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PRJEB1986: zebrafish developmental stages transcriptome
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Results for ptf1a+si:dkey-34f9.3
Z-value: 0.83
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Transcription factors associated with ptf1a+si:dkey-34f9.3
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| si:dkey-34f9.3 | dr11_v1_chr9_+_45789887_45789887 | -0.37 | 1.2e-01 | Click! |
| ptf1a | dr11_v1_chr2_+_29710857_29710857 | 0.03 | 8.9e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr21_-_25601648 Show fit | 1.94 |
ENSDART00000042578
|
EGF containing fibulin extracellular matrix protein 2b |
|
| chr3_+_41917499 Show fit | 1.76 |
ENSDART00000028673
|
LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase |
|
| chr22_+_22438783 Show fit | 1.71 |
ENSDART00000147825
|
kinesin family member 14 |
|
| chr7_+_41812636 Show fit | 1.59 |
ENSDART00000174333
|
origin recognition complex, subunit 6 |
|
| chr2_-_59345920 Show fit | 1.56 |
ENSDART00000134662
|
finTRIM family, member 37 |
|
| chr16_-_46572834 Show fit | 1.48 |
ENSDART00000115248
|
zgc:174938 |
|
| chr3_+_301479 Show fit | 1.40 |
ENSDART00000165169
|
|
|
| chr2_-_14793343 Show fit | 1.31 |
ENSDART00000132264
|
si:ch73-366i20.1 |
|
| chr18_+_17537975 Show fit | 1.22 |
ENSDART00000179783
|
nucleoporin 93 |
|
| chr24_-_6029314 Show fit | 1.22 |
ENSDART00000136155
|
finTRIM family, member 60 |
Network of associatons between targets according to the STRING database.
First level regulatory network of ptf1a+si:dkey-34f9.3
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 3.9 | GO:0006270 | DNA replication initiation(GO:0006270) |
| 0.5 | 2.4 | GO:0051292 | nuclear pore complex assembly(GO:0051292) |
| 0.1 | 1.9 | GO:0048251 | elastic fiber assembly(GO:0048251) |
| 0.3 | 1.8 | GO:0055016 | hypochord development(GO:0055016) |
| 0.2 | 1.4 | GO:0048280 | vesicle fusion with Golgi apparatus(GO:0048280) |
| 0.2 | 1.2 | GO:0044209 | AMP salvage(GO:0044209) |
| 0.2 | 1.1 | GO:0043091 | L-arginine import(GO:0043091) amino acid import across plasma membrane(GO:0089718) arginine import(GO:0090467) L-arginine import across plasma membrane(GO:0097638) L-arginine transport(GO:1902023) L-arginine import into cell(GO:1902765) amino acid import into cell(GO:1902837) L-arginine transmembrane transport(GO:1903400) arginine transmembrane transport(GO:1903826) |
| 0.3 | 1.0 | GO:1903723 | negative regulation of centriole elongation(GO:1903723) |
| 0.3 | 0.9 | GO:0006600 | creatine metabolic process(GO:0006600) creatine biosynthetic process(GO:0006601) |
| 0.0 | 0.9 | GO:0034626 | fatty acid elongation, saturated fatty acid(GO:0019367) fatty acid elongation, unsaturated fatty acid(GO:0019368) fatty acid elongation, monounsaturated fatty acid(GO:0034625) fatty acid elongation, polyunsaturated fatty acid(GO:0034626) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 5.2 | GO:0000785 | chromatin(GO:0000785) |
| 0.3 | 3.9 | GO:0000808 | origin recognition complex(GO:0000808) nuclear origin of replication recognition complex(GO:0005664) |
| 0.1 | 2.4 | GO:0034399 | nuclear periphery(GO:0034399) |
| 0.0 | 1.8 | GO:0031228 | integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228) |
| 0.0 | 1.7 | GO:0005871 | kinesin complex(GO:0005871) |
| 0.0 | 1.4 | GO:0012507 | ER to Golgi transport vesicle membrane(GO:0012507) |
| 0.1 | 1.2 | GO:0005849 | mRNA cleavage factor complex(GO:0005849) |
| 0.1 | 1.1 | GO:0031209 | SCAR complex(GO:0031209) |
| 0.0 | 1.0 | GO:0005814 | centriole(GO:0005814) |
| 0.0 | 0.9 | GO:0030867 | rough endoplasmic reticulum membrane(GO:0030867) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 2.4 | GO:0017056 | structural constituent of nuclear pore(GO:0017056) |
| 0.0 | 2.2 | GO:0008081 | phosphoric diester hydrolase activity(GO:0008081) |
| 0.4 | 1.8 | GO:0033829 | O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity(GO:0033829) |
| 0.0 | 1.7 | GO:0003777 | microtubule motor activity(GO:0003777) |
| 0.0 | 1.3 | GO:0031625 | ubiquitin protein ligase binding(GO:0031625) |
| 0.2 | 1.2 | GO:0004001 | adenosine kinase activity(GO:0004001) |
| 0.2 | 1.1 | GO:0015189 | L-lysine transmembrane transporter activity(GO:0015189) |
| 0.0 | 1.0 | GO:0005484 | SNAP receptor activity(GO:0005484) |
| 0.0 | 0.9 | GO:0102337 | fatty acid elongase activity(GO:0009922) 3-oxo-arachidoyl-CoA synthase activity(GO:0102336) 3-oxo-cerotoyl-CoA synthase activity(GO:0102337) 3-oxo-lignoceronyl-CoA synthase activity(GO:0102338) |
| 0.0 | 0.9 | GO:0003887 | DNA-directed DNA polymerase activity(GO:0003887) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.4 | PID ARF 3PATHWAY | Arf1 pathway |
| 0.0 | 1.2 | PID BARD1 PATHWAY | BARD1 signaling events |
| 0.0 | 1.1 | PID RAC1 PATHWAY | RAC1 signaling pathway |
| 0.0 | 0.9 | PID DNA PK PATHWAY | DNA-PK pathway in nonhomologous end joining |
| 0.0 | 0.8 | PID SYNDECAN 3 PATHWAY | Syndecan-3-mediated signaling events |
| 0.0 | 0.6 | PID NETRIN PATHWAY | Netrin-mediated signaling events |
| 0.0 | 0.6 | PID FANCONI PATHWAY | Fanconi anemia pathway |
| 0.0 | 0.6 | PID HEDGEHOG GLI PATHWAY | Hedgehog signaling events mediated by Gli proteins |
| 0.0 | 0.6 | PID PLK1 PATHWAY | PLK1 signaling events |
| 0.0 | 0.3 | PID UPA UPAR PATHWAY | Urokinase-type plasminogen activator (uPA) and uPAR-mediated signaling |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 3.9 | REACTOME E2F ENABLED INHIBITION OF PRE REPLICATION COMPLEX FORMATION | Genes involved in E2F-enabled inhibition of pre-replication complex formation |
| 0.1 | 2.4 | REACTOME NEP NS2 INTERACTS WITH THE CELLULAR EXPORT MACHINERY | Genes involved in NEP/NS2 Interacts with the Cellular Export Machinery |
| 0.0 | 1.9 | REACTOME ACTIVATION OF CHAPERONE GENES BY XBP1S | Genes involved in Activation of Chaperone Genes by XBP1(S) |
| 0.1 | 1.8 | REACTOME PRE NOTCH PROCESSING IN GOLGI | Genes involved in Pre-NOTCH Processing in Golgi |
| 0.1 | 1.2 | REACTOME PROCESSING OF INTRONLESS PRE MRNAS | Genes involved in Processing of Intronless Pre-mRNAs |
| 0.0 | 1.1 | REACTOME AMINO ACID TRANSPORT ACROSS THE PLASMA MEMBRANE | Genes involved in Amino acid transport across the plasma membrane |
| 0.0 | 0.7 | REACTOME INTERFERON GAMMA SIGNALING | Genes involved in Interferon gamma signaling |
| 0.0 | 0.6 | REACTOME FANCONI ANEMIA PATHWAY | Genes involved in Fanconi Anemia pathway |
| 0.0 | 0.6 | REACTOME NETRIN1 SIGNALING | Genes involved in Netrin-1 signaling |
| 0.0 | 0.5 | REACTOME METABOLISM OF NON CODING RNA | Genes involved in Metabolism of non-coding RNA |