Abstract: | Many genes regulate the ageing process in a positive or negative manner. Gerontogenes can speed up ageing by their normal activity, therefore decrease lifespan if hyperactivated and increase it if inactivated, while ageing-suppressor genes slow down ageing normally, hence decrease lifespan by lack of activity and their over-activation increases lifespan. In C. elegans these two classes of ageing-associated genes, share functional terms of enzyme/domain-specific binding, cell cortex and secretion and have their own specific terms as well as opposite molecular interaction network connectivity properties and only if grouped together having a significant higher specificity to interact to each other. In these networks of ageing-associated genes, clusters of either gerontogenes or ageing-suppressor genes appear to regulate distinct activities separately as well as similar processes together. Gerontogenes are acting on transcriptional and translational control, development and DNA metabolism, while ageing-suppressor genes are primary regulators of diverse activities for cell homeostasis like cytoskeleton structure, intracellular and nuclear organization, localization and transport, as well as proteasome system. Both gerontogenes and ageing-suppressor are participating in development and growth, phosphorylation mediated signalling, transmembrane transport, and regulation of cell death. |
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Several studies indicate that gerontogenes and ageing-suppressors have distinct different functions. For instance, a genome-wide screen for yeast mutations which confer altered chronological lifespan revealed that ageing-suppressors are involved in vacuolar protein sorting, autophagy, and mitochondrial function, while gerontogenes such as ACB1, CKA2 and TRM9 are implicated in fatty acid transport and biosynthesis, cell signalling and tRNA methylation, respectively [Fabrizio et al., 2010].
There are three ways to extend lifespan: increasing early or late survival rates, or delaying senescence. The first two do not affect basic ageing process. The first one increase only mean but not maximum lifespan, while the second one leads to change in a maximum but not mean lifespan. Delayed senescence leads to a significant increase in both the mean and maximum longevity [Iliadi et al., 2012]. Therefore we categorized whether a genetic manipulation affects mean and/or maximum lifespan.
Gerontogenes need to be suppressed, while ageing-suppressor genes have to be enhanced in their activity. The goal is to identify the processes, pathways and proteins which need to be drug-targeted to interfere with the ageing process in order to delay, stop or even reverse age-related changes.
Moreover the transcription factors controlling gerontogenes and ageing suppressors need to be identified as well as the significant interaction partners in all species.
Molecular interaction networks of ageing-associated genes for a defined species (e.g. C. elegans) were generated and the genes were visualized according to the categories (gerontogenes vs. ageing-suppressor genes) they are belonging to (for instance as colour of nodes border lines) in order to gain better insight into the regulatory mechanism governing lifespan decrease / increase.
Further the functional enrichment of gerontogenes, ageing-suppressor genes alone were revealed and their similarities were compared / differences contrasted. Why gerontogenes have negative influence on ageing, while ageing-suppressors positively affect lifespan?
Moreover the network properties for the interactomes of gerontogenes and ageing-suppressor genes, ageing- and dietary restriction (DR)-associated genes were compared.
Gerontogenes and ageing-suppressor genes have different network topological features such as connectivity (eventually also regarding in-betweeness and centrality). Additionally, it is possible that they are clustered differently. Gerontogenes have distinct functions, are acting on different processes or a localized to other compartments than ageing-suppressor genes. Therefore, a functional enrichment analysis is required.
An interaction network of negative ageing-suppressors identifies ubl-5 (Ubiquitin-Like family) as a significant interactor (7 of 94 interactions; p-value < 0.05). Ubl-5 is a key transcriptional coactivator of mitochondrial unfolded protein response (UPR), which is indispensable for the increased lifespan of mild mitochondrial electron transport chain (ETC) inhibition. Its expression is required during the same developmental window as decreased ETC to extend lifespan.
Gerontogenes and ageing-suppressor genes share terms related to enzyme- and specific domain-binding, cell-secretion and -cortex [Figure 1].
Gerontogenes have specific terms like regulation of vulva development, embryonic morphogenesis and pattern specification, cell migration, cytokinesis, hedgehog receptor activity, rRNA and iron-sulfur-binding, and aminoacyl tRNA biosynthesis [Figure 2].
Significant specific terms of gerontogenes are nucleotide excision and mismatch repair, DNA metabolic processes and replication, regulation of localization, embryonic development and morphogenesis, protein N-terminus, protein kinase and ribonucloetide binding, regulation of post-embryonic and nematode larval development, negative regulation of development process and post-embryonic development, embryonic development via the syncytial blastoderm, female gamete generation, anchoring and adherens junction, dorsal closure, positive and negative regulation of vulva development, gastrulation, regulation of transcription from RNA-polymerase II promoter, purine and pyrimidine metabolism, RNA polymerase, binding, transcription, cell motility and migration, inductive cell migration, cytokinesis and aminoacyl-tRNA biosynthesis [Figure 3].
Ageing-suppressor genes are enriched for specific terms regarding centrosome, nuclear transport, pole plasm, proteasome and proteasome complex associated [Figure 3].
A site-by-site network features comparison regarding connectivity of gerontogenes, ageing-suppressor genes and ageing- as well as DR-essential genes generated networks reveals that these sets of genes have strikingly different connectivities [Table 1; Figure 4].
In contrast, ageing-suppressor genes have a slightly lower number of specific (1.6 vs. 1.8%) and slightly higher number of total (55.0 vs. 53.7) interactions and a significant lower specificity of interacting to each other (2.9 vs. 3.3%).
Gerontogenes have a higher number of specific (3.3 vs. 3.0%) and significant lower number of total (48.3 vs. 55.7%) interactions, and higher specificity of interactions to each other (6.9 vs. 5.4%).
Ageing-associated genes (gerontogenes and ageing-suppressor genes together) have a higher number of specific (4.1 vs. 3.2%) and total (50.2 vs. 44.2%) interactions and a significant higher specificity to interact to each other (8.1 vs. 7.1%).
For comparison, DR-associated genes have a significant lower specific (0.9 vs. 1.2%) and total (17.6 vs. 52.2%) interaction number as well as higher specificity of connectivity to each other (4.9 vs. 2.3%).
A network composed of interactions only among gerontogenes and ageing-suppressor genes [Figure 5], shows that gerontogenes (nodes with red borders) or ageing-suppressor genes (nodes with green borders) are quite often connected together, separately, forming cluster and pathways only within their category. In this case, gerontogenes are forming hubs (sos-1 and egl-15).
A cluster composed of eight gerontogenes (RPB2_CAEEL, O62185_CAEEL, P91277_CAEEL, RPAB3_CAEEL, cfim-1, Q93338_CAEEL, gut-2 and snr-5) and three ageing-suppressor genes (PCF11_CAEEL, T08A11.2 and Q9U2H8_CAEEL) was identified to have terms related to manipulate the activity of RNA polymerase, hence transcription [Figure 6; Table 2; Table 3]. These proteins are connected physically (orange), but some interactions were in addition also genetic (purple), and therefore probably forming a protein complex.
A cluster totally composed of gerontogenes which are part of the ribosome and to mediate translation was found to interact physically with each other to a high degree and therefore forming a complex [Figure 7; Table 4; Table 5].
A short path of three gerontogenes (SKY-CAEEL, irs-1 and cyn-7) were found to be enriched in terms related to tRNA synthesis [Figure 8; Table 6; Table 7].
In a network of ageing-associated genes, where the interaction partners where restricted to those that interact at least with two ageing-associated genes, genes associated to ageing but not yet classified as either gerontogene or ageing-suppressor gene are represented with a golden node border lines and appearing very frequently within this interactome [Figure 9].
A relative big cluster of 90 genes containing three gerontogenes (RPB2_CAEEL & Q93338_CAEEL) and three ageing-associated genes (Q17558_CAEEL, hrp-1 and MGN_CAEEL) not yet classified were found to be involved in nucleotide metabolism, diverse forms of RNA processing as well as germ line development and differentiation [Figure 10; Table 8; Table 9].
A 20 node cluster with two gerontogenes (SYK_CAEEL and irs-1) in the centre as well as one unclassified ageing-associated gene (nrs-1) in the periphery [Figure 11; Table 10] contains enrichment in terms of the enzymatic activities for coupling amino acids to tRNAs.
A cluster harbouring two gerontogenes (rpn-7 and -11) in the centre as well as a gerontogene (drs-1) alone in the periphery with a path length of two interactions away from centre is enriched catabolic proteasome system terms. Interestingly, one gene (Q95XR3_CAEEL) with particular high connectivity to ageing-associated genes is directly connected to both gerontogenes [Figure 12; Table 11; Table 12].
A remarkably cluster with high contents of gerontogenes (hlh-1, mex-6, cye-1 and hmp-12), ageing-suppressor genes (par-6 & pie-1) and unclassified ageing-associated genes (let-60 & sem-5) is almost exclusively connected by genetic interactions. A single gene (let-756) with very high specificity to ageing-associated genes is localized in the middle of this cluster [Figure 13; Table 14; Table: Cluster positively regulating development and growth - Gene ontology enrichment].
A cluster of two gerontogenes (egl-15 and sos-1), one ageing-suppressor gene (GSK3_CAEEL) and one further ageing-associated gene (daf-2) is totally connected by gene genetic interactions and harbours an enrichment of terms related to signal transduction mediated by phosphorylation [Figure 14; Table 15; Table 16].
A cluster composed of four ageing-suppressor genes (SNA29_CAEEL, pat-3, vha-2 and Q18921_CAEEL), two gerontogenes (cdk-1 & Q9TX9_CAEEL) and one ageing-associated gene (unc-64) is enriched in terms related to transport across the membrane and regulating cell death [Figure 15; Table 17; Table 18].
By excluding interactions, which were not annotated as physical or genetic, a less complex network was generated [Figure 16]. This procedure revealed an additional cluster, previously not detected by MCODE algorithm, with significant enrichment in gene ontology terms.
Two gerontogenes (C47D12.8 & O44499_CAEEL) are in a cluster of 10 genes in total. O44499_CAEEL has only physical interaction to all other genes, while C47D12.8 has also many genetic interactions in addition to physical interaction to all other genes within this cluster. Two genes (csb-1 and Q93456_CAEEL) are linked to both gerontogenes and have a high and very high specificity to ageing-associated genes, respectively. This cluster is rich in terms associated to stimulus, stress and DNA damage, as well as DNA metabolism and repair [Figure 17; Table 19; Table 20].
Gerontogenes and ageing-suppressor genes share similar functional terms, namely enzyme and domain-specific binding as well as cell cortex and secretion. Indicating that both regulating processes which can be studied on the level of protein-protein and protein-metabolite interactions.
Gerontogenes are predominantly involved in development (such as regulation of vulva, embryonic morphogenesis and pattern specification), DNA metabolism (inclusive repair mechanisms and nucleotide metabolisms), Hedgehog signalling, rRNA and ironsulfur cluster binding as well as aminoacyl tRNA biosynthesis.
In contrast, ageing-suppressor genes are primary involved in cytoskeleton, intracellular-organisation, localisation and -transport (especially regarding nucleus), and proteasome. Indicating that they are maintaining intracellular structure, stability, homeostasis and diverse transport processes especially regarding the nucleus.
DEAD/H-box RNA helicase, which binding were associated to ageing-suppressor genes are important for RNA metabolism and transcriptional regulation [Fuller-Pace, 2006].
Interestingly, gerontogenes were functional more implicated in kinase binding, while ageing suppressor genes were enriched in some protein dephosphorylation related terms.
In networks of ageing-associated genes, gerontogenes were found to be clustered alone as well as together with ageing-suppressor genes.
Firstly, clusters containing only gerontogenes participate in tRNA biosynthesis (e.g. enzymes), translation (such as ribosomal components or elongation factors) and RNA-processing, germ-line development and differentiation, as well as guarding (response to various stresses) and repairing the genome.
Secondly, clusters mostly composed if gerontogenes and a few number of ageing-suppressor genes regulate transcription.
Thirdly, clusters containing both kinds of ageing-associated genes function in the control of development and growth, phosphorylation mediated signalling, transmembrane transport, and regulation of cell death.
Lastly, clusters containing more ageing-suppressor genes as gerontogens are linked to proteasome function.
If genes / proteins of the same category are clustered together or forming pathways their interaction could be of activating nature, while if genes / proteins of different categories (i.e gerontogene and ageing-suppressor gene) are interacting this could be in an inhibiting fashion (hypothesis).
Hubs like sos-1 (son of sevenless homolog, ras nucleotide exchange factor) and egl-15 (a kinase), both are gerontogenes are interacting with gerontogenes as well as ageing-suppressor genes (equal or unequal amount?). Therefore, they could function as information integrator and produce an integrated output.
Can a gene also be both gerontogene and ageing-suppressor genes depending on circumstances (e.g different environmental factors, diet)? Sir2 activity for instance, is on the one hand reported to extend replicative lifespan, but is on the other hand limiting maximal chronological lifespan extension [Fabrizio et al., 2005]. This case could be attributed to unicellular organism specific phenomena, but it was suggested that also Sirtuins in higher organisms also have anti-ageing and pro-ageing features. Therefore the categorization need to be interpreted carefully and exceptions of this simple categorization are important too. It is possible that regulatory environment of a gene/protein needs to be taken into account to understand this, rather than single genes/proteins.
It could be considered also to annotate if a gene is related to DR or an ortholog of a gene associated to one of these categories in another species.
It would be very interesting to use this classification method also in directional networks, with information about the influences of interaction (i.e. activating or inhibiting).
Fabrizio P, Hoon S, Shamalnasab M, Galbani A, Wei M, Giaever G, Nislow C, Longo VD: Genome-Wide Screen in Saccharomyces cerevisiae Identifies Vacuolar Protein Sorting, Autophagy, Biosynthetic, and tRNA Methylation Genes Involved in Life Span Regulation. PLoS Genet 2010, 6(7):e1001024.
Fuller-Pace FV: DExD/H box RNA helicases: multifunctional proteins with important roles in transcriptional regulation. Nucleic Acids Res 2006, 34(15):4206-4215. Fabrizio P, Gattazzo C, Battistella L, Wei M, Cheng C, McGrew K, Longo VD: Sir2 blocks extreme life-span extension. Cell 2005, 123(4):655-667.
Iliadi KG, Knight D, Boulianne GL (2012) Healthy aging - insights from Drosophila. Frontiers in physiology 3: 106.
Ageing-associated genes were classified into two categories:
Additionally, all genes documented in GenAge were marked as ageing-associated.
Gene names, symbols identifiers of the seed lists ("new longevity regulators") were collected in lists and mapped to ensembl gene IDs via synonymous table derived from Ensembl/Biomart.
Interactions for ageing-associated genes were retrieved from an integrated interaction datasets from various sources (> 18). Interactomes of different sizes (Level 1 - 5) were generated and visualized via Cytoscape.
General network properties were determined as previous described in [22912585].
Annotation information like number specific interactions to seed genes, number total interactions, specificity of connectivity, seed interactors, association (= classification, either gerontogene, ageing-suppressor gene or ageing-associated) were mapped to unique ensembl gene IDs and loaded as attributes to the nodes. Physical interactions are orange solid line edges, while genetic interactions are green dashed line edges. Nodes are coloured according to their p-value of specificity of the connectivity to seeds (p value > 0.05: green; p value = 0.05: yellow; p-value < 0.05 from red to purple (very low p-value)). Node borderline colour: red = Geronotogene; green = Ageing-Suppressor Gene; gold = Ageing-Associated Gene
For clustering the MCODE algorithm was used and functional enrichment analysis was performed with ClueGO for gene lists and with BiNGO for clusters in networks. The following ratios can be used:
Interactions | Genes | Seeds | Others | p-value |
---|---|---|---|---|
Specific | Geronto | 3.309 | 2.984 | 0.475 |
Specific | Ageing-Suppressor | 1.615 | 1.769 | 0.550 |
Specific | Ageing-Associated | 4.074 | 3.155 | 0.114 |
Specific | DR-Associated | 0.868 | 1.182 | 0.013 |
Total | Geronto | 48.289 | 55.734 | 0.013 |
Total | Ageing-Suppressor | 55.000 | 53.734 | 0.930 |
Total | Ageing-Associated | 50.213 | 44.212 | 0.780 |
Total | DR-Associated | 17.632 | 52.174 | 0.013 |
Specificity | Gerontogenes | 6.853 | 5.354 | 0.108 |
Specificity | Ageing-Suppressor | 2.937 | 3.292 | 0.001 |
Specificity | Ageing-Associated | 8.112 | 7.136 | 0.003 |
Specificity | DR-Associated | 4.925 | 2.265 | 0.013 |
Gene Symbol | Association | # Specific Interactions | # Total Interactions | Specificity | p-value |
---|---|---|---|---|---|
RPB2_CAEEL | Gerontogene | 21 | 218 | 10 | 0.11 |
O62185_CAEEL | Gerontogene | 11 | 101 | 11 | 0.11 |
P91277_CAEEL | Gerontogene | 14 | 154 | 9 | 0.22 |
PCF11_CAEEL | Ageing-Suppressor Gene | 12 | 104 | 12 | 0.07 |
RPAB3_CAEEL | Gerontogene | 17 | 198 | 9 | 0.26 |
cfim-1 | Gerontogene | 11 | 121 | 9 | 0.25 |
Q93338_CAEEL | Gerontogene | 19 | 250 | 8 | 0.44 |
T08A11.2 | Ageing-Suppressor Gene | 13 | 144 | 8 | 0.24 |
Q9U2H8_CAEEL | Ageing-Suppressor Gene | 11 | 104 | 11 | 0.13 |
gut-2 | Gerontogene | 17 | 164 | 10 | 0.08 |
snr-5 | Gerontogene | 13 | 122 | 11 | 0.1 |
corr p-value | x | n | X | N | Description | Genes in test set |
---|---|---|---|---|---|---|
4.84⋅10-2 | 2 | 3 | 4 | 72 | DNA-directed RNA polymerase activity | C26E6.4|C36B1.3 |
4.84⋅10-2 | 2 | 3 | 4 | 72 | RNA polymerase activity | C26E6.4|C36B1.3 |
Gene Symbol | Association | # Specific Interactions | # Total Interactions | Specificity | p-value |
---|---|---|---|---|---|
eif-3.E | Gerontogene | 7 | 119 | 5.882353 | 0.761108 |
rps-14 | Gerontogene | 10 | 175 | 5.714286 | 0.816172 |
EIF3H_CAEEL | Gerontogene | 6 | 105 | 5.714286 | 0.775373 |
rps-12 | Gerontogene | 8 | 130 | 6.153846 | 0.726164 |
rps-9 | Gerontogene | 7 | 159 | 4.402516 | 0.944618 |
eif-3.D | Gerontogene | 6 | 121 | 4.958678 | 0.875131 |
corr p-value | x | n | X | N | Description | Genes in test set |
---|---|---|---|---|---|---|
1.15⋅10-2 | 4 | 9 | 6 | 106 | translation | R08D7.3|F40F8.10|F37C12.9|F54E7.2 |
1.15⋅10-2 | 3 | 4 | 6 | 106 | ribosome | F40F8.10|F37C12.9|F54E7.2 |
1.15⋅10-2 | 3 | 4 | 6 | 106 | structural constituent of ribosome | F40F8.10|F37C12.9|F54E7.2 |
1.89⋅10-2 | 4 | 11 | 6 | 106 | cellular biosynthetic process | R08D7.3|F40F8.10|F37C12.9|F54E7.2 |
3.30⋅10-2 | 3 | 6 | 6 | 106 | structural molecule activity | F40F8.10|F37C12.9|F54E7.2 |
Gene Symbol | Association | # Specific Interactions | # Total Interactions | Specificity | p-value |
---|---|---|---|---|---|
kat-1 | 7 | 65 | 11 | 0.19 | |
O62336_CAEEL | 6 | 61 | 10 | 0.27 | |
cth-2 | 5 | 51 | 10 | 0.30 | |
Q93934_CAEEL | 5 | 52 | 10 | 0.32 | |
Q9NAI5_CAEEL | 4 | 40 | 10 | 0.32 | |
sod-1 | 8 | 99 | 8 | 0.42 | |
SYK_CAEEL | Gerontogene | 6 | 73 | 8 | 0.43 |
bcat-1 | 5 | 62 | 8 | 0.46 | |
ANM5_CAEEL | 4 | 51 | 8 | 0.51 | |
PUR4_CAEEL | 4 | 54 | 7 | 0.55 | |
nrs-1 | Ageing-Associated Gene | 8 | 111 | 7 | 0.55 |
ars-2 | 6 | 83 | 7 | 0.56 | |
ZK632.4 | 4 | 55 | 7 | 0.57 | |
irs-1 | Gerontogene | 7 | 99 | 7 | 0.58 |
C50F4.2 | 7 | 102 | 7 | 0.61 | |
Q17832_CAEEL | 7 | 105 | 7 | 0.64 | |
Q7JNV5_CAEEL | 4 | 69 | 6 | 0.74 | |
Q21284_CAEEL | 4 | 74 | 5 | 0.79 | |
Q86DL2_CAEEL | 7 | 153 | 5 | 0.93 | |
T22F3.3 | 5 | 137 | 4 | 0.97 |
corr p-value | x | n | X | N | Description | Genes in test set |
---|---|---|---|---|---|---|
2.38⋅10-2 | 2 | 4 | 3 | 106 | nitrogen compound metabolic process | R11A8.6|T02G5.9 |
2.38⋅10-2 | 2 | 4 | 3 | 106 | tRNA aminoacylation for protein translation | R11A8.6|T02G5.9 |
2.38⋅10-2 | 2 | 4 | 3 | 106 | tRNA metabolic process | R11A8.6|T02G5.9 |
2.38⋅10-2 | 2 | 4 | 3 | 106 | tRNA aminoacylation | R11A8.6|T02G5.9 |
2.38⋅10-2 | 2 | 4 | 3 | 106 | aminoacyl-tRNA ligase activity | R11A8.6|T02G5.9 |
2.38⋅10-2 | 2 | 4 | 3 | 106 | amino acid activation | R11A8.6|T02G5.9 |
2.38⋅10-2 | 2 | 4 | 3 | 106 | amine metabolic process | R11A8.6|T02G5.9 |
2.38⋅10-2 | 2 | 4 | 3 | 106 | amino acid and derivative metabolic process | R11A8.6|T02G5.9 |
2.38⋅10-2 | 2 | 4 | 3 | 106 | amino acid metabolic process | R11A8.6|T02G5.9 |
2.38⋅10-2 | 2 | 4 | 3 | 106 | ligase activity, forming carbon-oxygen bonds | R11A8.6|T02G5.9 |
2.38⋅10-2 | 2 | 4 | 3 | 106 | ligase activity, forming aminoacyl-tRNA and related compounds | R11A8.6|T02G5.9 |
3.34⋅10-2 | 2 | 5 | 3 | 106 | organic acid metabolic process | R11A8.6|T02G5.9 |
3.34⋅10-2 | 2 | 5 | 3 | 106 | carboxylic acid metabolic process | R11A8.6|T02G5.9 |
4.61⋅10-2 | 2 | 6 | 3 | 106 | ligase activity | R11A8.6|T02G5.9 |
Gene Symbol | Association | # Specific Interactions | # Total Interactions | Specificity | p-value |
---|---|---|---|---|---|
aly-3 | 12 | 101 | 12 | 0.06 | |
cey-2 | 12 | 101 | 12 | 0.06 | |
eft-1 | 14 | 123 | 11 | 0.06 | |
rsp-6 | 12 | 103 | 12 | 0.07 | |
rnp-4 | 12 | 105 | 11 | 0.08 | |
Q8T8N7_CAEEL | 13 | 118 | 11 | 0.08 | |
B3KYC2_CAEEL | 12 | 109 | 11 | 0.09 | |
Q867Z9_CAEEL | 12 | 109 | 11 | 0.09 | |
O02097_CAEEL | 11 | 98 | 11 | 0.09 | |
cey-3 | 11 | 98 | 11 | 0.09 | |
Q95QR5_CAEEL | 12 | 110 | 11 | 0.10 | |
Q19335_CAEEL | 14 | 133 | 11 | 0.10 | |
Q20445_CAEEL | 11 | 99 | 11 | 0.10 | |
cey-4 | 11 | 99 | 11 | 0.10 | |
Q18265_CAEEL | 12 | 111 | 11 | 0.10 | |
rnp-3 | 11 | 100 | 11 | 0.11 | |
cey-1 | 11 | 100 | 11 | 0.11 | |
rnp-2 | 11 | 100 | 11 | 0.11 | |
A5A8P6_CAEEL | 11 | 100 | 11 | 0.11 | |
RPB2_CAEEL | Gerontogene | 21 | 218 | 10 | 0.11 |
Q19864_CAEEL | 11 | 101 | 11 | 0.11 | |
RSP1_CAEEL | 11 | 101 | 11 | 0.11 | |
RSP2_CAEEL | 11 | 101 | 11 | 0.11 | |
Q8MXR6_CAEEL | 11 | 101 | 11 | 0.11 | |
Q8I0R9_CAEEL | 11 | 102 | 11 | 0.12 | |
RSP4_CAEEL | 11 | 102 | 11 | 0.12 | |
O02092_CAEEL | 16 | 161 | 10 | 0.12 | |
MGN_CAEEL | Ageing-Associated Gene | 11 | 103 | 11 | 0.12 |
aly-2 | 11 | 103 | 11 | 0.12 | |
uaf-2 | 11 | 103 | 11 | 0.12 | |
Q9U304_CAEEL | 11 | 103 | 11 | 0.12 | |
Q9XVS2_CAEEL | 12 | 115 | 10 | 0.13 | |
hrp-1 | Ageing-Associated Gene | 11 | 104 | 11 | 0.13 |
dnj-30 | 11 | 104 | 11 | 0.13 | |
snr-3 | 13 | 128 | 10 | 0.13 | |
Q9NAH3_CAEEL | 11 | 105 | 10 | 0.13 | |
snr-6 | 12 | 117 | 10 | 0.14 | |
him-1 | 11 | 106 | 10 | 0.14 | |
Q09995_CAEEL | 11 | 106 | 10 | 0.14 | |
pabp-2 | 12 | 118 | 10 | 0.14 | |
rha-1 | 12 | 118 | 10 | 0.14 | |
PM14_CAEEL | 11 | 107 | 10 | 0.15 | |
Q20370_CAEEL | 11 | 107 | 10 | 0.15 | |
Q9N3C9_CAEEL | 17 | 179 | 9 | 0.15 | |
RPAB2_CAEEL | 20 | 217 | 9 | 0.15 | |
O45577_CAEEL | 11 | 109 | 10 | 0.16 | |
Q965S0_CAEEL | 17 | 182 | 9 | 0.16 | |
Q9GRZ2_CAEEL | 16 | 170 | 9 | 0.17 | |
SMD2_CAEEL | 13 | 134 | 10 | 0.17 | |
Q18999_CAEEL | 11 | 110 | 10 | 0.17 | |
Q93339_CAEEL | 16 | 171 | 9 | 0.17 | |
rpb-10 | 18 | 196 | 9 | 0.17 | |
Q19211_CAEEL | 11 | 111 | 10 | 0.18 | |
RPB11_CAEEL | 17 | 185 | 9 | 0.18 | |
sap-1 | 12 | 124 | 10 | 0.18 | |
Q8MXR2_CAEEL | 11 | 112 | 10 | 0.18 | |
U520_CAEEL | 17 | 186 | 9 | 0.19 | |
rpb-5 | 19 | 211 | 9 | 0.19 | |
snr-7 | 12 | 126 | 10 | 0.20 | |
snr-1 | 13 | 139 | 9 | 0.20 | |
Q22469_CAEEL | 13 | 140 | 9 | 0.21 | |
ncbp-2 | 13 | 141 | 9 | 0.22 | |
Q09584_CAEEL | 14 | 154 | 9 | 0.22 | |
rnp-5 | 12 | 130 | 9 | 0.23 | |
Q10577_CAEEL | 12 | 130 | 9 | 0.23 | |
Q17558_CAEEL | Ageing-Associated Gene | 14 | 155 | 9 | 0.23 |
RSMB_CAEEL | 11 | 118 | 9 | 0.23 | |
CPSF2_CAEEL | 11 | 118 | 9 | 0.23 | |
O44985_CAEEL | 14 | 156 | 9 | 0.23 | |
O44729_CAEEL | 11 | 119 | 9 | 0.24 | |
Q95QN2_CAEEL | 11 | 119 | 9 | 0.24 | |
mog-1 | 11 | 119 | 9 | 0.24 | |
Q8MYM8_CAEEL | 14 | 157 | 9 | 0.24 | |
NFX1_CAEEL | 12 | 133 | 9 | 0.25 | |
Q9U3I0_CAEEL | 17 | 197 | 9 | 0.25 | |
RPAB3_CAEEL | Gerontogene | 17 | 198 | 9 | 0.26 |
prp-8 | 13 | 147 | 9 | 0.26 | |
O16997_CAEEL | 12 | 136 | 9 | 0.27 | |
NH2L1_CAEEL | 15 | 175 | 9 | 0.28 | |
CLP1_CAEEL | 11 | 124 | 9 | 0.28 | |
uaf-1 | 11 | 124 | 9 | 0.28 | |
sap-49 | 13 | 151 | 9 | 0.29 | |
Q95PY8_CAEEL | 11 | 126 | 9 | 0.30 | |
pap-1 | 12 | 139 | 9 | 0.30 | |
aly-1 | 13 | 160 | 8 | 0.37 | |
ama-1 | 18 | 227 | 8 | 0.37 | |
CPSF1_CAEEL | 11 | 134 | 8 | 0.37 | |
ncbp-1 | 12 | 149 | 8 | 0.39 | |
Q19866_CAEEL | 11 | 136 | 8 | 0.39 | |
Q93338_CAEEL | Gerontogene | 19 | 250 | 8 | 0.44 |
corr p-value | x | n | X | N | Description |
---|---|---|---|---|---|
3.30⋅10-15 | 54 | 169 | 85 | 730 | nucleic acid binding |
1.29⋅10-5 | 14 | 26 | 85 | 730 | nucleotidyltransferase activity |
1.86⋅10-5 | 13 | 24 | 85 | 730 | RNA processing |
1.86⋅10-5 | 14 | 28 | 85 | 730 | mRNA metabolic process |
1.86⋅10-5 | 34 | 134 | 85 | 730 | nucleobase, nucleoside, nucleotide and nucleic acid metabolic process |
1.86⋅10-5 | 11 | 18 | 85 | 730 | RNA polymerase activity |
1.86⋅10-5 | 11 | 18 | 85 | 730 | DNA-directed RNA polymerase activity |
2.48⋅10-5 | 24 | 77 | 85 | 730 | RNA metabolic process |
2.48⋅10-5 | 16 | 38 | 85 | 730 | transcription |
3.84⋅10-5 | 12 | 23 | 85 | 730 | gastrulation with mouth forming first |
3.95⋅10-5 | 13 | 27 | 85 | 730 | gastrulation |
4.82⋅10-4 | 7 | 10 | 85 | 730 | mRNA processing |
6.35⋅10-4 | 64 | 400 | 85 | 730 | binding |
3.40⋅10-3 | 36 | 184 | 85 | 730 | nucleotide binding |
7.51⋅10-3 | 16 | 58 | 85 | 730 | biopolymer biosynthetic process |
1.33⋅10-2 | 16 | 61 | 85 | 730 | morphogenesis of an epithelium |
2.14⋅10-2 | 3 | 3 | 85 | 730 | RNA 3'-end processing |
2.14⋅10-2 | 3 | 3 | 85 | 730 | polynucleotide adenylyltransferase activity |
2.14⋅10-2 | 3 | 3 | 85 | 730 | RNA splicing |
2.14⋅10-2 | 3 | 3 | 85 | 730 | RNA polyadenylation |
2.35⋅10-2 | 31 | 167 | 85 | 730 | reproductive developmental process |
2.39⋅10-2 | 11 | 37 | 85 | 730 | RNA binding |
3.19⋅10-2 | 29 | 156 | 85 | 730 | hermaphrodite genitalia development |
3.41⋅10-2 | 29 | 157 | 85 | 730 | genitalia development |
3.52⋅10-2 | 30 | 165 | 85 | 730 | sex differentiation |
corr p-value | x | n | X | N | Description |
---|---|---|---|---|---|
6.90⋅10-4 | 6 | 25 | 17 | 730 | organic acid metabolic process |
6.90⋅10-4 | 6 | 25 | 17 | 730 | carboxylic acid metabolic process |
6.90⋅10-4 | 6 | 26 | 17 | 730 | ligase activity |
1.44⋅10-3 | 14 | 240 | 17 | 730 | catalytic activity |
1.44⋅10-3 | 5 | 20 | 17 | 730 | amino acid metabolic process |
1.44⋅10-3 | 5 | 21 | 17 | 730 | amine metabolic process |
1.44⋅10-3 | 5 | 21 | 17 | 730 | amino acid and derivative metabolic process |
1.44⋅10-3 | 5 | 21 | 17 | 730 | nitrogen compound metabolic process |
2.45⋅10-3 | 4 | 14 | 17 | 730 | tRNA aminoacylation for protein translation |
2.45⋅10-3 | 4 | 14 | 17 | 730 | ligase activity, forming carbon-oxygen bonds |
2.45⋅10-3 | 4 | 14 | 17 | 730 | ligase activity, forming aminoacyl-tRNA and related compounds |
2.45⋅10-3 | 4 | 14 | 17 | 730 | tRNA aminoacylation |
2.45⋅10-3 | 4 | 14 | 17 | 730 | aminoacyl-tRNA ligase activity |
2.45⋅10-3 | 4 | 14 | 17 | 730 | amino acid activation |
3.07⋅10-3 | 4 | 15 | 17 | 730 | tRNA metabolic process |
4.33⋅10-3 | 2 | 2 | 17 | 730 | purine ribonucleoside monophosphate biosynthetic process |
4.33⋅10-3 | 2 | 2 | 17 | 730 | ribonucleoside monophosphate metabolic process |
4.33⋅10-3 | 2 | 2 | 17 | 730 | purine ribonucleoside monophosphate metabolic process |
4.33⋅10-3 | 2 | 2 | 17 | 730 | ribonucleoside monophosphate biosynthetic process |
4.33⋅10-3 | 2 | 2 | 17 | 730 | purine nucleoside monophosphate biosynthetic process |
4.33⋅10-3 | 2 | 2 | 17 | 730 | purine nucleoside monophosphate metabolic process |
4.33⋅10-3 | 2 | 2 | 17 | 730 | nucleoside monophosphate biosynthetic process |
4.33⋅10-3 | 2 | 2 | 17 | 730 | nucleoside monophosphate metabolic process |
1.18⋅10-2 | 2 | 3 | 17 | 730 | aspartyl-tRNA aminoacylation |
1.18⋅10-2 | 2 | 3 | 17 | 730 | aspartate-tRNA ligase activity |
1.95⋅10-2 | 3 | 13 | 17 | 730 | nucleobase, nucleoside and nucleotide metabolic process |
3.54⋅10-2 | 2 | 5 | 17 | 730 | pyridoxal phosphate binding |
4.72⋅10-2 | 2 | 6 | 17 | 730 | ribonucleotide biosynthetic process |
4.72⋅10-2 | 2 | 6 | 17 | 730 | purine nucleotide biosynthetic process |
Gene Symbol | Association | # Specific Interactions | # Total Interactions | Specificity | p-value |
---|---|---|---|---|---|
Q95XR3_CAEEL | 4 | 14 | 29 | 0.01 | |
pbs-1 | 6 | 53 | 11 | 0.18 | |
C0Z1Y7_CAEEL | 4 | 33 | 12 | 0.21 | |
pas-5 | 6 | 57 | 11 | 0.23 | |
Q8MXF1_CAEEL | 4 | 36 | 11 | 0.26 | |
Q95PZ7_CAEEL | 5 | 52 | 10 | 0.32 | |
PSMD9_CAEEL | 4 | 40 | 10 | 0.32 | |
pbs-7 | 5 | 54 | 9 | 0.35 | |
pas-1 | 8 | 100 | 8 | 0.43 | |
pas-3 | 7 | 88 | 8 | 0.45 | |
pas-2 | 6 | 79 | 8 | 0.51 | |
PSMD3_CAEEL | 8 | 107 | 7 | 0.51 | |
pbs-4 | 7 | 94 | 7 | 0.52 | |
pas-6 | 6 | 80 | 8 | 0.52 | |
Q9XUV0_CAEEL | 5 | 70 | 7 | 0.57 | |
rpn-12 | 7 | 101 | 7 | 0.60 | |
drs-1 | Gerontogene | 5 | 72 | 7 | 0.60 |
YMJ5_CAEEL | 7 | 102 | 7 | 0.61 | |
pbs-6 | 5 | 75 | 7 | 0.64 | |
pbs-3 | 5 | 86 | 6 | 0.75 | |
pas-4 | 8 | 142 | 6 | 0.81 | |
rpn-11 | Ageing-Suppressor Gene | 5 | 96 | 5 | 0.83 |
rpn-7 | Ageing-Suppressor Gene | 6 | 115 | 5 | 0.84 |
null | 9 | 170 | 5 | 0.87 |
corr p-value | x | n | X | N | Description |
---|---|---|---|---|---|
3.09⋅10-15 | 10 | 11 | 17 | 730 | proteasome complex |
6.07⋅10-12 | 8 | 9 | 17 | 730 | proteasome core complex |
6.07⋅10-12 | 8 | 9 | 17 | 730 | threonine endopeptidase activity |
2.42⋅10-10 | 8 | 12 | 17 | 730 | endopeptidase activity |
4.82⋅10-9 | 8 | 16 | 17 | 730 | peptidase activity |
3.48⋅10-8 | 9 | 29 | 17 | 730 | protein catabolic process |
4.21⋅10-8 | 9 | 30 | 17 | 730 | proteolysis |
6.52⋅10-8 | 9 | 33 | 17 | 730 | biopolymer catabolic process |
6.52⋅10-8 | 8 | 23 | 17 | 730 | cellular protein catabolic process |
6.52⋅10-8 | 8 | 23 | 17 | 730 | modification-dependent macromolecule catabolic process |
6.52⋅10-8 | 8 | 23 | 17 | 730 | proteolysis involved in cellular protein catabolic process |
6.52⋅10-8 | 8 | 23 | 17 | 730 | modification-dependent protein catabolic process |
6.52⋅10-8 | 8 | 23 | 17 | 730 | ubiquitin-dependent protein catabolic process |
2.21⋅10-7 | 9 | 38 | 17 | 730 | macromolecule catabolic process |
4.30⋅10-7 | 9 | 41 | 17 | 730 | catabolic process |
5.84⋅10-7 | 8 | 30 | 17 | 730 | cellular macromolecule catabolic process |
2.09⋅10-6 | 8 | 35 | 17 | 730 | cellular catabolic process |
6.26⋅10-6 | 10 | 74 | 17 | 730 | protein complex |
7.56⋅10-4 | 9 | 97 | 17 | 730 | hydrolase activity |
4.14⋅10-3 | 2 | 2 | 17 | 730 | proteasome accessory complex |
1.90⋅10-2 | 11 | 215 | 17 | 730 | protein metabolic process |
2.83⋅10-2 | 10 | 190 | 17 | 730 | macromolecular complex |
4.26⋅10-2 | 10 | 201 | 17 | 730 | locomotion |
4.77⋅10-2 | 10 | 205 | 17 | 730 | biopolymer metabolic process |
Gene Symbol | Association | # Specific Interactions | # Total Interactions | Specificity | p-value |
---|---|---|---|---|---|
hlh-1 | Gerontogene | 3 | 5 | 60 | 3⋅10-3 |
let-756 | 23 | 209 | 11 | 0.03 | |
let-60 | Ageing-Associated Gene | 17 | 167 | 10 | 0.09 |
mex-6 | Gerontogene | 3 | 17 | 18 | 0.12 |
cye-1 | Gerontogene | 4 | 28 | 14 | 0.14 |
par-6 | Ageing-Suppressor Gene | 3 | 23 | 13 | 0.23 |
sel-12 | 7 | 77 | 9 | 0.32 | |
hmp-2 | Gerontogene | 5 | 58 | 9 | 0.41 |
pie-1 | Ageing-Suppressor Gene | 2 | 21 | 10 | 0.45 |
sem-5 | Ageing-Associated Gene | 16 | 259 | 6 | 0.77 |
lin-35 | 17 | 541 | 3 | 1.00 |
Gene Symbol | Association | # Specific Interactions | # Total Interactions | Specificity | p-value |
---|---|---|---|---|---|
hlh-1 | Gerontogene | 3 | 5 | 60 | 3⋅10-3 |
let-756 | 23 | 209 | 11 | 0.03 | |
let-60 | Ageing-Associated Gene | 17 | 167 | 10 | 0.09 |
mex-6 | Gerontogene | 3 | 17 | 18 | 0.12 |
cye-1 | Gerontogene | 4 | 28 | 14 | 0.14 |
par-6 | Ageing-Suppressor Gene | 3 | 23 | 13 | 0.23 |
sel-12 | 7 | 77 | 9 | 0.32 | |
hmp-2 | Gerontogene | 5 | 58 | 9 | 0.41 |
pie-1 | Ageing-Suppressor Gene | 2 | 21 | 10 | 0.45 |
sem-5 | Ageing-Associated Gene | 16 | 259 | 6 | 0.77 |
lin-35 | 17 | 541 | 3 | 1.00 |
Gene Symbol | Association | # Specific Interactions | # Total Interactions | Specificity | p-value |
---|---|---|---|---|---|
egl-15 | Gerontogene | 30 | 157 | 19 | 8.49⋅10-7 |
daf-2 | Ageing-Associated Gene | 30 | 174 | 17 | 7.53⋅10-6 |
sos-1 | Gerontogene | 16 | 117 | 14 | 0.01 |
GSK3_CAEEL | Ageing-Suppressor Gene | 9 | 95 | 9 | 0.24 |
YQOE_CAEEL | 6 | 82 | 7 | 0.54 |
corr p-value | x | n | X | N | Description |
---|---|---|---|---|---|
1.13⋅10-2 | 3 | 32 | 4 | 730 | protein tyrosine kinase activity |
1.13⋅10-2 | 3 | 33 | 4 | 730 | protein serine/threonine kinase activity |
1.13⋅10-2 | 3 | 34 | 4 | 730 | protein amino acid phosphorylation |
1.13⋅10-2 | 3 | 34 | 4 | 730 | protein kinase activity |
1.13⋅10-2 | 3 | 35 | 4 | 730 | phosphotransferase activity, alcohol group as acceptor |
1.13⋅10-2 | 3 | 39 | 4 | 730 | phosphorylation |
1.13⋅10-2 | 3 | 40 | 4 | 730 | kinase activity |
1.13⋅10-2 | 3 | 43 | 4 | 730 | post-translational protein modification |
1.13⋅10-2 | 3 | 44 | 4 | 730 | phosphate metabolic process |
1.13⋅10-2 | 3 | 44 | 4 | 730 | phosphorus metabolic process |
1.65⋅10-2 | 3 | 55 | 4 | 730 | protein modification process |
1.65⋅10-2 | 3 | 56 | 4 | 730 | biopolymer modification |
1.65⋅10-2 | 2 | 13 | 4 | 730 | cell motility |
1.65⋅10-2 | 2 | 13 | 4 | 730 | localization of cell |
1.65⋅10-2 | 2 | 13 | 4 | 730 | cell migration |
2.49⋅10-2 | 3 | 67 | 4 | 730 | transferase activity, transferring phosphorus-containing groups |
2.55⋅10-2 | 3 | 79 | 4 | 730 | transferase activity |
2.55⋅10-2 | 1 | 1 | 4 | 730 | negative regulation of protein transport |
2.55⋅10-2 | 1 | 1 | 4 | 730 | fibroblast growth factor receptor signaling pathway |
2.55⋅10-2 | 1 | 1 | 4 | 730 | regulation of protein transport |
2.55⋅10-2 | 1 | 1 | 4 | 730 | negative regulation of protein import into nucleus |
2.55⋅10-2 | 1 | 1 | 4 | 730 | regulation of protein import into nucleus |
2.55⋅10-2 | 1 | 1 | 4 | 730 | regulation of intracellular transport |
2.55⋅10-2 | 1 | 1 | 4 | 730 | negative regulation of intracellular transport |
2.55⋅10-2 | 1 | 1 | 4 | 730 | regulation of intracellular protein transport |
2.55⋅10-2 | 1 | 1 | 4 | 730 | negative regulation of transport |
2.55⋅10-2 | 1 | 1 | 4 | 730 | negative regulation of transcription factor import into nucleus |
2.55⋅10-2 | 1 | 1 | 4 | 730 | regulation of transcription factor import into nucleus |
2.55⋅10-2 | 1 | 1 | 4 | 730 | regulation of nucleocytoplasmic transport |
2.55⋅10-2 | 1 | 1 | 4 | 730 | negative regulation of nucleocytoplasmic transport |
2.55⋅10-2 | 1 | 1 | 4 | 730 | dauer exit |
4.26⋅10-2 | 1 | 2 | 4 | 730 | regulation of Rho protein signal transduction |
4.26⋅10-2 | 1 | 2 | 4 | 730 | regulation of localization |
4.26⋅10-2 | 1 | 2 | 4 | 730 | regulation of transport |
4.26⋅10-2 | 1 | 2 | 4 | 730 | guanyl-nucleotide exchange factor activity |
4.26⋅10-2 | 1 | 2 | 4 | 730 | Ras guanyl-nucleotide exchange factor activity |
4.26⋅10-2 | 1 | 2 | 4 | 730 | Rho guanyl-nucleotide exchange factor activity |
4.39⋅10-2 | 3 | 109 | 4 | 730 | ATP binding |
4.39⋅10-2 | 3 | 110 | 4 | 730 | adenyl ribonucleotide binding |
4.87⋅10-2 | 3 | 115 | 4 | 730 | adenyl nucleotide binding |
Gene Symbol | Association | # Specific Interactions | # Total Interactions | Specificity | p-value |
---|---|---|---|---|---|
SNA29_CAEEL | Ageing-Suppressor Gene | 3 | 16 | 18.75 | 0.10341 |
pat-3 | Ageing-Suppressor Gene | 5 | 47 | 10.6383 | 0.248478 |
cdk-1 | Gerontogene | 10 | 121 | 8.264463 | 0.373336 |
unc-64 | Ageing-Associated Gene | 3 | 31 | 9.677419 | 0.38817 |
vha-2 | Ageing-Suppressor Gene | 2 | 34 | 5.882353 | 0.713321 |
Q9TXZ9_CAEEL | Gerontogene | 1 | 18 | 5.555556 | 0.739507 |
O44616_CAEEL | 16 | 298 | 5.369128 | 0.914033 | |
Q18921_CAEEL | Ageing-Suppressor Gene | 1 | 37 | 2.702703 | 0.93703 |
vha-12 | 13 | 262 | 4.961832 | 0.942641 | |
tba-2 | 4 | 132 | 3.030303 | 0.987611 |
corr p-value | x | n | X | N | Description |
---|---|---|---|---|---|
6.66⋅10-3 | 2 | 2 | 7 | 730 | positive regulation of non-apoptotic programmed cell death |
6.66⋅10-3 | 2 | 2 | 7 | 730 | regulation of non-apoptotic programmed cell death |
6.66⋅10-3 | 5 | 69 | 7 | 730 | localization |
6.66⋅10-3 | 3 | 13 | 7 | 730 | substrate-specific transmembrane transporter activity |
6.66⋅10-3 | 3 | 13 | 7 | 730 | transmembrane transporter activity |
8.80⋅10-3 | 2 | 3 | 7 | 730 | positive regulation of programmed cell death |
9.74⋅10-3 | 3 | 17 | 7 | 730 | substrate-specific transporter activity |
9.74⋅10-3 | 3 | 17 | 7 | 730 | positive regulation of cellular process |
1.00⋅10-2 | 3 | 19 | 7 | 730 | transporter activity |
1.00⋅10-2 | 4 | 49 | 7 | 730 | transport |
1.00⋅10-2 | 2 | 5 | 7 | 730 | monovalent inorganic cation transport |
1.00⋅10-2 | 2 | 5 | 7 | 730 | cation transport |
1.00⋅10-2 | 2 | 5 | 7 | 730 | hydrogen transport |
1.00⋅10-2 | 2 | 5 | 7 | 730 | hydrogen ion transporting ATP synthase activity, rotational mechanism |
1.00⋅10-2 | 2 | 5 | 7 | 730 | ATP metabolic process |
1.00⋅10-2 | 2 | 5 | 7 | 730 | proton transport |
1.00⋅10-2 | 4 | 57 | 7 | 730 | establishment of localization |
1.00⋅10-2 | 2 | 6 | 7 | 730 | ATPase activity, coupled to movement of substances |
1.00⋅10-2 | 2 | 6 | 7 | 730 | cation-transporting ATPase activity |
1.00⋅10-2 | 2 | 6 | 7 | 730 | hydrogen ion transporting ATPase activity, rotational mechanism |
1.00⋅10-2 | 2 | 6 | 7 | 730 | purine ribonucleoside triphosphate metabolic process |
1.00⋅10-2 | 2 | 6 | 7 | 730 | ribonucleoside triphosphate metabolic process |
1.00⋅10-2 | 2 | 6 | 7 | 730 | ATPase activity, coupled to transmembrane movement of substances |
1.00⋅10-2 | 2 | 6 | 7 | 730 | ATPase activity, coupled to transmembrane movement of ions |
1.00⋅10-2 | 2 | 6 | 7 | 730 | purine nucleoside triphosphate metabolic process |
1.00⋅10-2 | 2 | 6 | 7 | 730 | nucleoside triphosphate metabolic process |
1.10⋅10-2 | 2 | 7 | 7 | 730 | inorganic cation transmembrane transporter activity |
1.10⋅10-2 | 2 | 7 | 7 | 730 | proton-transporting two-sector ATPase complex |
1.10⋅10-2 | 2 | 7 | 7 | 730 | ion transport |
1.10⋅10-2 | 2 | 7 | 7 | 730 | hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances |
1.10⋅10-2 | 2 | 7 | 7 | 730 | monovalent inorganic cation transmembrane transporter activity |
1.10⋅10-2 | 2 | 7 | 7 | 730 | hydrogen ion transmembrane transporter activity |
1.10⋅10-2 | 2 | 7 | 7 | 730 | regulation of programmed cell death |
1.23⋅10-2 | 2 | 8 | 7 | 730 | ribonucleotide metabolic process |
1.23⋅10-2 | 2 | 8 | 7 | 730 | cation transmembrane transporter activity |
1.23⋅10-2 | 2 | 8 | 7 | 730 | P-P-bond-hydrolysis-driven transmembrane transporter activity |
1.23⋅10-2 | 2 | 8 | 7 | 730 | primary active transmembrane transporter activity |
1.23⋅10-2 | 2 | 8 | 7 | 730 | purine nucleotide metabolic process |
1.23⋅10-2 | 2 | 8 | 7 | 730 | purine ribonucleotide metabolic process |
1.54⋅10-2 | 2 | 9 | 7 | 730 | active transmembrane transporter activity |
1.72⋅10-2 | 4 | 77 | 7 | 730 | membrane part |
1.83⋅10-2 | 2 | 10 | 7 | 730 | ion transmembrane transporter activity |
2.08⋅10-2 | 2 | 11 | 7 | 730 | nucleotide metabolic process |
2.08⋅10-2 | 2 | 11 | 7 | 730 | nucleoside phosphate metabolic process |
2.08⋅10-2 | 4 | 83 | 7 | 730 | membrane |
2.85⋅10-2 | 2 | 13 | 7 | 730 | nucleobase, nucleoside and nucleotide metabolic process |
3.30⋅10-2 | 1 | 1 | 7 | 730 | cell-substrate adhesion |
3.30⋅10-2 | 1 | 1 | 7 | 730 | regulation of cellular pH |
3.30⋅10-2 | 1 | 1 | 7 | 730 | cell-matrix adhesion |
3.30⋅10-2 | 1 | 1 | 7 | 730 | cellular monovalent inorganic cation homeostasis |
3.30⋅10-2 | 1 | 1 | 7 | 730 | cellular cation homeostasis |
3.30⋅10-2 | 1 | 1 | 7 | 730 | regulation of meiosis |
3.30⋅10-2 | 1 | 1 | 7 | 730 | response to hypoxia |
3.30⋅10-2 | 1 | 1 | 7 | 730 | cellular ion homeostasis |
3.30⋅10-2 | 1 | 1 | 7 | 730 | positive regulation of meiosis |
3.30⋅10-2 | 1 | 1 | 7 | 730 | regulation of pH |
3.30⋅10-2 | 1 | 1 | 7 | 730 | regulation of cell cycle process |
3.30⋅10-2 | 1 | 1 | 7 | 730 | ion homeostasis |
3.30⋅10-2 | 1 | 1 | 7 | 730 | regulation of syncytium formation by plasma membrane fusion |
3.30⋅10-2 | 1 | 1 | 7 | 730 | monovalent inorganic cation homeostasis |
3.30⋅10-2 | 1 | 1 | 7 | 730 | regulation of meiotic cell cycle |
3.30⋅10-2 | 1 | 1 | 7 | 730 | energy coupled proton transport, against electrochemical gradient |
3.30⋅10-2 | 1 | 1 | 7 | 730 | regulation of intracellular pH |
3.30⋅10-2 | 1 | 1 | 7 | 730 | cation homeostasis |
3.30⋅10-2 | 1 | 1 | 7 | 730 | cellular chemical homeostasis |
3.81⋅10-2 | 2 | 18 | 7 | 730 | positive regulation of developmental process |
4.17⋅10-2 | 2 | 19 | 7 | 730 | cell development |
Gene Symbol | Association | # Specific Interactions | # Total Interactions | Specifity | p-value |
---|---|---|---|---|---|
Q93456_CAEEL | 7 | 34 | 21 | 0.01 | |
C47D12.8 | Gerontogene | 9 | 66 | 14 | 0.05 |
csb-1 | 6 | 37 | 16 | 0.05 | |
P91175_CAEEL | 8 | 60 | 13 | 0.07 | |
Q7YZG6_CAEEL | 9 | 74 | 12 | 0.08 | |
O44499_CAEEL | Gerontogene | 10 | 85 | 12 | 0.08 |
O17245_CAEEL | 10 | 89 | 11 | 0.11 | |
Q09645_CAEEL | 10 | 91 | 11 | 0.12 | |
Q9NA35_CAEEL | 9 | 82 | 11 | 0.14 | |
TF2H2_CAEEL | 9 | 86 | 10 | 0.17 |
corr p-value | x | n | X | N | Description | Genes in test set |
---|---|---|---|---|---|---|
1.99⋅10-4 | 5 | 14 | 10 | 515 | response to DNA damage stimulus | Y73F8A.24|ZK1128.4|C47D12.8|T16H12.4 F10G8.7 |
4.13⋅10-4 | 5 | 18 | 10 | 515 | response to stress | Y73F8A.24|ZK1128.4|C47D12.8|T16H12.4 F10G8.7 |
8.18⋅10-4 | 5 | 22 | 10 | 515 | DNA metabolic process | Y73F8A.24|ZK1128.4|C47D12.8|T16H12.4 F10G8.7 |
1.05⋅10-3 | 4 | 12 | 10 | 515 | DNA repair | Y73F8A.24|ZK1128.4|T16H12.4|F10G8.7 |
1.92⋅10-3 | 6 | 48 | 10 | 515 | response to stimulus | Y73F8A.24|ZK1128.4|C47D12.8|T16H12.4 F10G8.7|F53H4.1 |
4.20⋅10-2 | 2 | 4 | 10 | 515 | nuclease activity | C47D12.8|F10G8.7 |
Genes | Geronto | Ageing-Suppressor | Ageing-Associated | DR-Associated |
---|---|---|---|---|
# Genes in Seeds | 97 | 39 | 136 | 38 |
# Interactors | 1462 | 1177 | 1989 | 539 |
# Sig. Interactors | 24 | 88 | 40 | 61 |
# Interactions Level1 | 189 | 43 | 317 | 31 |
# Interactions Level2 | 3359 | 1057 | 4992 | 114 |
# Interactions Level3 | 4552 | 2125 | 6592 | 984 |
# Interactions Level4 | 21806 | 8627 | 27065 | 168 |
# Interactions Level5 | 36507 | 24232 | 41626 | 6301 |
Genes | List | Average # Specfic Interactions | Average # Total Interactions | Average Specificity (%) | # Genes | # Sig. Genes |
---|---|---|---|---|---|---|
Gerontogenes | Seeds | 3.3 | 48.3 | 6.9 | 97 | 8 |
Gerontogenes | Others | 3.0 | 55.7 | 5.4 | 1462 | 24 |
Gerontogenes | All | 3.0 | 55.3 | 5.4 | 1559 | 32 |
Ageing-Suppressor Genes | Seeds | 1.6 | 55.0 | 2.9 | 39 | 1 |
Ageing-Suppressor Genes | Others | 1.8 | 53.7 | 3.3 | 1177 | 88 |
Ageing-Suppressor Genes | All | 1.8 | 53.8 | 3.3 | 1216 | 89 |
Ageing-Associated Genes | Seeds | 4.1 | 50.2 | 8.1 | 136 | 7 |
Ageing-Associated Genes | Others | 3.2 | 44.2 | 7.1 | 1989 | 29 |
Ageing-Associated Genes | All | 3.2 | 44.6 | 7.2 | 2125 | 40 |
DR-Associated Genes | Seeds | 0.9 | 17.6 | 4.9 | 38 | 1 |
DR-Associated Genes | Others | 1.2 | 52.2 | 2.3 | 539 | 61 |
DR-Associated Genes | All | 1.2 | 49.9 | 2.3 | 577 | 66 |
Classification | List | Average # Specific Interactions | Average # Total Interactions | Average of Averages | Average Specificity (%) | Average p-value | # Genes | # sig. Genes |
---|---|---|---|---|---|---|---|---|
Gerontogenes | Seeds | 3.3 | 48.3 | 10.1 | 6.9 | 0.4 | 97 | 8 |
Gerontogenes | Candidates | 3.0 | 55.7 | 11.9 | 5.4 | 0.6 | 1462 | 24 |
Gerontogenes | All | 3.0 | 55.3 | 11.8 | 5.4 | 0.6 | 1559 | 32 |
Ageing-Suppressor Genes | Seeds | 1.6 | 55.0 | 5.0 | 2.9 | 0.5 | 39 | 1 |
Ageing-Suppressor Genes | Candidates | 1.8 | 53.7 | 13.2 | 3.3 | 0.5 | 1177 | 88 |
Ageing-Suppressor Genes | All | 1.8 | 53.8 | 13.0 | 3.3 | 0.8 | 1216 | 89 |
Ageing-Associated Genes Ex. GenAge | Seeds | 4.1 | 50.2 | 11.4 | 8.1 | 0.6 | 136 | 7 |
Ageing-Associated Genes Ex. GenAge | Candidates | 3.2 | 44.2 | 16.4 | 7.1 | 0.6 | 1989 | 29 |
Ageing-Associated Genes Ex. GenAge | All | 3.2 | 44.6 | 16.0 | 7.2 | 0.6 | 2125 | 40 |
Ageing-Associated Genes In. GenAge | Seeds | 4.1 | 50.2 | 11.4 | 8.1 | 0.6 | 136 | 7 |
Ageing-Associated Genes In. GenAge | Candidates | 3.2 | 44.2 | 16.4 | 7.1 | 0.6 | 1989 | 29 |
Ageing-Associated Genes In. GenAge | All | 3.2 | 44.6 | 16.0 | 7.2 | 0.6 | 2125 | 40 |
DR-Associated Genes | Seeds | 0.9 | 17.6 | 8.1 | 4.9 | 0.6 | 38 | 1 |
DR-Associated Genes | Candidates | 1.2 | 52.2 | 13.3 | 2.3 | 0.3 | 539 | 61 |
DR-Associated Genes | All | 1.2 | 49.9 | 12.9 | 2.3 | 0.7 | 577 | 66 |
Genes | # Specific Interactions | # Total Interactions | Specificity |
---|---|---|---|
Gerontogenes | 0.475 | < 0.05 | 0.108 |
Ageing-Suppressor | 0.55 | 0.93 | < 10-3 |
Ageing-Associated Genes Excluding GenAge | 0.114 | 0.78 | < 0.005 |
Ageing-Associated Genes Including GenAge | < 10-4 | < 10-4 | < 10-5 |
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