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PRJDB7713: Age associated transcriptome analysis in 5 tissues of zebrafish
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Results for her1+her11+her5_her12+her15.1+her15.2+her2+her4.1+her4.2+her4.3+her4.4
Z-value: 0.52
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Transcription factors associated with her1+her11+her5_her12+her15.1+her15.2+her2+her4.1+her4.2+her4.3+her4.4
| Gene Symbol | Gene ID | Gene Info |
|---|---|---|
|
her11
|
ENSDARG00000002707 | hairy-related 11 |
|
her5
|
ENSDARG00000008796 | hairy-related 5 |
|
her1
|
ENSDARG00000014722 | hairy-related 1 |
|
her4.4
|
ENSDARG00000009822 | hairy-related 4, tandem duplicate 4 |
|
her12
|
ENSDARG00000032963 | hairy-related 12 |
|
her2
|
ENSDARG00000038205 | hairy-related 2 |
|
her15.2
|
ENSDARG00000054560 | hairy and enhancer of split-related 15, tandem duplicate 2 |
|
her15.1
|
ENSDARG00000054562 | hairy and enhancer of split-related 15, tandem duplicate 1 |
|
her4.2
|
ENSDARG00000056729 | hairy-related 4, tandem duplicate 2 |
|
her4.1
|
ENSDARG00000056732 | hairy-related 4, tandem duplicate 1 |
|
her4.3
|
ENSDARG00000070770 | hairy-related 4, tandem duplicate 3 |
|
her4.2
|
ENSDARG00000094426 | hairy-related 4, tandem duplicate 2 |
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| her4.1 | dr11_v1_chr23_-_21453614_21453614 | 0.80 | 1.8e-22 | Click! |
| her4.4 | dr11_v1_chr23_-_21463788_21463788 | 0.80 | 4.9e-22 | Click! |
| her4.3 | dr11_v1_chr23_+_21459263_21459263 | 0.79 | 4.2e-21 | Click! |
| her4.2 | dr11_v1_chr23_-_21471022_21471022 | 0.75 | 4.9e-18 | Click! |
| her12 | dr11_v1_chr23_-_21446985_21446985 | 0.67 | 9.4e-14 | Click! |
| her15.2 | dr11_v1_chr11_-_41996957_41996957 | 0.66 | 6.1e-13 | Click! |
| her15.1 | dr11_v1_chr11_+_41981959_41981959 | 0.55 | 8.6e-09 | Click! |
| her2 | dr11_v1_chr11_-_41966854_41966854 | 0.20 | 5.4e-02 | Click! |
| her5 | dr11_v1_chr14_+_30543008_30543008 | 0.19 | 6.1e-02 | Click! |
| her11 | dr11_v1_chr14_-_30540967_30540967 | 0.11 | 2.9e-01 | Click! |
| her1 | dr11_v1_chr5_-_68795063_68795063 | -0.09 | 3.9e-01 | Click! |
Activity profile of her1+her11+her5_her12+her15.1+her15.2+her2+her4.1+her4.2+her4.3+her4.4 motif
Sorted Z-values of her1+her11+her5_her12+her15.1+her15.2+her2+her4.1+her4.2+her4.3+her4.4 motif
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr6_-_60147517 | 18.17 |
ENSDART00000083453
|
slc32a1
|
solute carrier family 32 (GABA vesicular transporter), member 1 |
| chr7_-_40993456 | 13.87 |
ENSDART00000031700
|
en2a
|
engrailed homeobox 2a |
| chr9_-_44295071 | 12.70 |
ENSDART00000011837
|
neurod1
|
neuronal differentiation 1 |
| chr2_+_29976419 | 12.08 |
ENSDART00000056748
|
en2b
|
engrailed homeobox 2b |
| chr23_-_21463788 | 6.51 |
ENSDART00000079265
|
her4.4
|
hairy-related 4, tandem duplicate 4 |
| chr8_+_21146262 | 4.79 |
ENSDART00000045684
|
porcn
|
porcupine O-acyltransferase |
| chr16_-_45069882 | 4.09 |
ENSDART00000058384
|
gapdhs
|
glyceraldehyde-3-phosphate dehydrogenase, spermatogenic |
| chr23_+_21459263 | 4.07 |
ENSDART00000104209
|
her4.3
|
hairy-related 4, tandem duplicate 3 |
| chr18_+_6126506 | 3.98 |
ENSDART00000125725
|
si:ch1073-390k14.1
|
si:ch1073-390k14.1 |
| chr19_+_42469058 | 2.83 |
ENSDART00000076915
|
si:dkey-166k12.1
|
si:dkey-166k12.1 |
| chr15_-_20731297 | 2.58 |
ENSDART00000114464
|
tpst1
|
tyrosylprotein sulfotransferase 1 |
| chr10_-_27566481 | 2.28 |
ENSDART00000078920
|
auts2a
|
autism susceptibility candidate 2a |
| chr20_+_19212962 | 2.08 |
ENSDART00000063706
|
fndc4a
|
fibronectin type III domain containing 4a |
| chr12_+_33038757 | 2.04 |
ENSDART00000153146
|
rbfox3a
|
RNA binding fox-1 homolog 3a |
| chr4_-_1818315 | 1.96 |
ENSDART00000067433
|
ube2nb
|
ubiquitin-conjugating enzyme E2Nb |
| chr11_-_3959889 | 1.81 |
ENSDART00000159683
|
pbrm1
|
polybromo 1 |
| chr3_+_32425202 | 1.80 |
ENSDART00000156464
|
prr12b
|
proline rich 12b |
| chr5_-_45894802 | 1.78 |
ENSDART00000097648
|
crfb6
|
cytokine receptor family member b6 |
| chr5_-_46329880 | 1.63 |
ENSDART00000156577
|
si:ch211-130m23.5
|
si:ch211-130m23.5 |
| chr6_+_39184236 | 1.50 |
ENSDART00000156187
|
tac3b
|
tachykinin 3b |
| chr5_-_38342992 | 1.40 |
ENSDART00000140337
|
mink1
|
misshapen-like kinase 1 |
| chr5_-_18897482 | 1.36 |
ENSDART00000010101
ENSDART00000099434 |
aacs
|
acetoacetyl-CoA synthetase |
| chr11_-_3959477 | 1.31 |
ENSDART00000045971
|
pbrm1
|
polybromo 1 |
| chr7_+_32021669 | 1.08 |
ENSDART00000173976
|
mettl15
|
methyltransferase like 15 |
| chr18_+_30370559 | 1.07 |
ENSDART00000165450
|
gse1
|
Gse1 coiled-coil protein |
| chr18_+_30370339 | 1.07 |
ENSDART00000158871
|
gse1
|
Gse1 coiled-coil protein |
| chr22_-_38951128 | 1.01 |
ENSDART00000085685
ENSDART00000104422 |
rbbp9
|
retinoblastoma binding protein 9 |
| chr20_-_27733683 | 0.84 |
ENSDART00000103317
ENSDART00000138139 |
zgc:153157
|
zgc:153157 |
| chr10_+_39283985 | 0.66 |
ENSDART00000016464
|
dcps
|
decapping enzyme, scavenger |
| chr8_+_39760258 | 0.61 |
ENSDART00000037914
|
cox6a1
|
cytochrome c oxidase subunit VIa polypeptide 1 |
| chr21_-_38730557 | 0.59 |
ENSDART00000150984
ENSDART00000111885 |
taf9
|
TAF9 RNA polymerase II, TATA box binding protein (TBP)-associated factor |
| chr23_-_31969786 | 0.56 |
ENSDART00000134550
|
ormdl2
|
ORMDL sphingolipid biosynthesis regulator 2 |
| chr6_+_49021703 | 0.54 |
ENSDART00000149394
|
slc16a1a
|
solute carrier family 16 (monocarboxylate transporter), member 1a |
| chr22_-_38951354 | 0.54 |
ENSDART00000104423
ENSDART00000134117 |
rbbp9
|
retinoblastoma binding protein 9 |
| chr2_-_32386791 | 0.32 |
ENSDART00000056634
|
ubtfl
|
upstream binding transcription factor, like |
| chr9_+_45789887 | 0.29 |
ENSDART00000135202
|
si:dkey-34f9.3
|
si:dkey-34f9.3 |
| chr21_+_1586379 | 0.13 |
ENSDART00000150961
|
wdr91
|
WD repeat domain 91 |
| chr4_-_44611273 | 0.02 |
ENSDART00000156793
|
znf1115
|
zinc finger protein 1115 |
Network of associatons between targets according to the STRING database.
First level regulatory network of her1+her11+her5_her12+her15.1+her15.2+her2+her4.1+her4.2+her4.3+her4.4
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 2.3 | 18.2 | GO:0098700 | neurotransmitter loading into synaptic vesicle(GO:0098700) |
| 1.6 | 4.8 | GO:0061355 | Wnt protein secretion(GO:0061355) |
| 1.2 | 13.9 | GO:0060385 | axonogenesis involved in innervation(GO:0060385) |
| 0.5 | 10.6 | GO:0048936 | peripheral nervous system neuron axonogenesis(GO:0048936) |
| 0.4 | 7.6 | GO:0048923 | posterior lateral line neuromast hair cell differentiation(GO:0048923) |
| 0.3 | 2.0 | GO:0042769 | DNA damage response, detection of DNA damage(GO:0042769) |
| 0.3 | 2.6 | GO:0006478 | protein sulfation(GO:0006477) peptidyl-tyrosine sulfation(GO:0006478) |
| 0.3 | 1.5 | GO:0007217 | tachykinin receptor signaling pathway(GO:0007217) |
| 0.2 | 12.1 | GO:0030901 | midbrain development(GO:0030901) |
| 0.2 | 3.3 | GO:0043153 | entrainment of circadian clock by photoperiod(GO:0043153) |
| 0.1 | 0.6 | GO:0090155 | regulation of sphingolipid biosynthetic process(GO:0090153) negative regulation of sphingolipid biosynthetic process(GO:0090155) negative regulation of ceramide biosynthetic process(GO:1900060) regulation of membrane lipid metabolic process(GO:1905038) regulation of ceramide biosynthetic process(GO:2000303) |
| 0.1 | 1.4 | GO:0032024 | positive regulation of insulin secretion(GO:0032024) |
| 0.1 | 0.7 | GO:0000290 | deadenylation-dependent decapping of nuclear-transcribed mRNA(GO:0000290) |
| 0.1 | 2.3 | GO:0021884 | forebrain neuron development(GO:0021884) |
| 0.1 | 4.1 | GO:0006096 | glycolytic process(GO:0006096) |
| 0.1 | 3.1 | GO:0043044 | ATP-dependent chromatin remodeling(GO:0043044) |
| 0.0 | 0.6 | GO:0006123 | mitochondrial electron transport, cytochrome c to oxygen(GO:0006123) |
| 0.0 | 0.4 | GO:0070475 | rRNA base methylation(GO:0070475) |
| 0.0 | 1.4 | GO:0031532 | actin cytoskeleton reorganization(GO:0031532) |
| 0.0 | 2.0 | GO:0000381 | regulation of alternative mRNA splicing, via spliceosome(GO:0000381) |
| 0.0 | 0.6 | GO:0043966 | histone H3 acetylation(GO:0043966) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.2 | 18.2 | GO:0098563 | integral component of synaptic vesicle membrane(GO:0030285) intrinsic component of synaptic vesicle membrane(GO:0098563) |
| 0.4 | 3.1 | GO:0016586 | RSC complex(GO:0016586) |
| 0.3 | 2.0 | GO:0031371 | ubiquitin conjugating enzyme complex(GO:0031371) |
| 0.1 | 0.6 | GO:0035339 | SPOTS complex(GO:0035339) |
| 0.0 | 0.6 | GO:0005751 | mitochondrial respiratory chain complex IV(GO:0005751) |
| 0.0 | 0.6 | GO:0000124 | SAGA complex(GO:0000124) |
| 0.0 | 2.6 | GO:0031228 | integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228) |
| 0.0 | 0.1 | GO:0031313 | extrinsic component of endosome membrane(GO:0031313) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.4 | 18.2 | GO:0015295 | solute:proton symporter activity(GO:0015295) |
| 1.0 | 4.1 | GO:0043891 | glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity(GO:0004365) glyceraldehyde-3-phosphate dehydrogenase (NAD(P)+) (phosphorylating) activity(GO:0043891) |
| 0.3 | 2.6 | GO:0008476 | protein-tyrosine sulfotransferase activity(GO:0008476) |
| 0.1 | 4.8 | GO:0017147 | Wnt-protein binding(GO:0017147) |
| 0.1 | 0.4 | GO:0016434 | rRNA (cytosine) methyltransferase activity(GO:0016434) |
| 0.1 | 0.7 | GO:0050072 | m7G(5')pppN diphosphatase activity(GO:0050072) |
| 0.1 | 3.3 | GO:0071949 | FAD binding(GO:0071949) |
| 0.1 | 1.4 | GO:0016878 | acid-thiol ligase activity(GO:0016878) |
| 0.0 | 0.5 | GO:0015129 | lactate transmembrane transporter activity(GO:0015129) |
| 0.0 | 2.0 | GO:0061631 | ubiquitin conjugating enzyme activity(GO:0061631) |
| 0.0 | 19.0 | GO:0046983 | protein dimerization activity(GO:0046983) |
| 0.0 | 0.8 | GO:0005246 | calcium channel regulator activity(GO:0005246) |
| 0.0 | 0.6 | GO:0016675 | cytochrome-c oxidase activity(GO:0004129) heme-copper terminal oxidase activity(GO:0015002) oxidoreductase activity, acting on a heme group of donors(GO:0016675) oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor(GO:0016676) |
| 0.0 | 19.2 | GO:0000978 | RNA polymerase II core promoter proximal region sequence-specific DNA binding(GO:0000978) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 4.8 | WNT SIGNALING | Genes related to Wnt-mediated signal transduction |
| 0.0 | 0.6 | PID MYC PATHWAY | C-MYC pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.3 | 18.2 | REACTOME GABA SYNTHESIS RELEASE REUPTAKE AND DEGRADATION | Genes involved in GABA synthesis, release, reuptake and degradation |
| 0.7 | 12.7 | REACTOME REGULATION OF GENE EXPRESSION IN BETA CELLS | Genes involved in Regulation of gene expression in beta cells |
| 0.2 | 4.1 | REACTOME GLYCOLYSIS | Genes involved in Glycolysis |
| 0.1 | 0.7 | REACTOME MRNA DECAY BY 3 TO 5 EXORIBONUCLEASE | Genes involved in mRNA Decay by 3' to 5' Exoribonuclease |
| 0.0 | 0.6 | REACTOME RNA POL II TRANSCRIPTION PRE INITIATION AND PROMOTER OPENING | Genes involved in RNA Polymerase II Transcription Pre-Initiation And Promoter Opening |
| 0.0 | 0.6 | REACTOME RESPIRATORY ELECTRON TRANSPORT | Genes involved in Respiratory electron transport |