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Fusion Protein:CDK5RAP1-CDH4 |
Fusion Protein Summary |
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Fusion partner gene information | Fusion gene name: CDK5RAP1-CDH4 | FusionPDB ID: 15260 | FusionGDB2.0 ID: 15260 | Hgene | Tgene | Gene symbol | CDK5RAP1 | CDH4 | Gene ID | 51654 | 1002 |
Gene name | CDK5 regulatory subunit associated protein 1 | cadherin 4 | |
Synonyms | C20orf34|C42|CGI-05|HSPC167 | CAD4|R-CAD|RCAD | |
Cytomap | 20q11.21 | 20q13.33 | |
Type of gene | protein-coding | protein-coding | |
Description | CDK5 regulatory subunit-associated protein 1CDK5 activator-binding protein C42 | cadherin-4R-cadherincadherin 4, type 1, R-cadherin (retinal)cadherin 4, type 1, preproproteinretinal cadherin | |
Modification date | 20200313 | 20200313 | |
UniProtAcc | Q96SZ6 | P55283 | |
Ensembl transtripts involved in fusion gene | ENST ids | ENST00000477105, ENST00000473997, ENST00000346416, ENST00000357886, ENST00000544843, ENST00000339269, | ENST00000360469, ENST00000543233, |
Fusion gene scores for assessment (based on all fusion genes of FusionGDB 2.0) | * DoF score | 7 X 6 X 5=210 | 16 X 14 X 7=1568 |
# samples | 7 | 21 | |
** MAII score | log2(7/210*10)=-1.58496250072116 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | log2(21/1568*10)=-2.90046432644909 possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs). DoF>8 and MAII<0 | |
Context (manual curation of fusion genes in FusionPDB) | PubMed: CDK5RAP1 [Title/Abstract] AND CDH4 [Title/Abstract] AND fusion [Title/Abstract] | ||
Most frequent breakpoint (based on all fusion genes of FusionGDB 2.0) | CDK5RAP1(31967267)-CDH4(60503248), # samples:1 | ||
Anticipated loss of major functional domain due to fusion event. | CDK5RAP1-CDH4 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. CDK5RAP1-CDH4 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF. CDK5RAP1-CDH4 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. CDK5RAP1-CDH4 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF. CDK5RAP1-CDH4 seems lost the major protein functional domain in Hgene partner, which is a essential gene due to the frame-shifted ORF. CDK5RAP1-CDH4 seems lost the major protein functional domain in Tgene partner, which is a essential gene due to the frame-shifted ORF. CDK5RAP1-CDH4 seems lost the major protein functional domain in Tgene partner, which is a tumor suppressor due to the frame-shifted ORF. |
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types ** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10) |
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Partner | Gene | GO ID | GO term | PubMed ID |
Hgene | CDK5RAP1 | GO:0045736 | negative regulation of cyclin-dependent protein serine/threonine kinase activity | 11882646 |
![]() * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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![]() * Click on the image to open the UCSC genome browser with custom track showing this image in a new window. |
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Fusion Gene Sample Information |
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![]() * All genome coordinats were lifted-over on hg19. * Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser. |
Source | Disease | Sample | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand |
ChimerDB4 | LUAD | TCGA-75-6211-01A | CDK5RAP1 | chr20 | 31967267 | - | CDH4 | chr20 | 60503248 | + |
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Fusion ORF Analysis |
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Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | Seq length (transcript) | BP loci (transcript) | Predicted start (transcript) | Predicted stop (transcript) | Seq length (amino acids) |
ENST00000346416 | CDK5RAP1 | chr20 | 31967267 | - | ENST00000360469 | CDH4 | chr20 | 60503248 | + | 5913 | 1261 | 142 | 1374 | 410 |
ENST00000346416 | CDK5RAP1 | chr20 | 31967267 | - | ENST00000543233 | CDH4 | chr20 | 60503248 | + | 2547 | 1261 | 142 | 1374 | 410 |
ENST00000357886 | CDK5RAP1 | chr20 | 31967267 | - | ENST00000360469 | CDH4 | chr20 | 60503248 | + | 5955 | 1303 | 142 | 1416 | 424 |
ENST00000357886 | CDK5RAP1 | chr20 | 31967267 | - | ENST00000543233 | CDH4 | chr20 | 60503248 | + | 2589 | 1303 | 142 | 1416 | 424 |
ENST00000544843 | CDK5RAP1 | chr20 | 31967267 | - | ENST00000360469 | CDH4 | chr20 | 60503248 | + | 5871 | 1219 | 100 | 1332 | 410 |
ENST00000544843 | CDK5RAP1 | chr20 | 31967267 | - | ENST00000543233 | CDH4 | chr20 | 60503248 | + | 2505 | 1219 | 100 | 1332 | 410 |
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Henst | Tenst | Hgene | Hchr | Hbp | Hstrand | Tgene | Tchr | Tbp | Tstrand | No-coding score | Coding score |
ENST00000346416 | ENST00000360469 | CDK5RAP1 | chr20 | 31967267 | - | CDH4 | chr20 | 60503248 | + | 0.052875645 | 0.9471243 |
ENST00000346416 | ENST00000543233 | CDK5RAP1 | chr20 | 31967267 | - | CDH4 | chr20 | 60503248 | + | 0.03364042 | 0.96635956 |
ENST00000357886 | ENST00000360469 | CDK5RAP1 | chr20 | 31967267 | - | CDH4 | chr20 | 60503248 | + | 0.059140902 | 0.94085914 |
ENST00000357886 | ENST00000543233 | CDK5RAP1 | chr20 | 31967267 | - | CDH4 | chr20 | 60503248 | + | 0.04539193 | 0.9546081 |
ENST00000544843 | ENST00000360469 | CDK5RAP1 | chr20 | 31967267 | - | CDH4 | chr20 | 60503248 | + | 0.052740455 | 0.9472595 |
ENST00000544843 | ENST00000543233 | CDK5RAP1 | chr20 | 31967267 | - | CDH4 | chr20 | 60503248 | + | 0.03757315 | 0.9624269 |
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Fusion Amino Acid Sequences |
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>FusionGDB ID_FusionGDB isoform ID_FGname_Hgene_Hchr_Hbp_Henst_Tgene_Tchr_Tbp_Tenst_length(fusion AA) seq_BP >15260_15260_1_CDK5RAP1-CDH4_CDK5RAP1_chr20_31967267_ENST00000346416_CDH4_chr20_60503248_ENST00000360469_length(amino acids)=410AA_BP=373 MFSAMHPLQCVLQVQRSLGWGPLASVSWLSLRMCRAHSSLSSTMCPSPERQEDGARKDFSSRLAAGPTFQHFLKSASAPQEKLSSEVEDP PPYLMMDELLGRQRKVYLETYGCQMNVNDTEIAWSILQKSGYLRTSNLQEADVILLVTCSIREKAEQTIWNRLHQLKALKTRRPRSRVPL RIGILGCMAERLKEEILNREKMVDILAGPDAYRDLPRLLAVAESGQQAANVLLSLDETYADVMPVQTSASATSAFVSIMRGCDNMCSYCI VPFTRGRERSRPIASILEEVKKLSEQGLKEVTLLGQNVNSFRDNSEVQFNSAVPTNLSRGFTTNYKTKQGGLRFAHLLDQVSRVDPEMRI -------------------------------------------------------------- >15260_15260_2_CDK5RAP1-CDH4_CDK5RAP1_chr20_31967267_ENST00000346416_CDH4_chr20_60503248_ENST00000543233_length(amino acids)=410AA_BP=373 MFSAMHPLQCVLQVQRSLGWGPLASVSWLSLRMCRAHSSLSSTMCPSPERQEDGARKDFSSRLAAGPTFQHFLKSASAPQEKLSSEVEDP PPYLMMDELLGRQRKVYLETYGCQMNVNDTEIAWSILQKSGYLRTSNLQEADVILLVTCSIREKAEQTIWNRLHQLKALKTRRPRSRVPL RIGILGCMAERLKEEILNREKMVDILAGPDAYRDLPRLLAVAESGQQAANVLLSLDETYADVMPVQTSASATSAFVSIMRGCDNMCSYCI VPFTRGRERSRPIASILEEVKKLSEQGLKEVTLLGQNVNSFRDNSEVQFNSAVPTNLSRGFTTNYKTKQGGLRFAHLLDQVSRVDPEMRI -------------------------------------------------------------- >15260_15260_3_CDK5RAP1-CDH4_CDK5RAP1_chr20_31967267_ENST00000357886_CDH4_chr20_60503248_ENST00000360469_length(amino acids)=424AA_BP=387 MFSAMHPLQCVLQVQRSLGWGPLASVSWLSLRMCRAHSSLSSTMCPSPERQEDGARKDFSSRLAAGPTFQHFLKSASAPQEKLSSEVEDP PPYLMMDELLGRQRKVYLETYGCQMNVNDTEIAWSILQKSGYLRTSNLQEADVILLVTCSIREKAEQTIWNRLHQLKALKTRRPRSRVPL RIGILGCMAERLKEEILNREKMVDILAGPDAYRDLPRLLAVAESGQQAANVLLSLDETYADVMPVQTSASATSAFVSIMRGCDNMCSYCI VPFTRGRERSRPIASILEEVKKLSEQVFLPPRPPKVLGLQGLKEVTLLGQNVNSFRDNSEVQFNSAVPTNLSRGFTTNYKTKQGGLRFAH -------------------------------------------------------------- >15260_15260_4_CDK5RAP1-CDH4_CDK5RAP1_chr20_31967267_ENST00000357886_CDH4_chr20_60503248_ENST00000543233_length(amino acids)=424AA_BP=387 MFSAMHPLQCVLQVQRSLGWGPLASVSWLSLRMCRAHSSLSSTMCPSPERQEDGARKDFSSRLAAGPTFQHFLKSASAPQEKLSSEVEDP PPYLMMDELLGRQRKVYLETYGCQMNVNDTEIAWSILQKSGYLRTSNLQEADVILLVTCSIREKAEQTIWNRLHQLKALKTRRPRSRVPL RIGILGCMAERLKEEILNREKMVDILAGPDAYRDLPRLLAVAESGQQAANVLLSLDETYADVMPVQTSASATSAFVSIMRGCDNMCSYCI VPFTRGRERSRPIASILEEVKKLSEQVFLPPRPPKVLGLQGLKEVTLLGQNVNSFRDNSEVQFNSAVPTNLSRGFTTNYKTKQGGLRFAH -------------------------------------------------------------- >15260_15260_5_CDK5RAP1-CDH4_CDK5RAP1_chr20_31967267_ENST00000544843_CDH4_chr20_60503248_ENST00000360469_length(amino acids)=410AA_BP=373 MFSAMHPLQCVLQVQRSLGWGPLASVSWLSLRMCRAHSSLSSTMCPSPERQEDGARKDFSSRLAAGPTFQHFLKSASAPQEKLSSEVEDP PPYLMMDELLGRQRKVYLETYGCQMNVNDTEIAWSILQKSGYLRTSNLQEADVILLVTCSIREKAEQTIWNRLHQLKALKTRRPRSRVPL RIGILGCMAERLKEEILNREKMVDILAGPDAYRDLPRLLAVAESGQQAANVLLSLDETYADVMPVQTSASATSAFVSIMRGCDNMCSYCI VPFTRGRERSRPIASILEEVKKLSEQGLKEVTLLGQNVNSFRDNSEVQFNSAVPTNLSRGFTTNYKTKQGGLRFAHLLDQVSRVDPEMRI -------------------------------------------------------------- >15260_15260_6_CDK5RAP1-CDH4_CDK5RAP1_chr20_31967267_ENST00000544843_CDH4_chr20_60503248_ENST00000543233_length(amino acids)=410AA_BP=373 MFSAMHPLQCVLQVQRSLGWGPLASVSWLSLRMCRAHSSLSSTMCPSPERQEDGARKDFSSRLAAGPTFQHFLKSASAPQEKLSSEVEDP PPYLMMDELLGRQRKVYLETYGCQMNVNDTEIAWSILQKSGYLRTSNLQEADVILLVTCSIREKAEQTIWNRLHQLKALKTRRPRSRVPL RIGILGCMAERLKEEILNREKMVDILAGPDAYRDLPRLLAVAESGQQAANVLLSLDETYADVMPVQTSASATSAFVSIMRGCDNMCSYCI VPFTRGRERSRPIASILEEVKKLSEQGLKEVTLLGQNVNSFRDNSEVQFNSAVPTNLSRGFTTNYKTKQGGLRFAHLLDQVSRVDPEMRI -------------------------------------------------------------- |
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Fusion Protein Functional Features |
![]() Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr20:31967267/chr20:60503248) - FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels. - How to search 1. Put your fusion gene symbol. 2. Press the tab key until there will be shown the breakpoint information filled. 4. Go down and press 'Search' tab twice. 4. Go down to have the hyperlink of the search result. 5. Click the hyperlink. 6. See the FGviewer result for your fusion gene. |
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Hgene | Tgene |
CDK5RAP1 | CDH4 |
FUNCTION: Methylthiotransferase that catalyzes the conversion of N6-(dimethylallyl)adenosine (i(6)A) to 2-methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 (adjacent to the 3'-end of the anticodon) of four mitochondrial DNA-encoded tRNAs (Ser(UCN), Phe, Tyr and Trp) (PubMed:22422838, PubMed:25738458, PubMed:28981754). Essential for efficient and highly accurate protein translation by the ribosome (PubMed:22422838, PubMed:25738458, PubMed:28981754). Specifically inhibits CDK5 activation by CDK5R1 (PubMed:11882646). Essential for efficient mitochondrial protein synthesis and respiratory chain; shows pathological consequences in mitochondrial disease (PubMed:25738458). {ECO:0000269|PubMed:11882646, ECO:0000269|PubMed:22422838, ECO:0000269|PubMed:25738458, ECO:0000269|PubMed:28981754}. | FUNCTION: Cadherins are calcium-dependent cell adhesion proteins. They preferentially interact with themselves in a homophilic manner in connecting cells; cadherins may thus contribute to the sorting of heterogeneous cell types. May play an important role in retinal development. |
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- Retained protein feature among the 13 regional features. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000346416 | - | 8 | 14 | 100_220 | 369.0 | 588.0 | Domain | MTTase N-terminal |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000357886 | - | 9 | 15 | 100_220 | 383.0 | 602.0 | Domain | MTTase N-terminal |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000544843 | - | 8 | 12 | 100_220 | 369.0 | 427.6666666666667 | Domain | MTTase N-terminal |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000360469 | 10 | 16 | 873_888 | 590.3333333333334 | 917.0 | Compositional bias | Note=Ser-rich | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000543233 | 9 | 15 | 873_888 | 516.3333333333334 | 843.0 | Compositional bias | Note=Ser-rich | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000360469 | 10 | 16 | 614_724 | 590.3333333333334 | 917.0 | Domain | Cadherin 5 | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000543233 | 9 | 15 | 614_724 | 516.3333333333334 | 843.0 | Domain | Cadherin 5 | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000360469 | 10 | 16 | 757_916 | 590.3333333333334 | 917.0 | Topological domain | Cytoplasmic | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000543233 | 9 | 15 | 757_916 | 516.3333333333334 | 843.0 | Topological domain | Cytoplasmic | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000360469 | 10 | 16 | 735_756 | 590.3333333333334 | 917.0 | Transmembrane | Helical | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000543233 | 9 | 15 | 735_756 | 516.3333333333334 | 843.0 | Transmembrane | Helical |
- Not-retained protein feature among the 13 regional features. |
Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Protein feature | Protein feature note |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000339269 | - | 1 | 13 | 100_220 | 0 | 511.0 | Domain | MTTase N-terminal |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000339269 | - | 1 | 13 | 244_512 | 0 | 511.0 | Domain | Radical SAM core |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000339269 | - | 1 | 13 | 515_590 | 0 | 511.0 | Domain | TRAM |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000346416 | - | 8 | 14 | 244_512 | 369.0 | 588.0 | Domain | Radical SAM core |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000346416 | - | 8 | 14 | 515_590 | 369.0 | 588.0 | Domain | TRAM |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000357886 | - | 9 | 15 | 244_512 | 383.0 | 602.0 | Domain | Radical SAM core |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000357886 | - | 9 | 15 | 515_590 | 383.0 | 602.0 | Domain | TRAM |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000544843 | - | 8 | 12 | 244_512 | 369.0 | 427.6666666666667 | Domain | Radical SAM core |
Hgene | CDK5RAP1 | chr20:31967267 | chr20:60503248 | ENST00000544843 | - | 8 | 12 | 515_590 | 369.0 | 427.6666666666667 | Domain | TRAM |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000360469 | 10 | 16 | 170_277 | 590.3333333333334 | 917.0 | Domain | Cadherin 1 | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000360469 | 10 | 16 | 278_392 | 590.3333333333334 | 917.0 | Domain | Cadherin 2 | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000360469 | 10 | 16 | 393_507 | 590.3333333333334 | 917.0 | Domain | Cadherin 3 | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000360469 | 10 | 16 | 508_613 | 590.3333333333334 | 917.0 | Domain | Cadherin 4 | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000543233 | 9 | 15 | 170_277 | 516.3333333333334 | 843.0 | Domain | Cadherin 1 | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000543233 | 9 | 15 | 278_392 | 516.3333333333334 | 843.0 | Domain | Cadherin 2 | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000543233 | 9 | 15 | 393_507 | 516.3333333333334 | 843.0 | Domain | Cadherin 3 | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000543233 | 9 | 15 | 508_613 | 516.3333333333334 | 843.0 | Domain | Cadherin 4 | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000360469 | 10 | 16 | 170_734 | 590.3333333333334 | 917.0 | Topological domain | Extracellular | |
Tgene | CDH4 | chr20:31967267 | chr20:60503248 | ENST00000543233 | 9 | 15 | 170_734 | 516.3333333333334 | 843.0 | Topological domain | Extracellular |
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Fusion Protein-Protein Interaction |
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Gene | PPI interactors |
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Gene | STRING network |
CDK5RAP1 | |
CDH4 |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Still interaction with |
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Partner | Gene | Hbp | Tbp | ENST | Strand | BPexon | TotalExon | Protein feature loci | *BPloci | TotalLen | Interaction lost with |
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Related Drugs to CDK5RAP1-CDH4 |
![]() (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
Hgene | Tgene | Drug | Source | PMID |
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Related Diseases to CDK5RAP1-CDH4 |
![]() (Manual curation of PubMed, 04-30-2022 + MyCancerGenome) |
Hgene | Tgene | Disease | Source | PMID |
![]() (DisGeNet 4.0) |
Partner | Gene | Disease ID | Disease name | # pubmeds | Source |