGNALING BY RHO GTPASES | Genes involved in Signaling by Rho GTPases |
| 0.5 | 22.1 | REACTOME NCAM1 INTERACTIONS | Genes involved in NCAM1 interactions |
| 0.9 | 16.4 | REACTOME PRE NOTCH PROCESSING IN GOLGI | Genes involved in Pre-NOTCH Processing in Golgi |
| 0.2 | 13.4 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |
| 0.2 | 11.3 | REACTOME INTERFERON ALPHA BETA SIGNALING | Genes involved in Interferon alpha/beta signaling |
| 0.2 | 9.1 | REACTOME CHEMOKINE RECEPTORS BIND CHEMOKINES | Genes involved in Chemokine receptors bind chemokines |
| 0.1 | 9.1 | REACTOME ASPARAGINE N LINKED GLYCOSYLATION | Genes involved in Asparagine N-linked glycosylation |