Genetically regulated gene expression and proteins revealed discordant effects.
<h4>Background</h4>Although gene-expression (GE) and protein levels are typically strongly genetically regulated, their correlation is known to be low. Here we investigate this phenomenon by focusing on the genetic background of this correlation in order to understand the similarities an...
| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2022-01-01
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| Series: | PLoS ONE |
| Online Access: | https://doi.org/10.1371/journal.pone.0268815 |
| _version_ | 1811290274107752448 |
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| author | Janne Pott Tarcyane Garcia Stefanie M Hauck Agnese Petrera Kerstin Wirkner Markus Loeffler Holger Kirsten Annette Peters Markus Scholz |
| author_facet | Janne Pott Tarcyane Garcia Stefanie M Hauck Agnese Petrera Kerstin Wirkner Markus Loeffler Holger Kirsten Annette Peters Markus Scholz |
| author_sort | Janne Pott |
| collection | DOAJ |
| description | <h4>Background</h4>Although gene-expression (GE) and protein levels are typically strongly genetically regulated, their correlation is known to be low. Here we investigate this phenomenon by focusing on the genetic background of this correlation in order to understand the similarities and differences in the genetic regulation of these omics layers.<h4>Methods and results</h4>We performed locus-wide association studies of 92 protein levels measured in whole blood for 2,014 samples of European ancestry and found that 66 are genetically regulated. Three female- and one male-specific effects were detected. We estimated the genetically regulated GE for all significant genes in 49 GTEx v8 tissues. A total of 7 proteins showed negative correlations with their respective GE across multiple tissues. Finally, we tested for causal links of GE on protein expression via Mendelian Randomization, and confirmed a negative causal effect of GE on protein level for five of these genes in a total of 63 gene-tissue pairs: BLMH, CASP3, CXCL16, IL6R, and SFTPD. For IL6R, we replicated the negative causal effect on coronary-artery disease (CAD), while its GE was positively linked to CAD.<h4>Conclusion</h4>While total GE and protein levels are only weakly correlated, we found high correlations between their genetically regulated components across multiple tissues. Of note, strong negative causal effects of tissue-specific GE on five protein levels were detected. Causal network analyses revealed that GE effects on CAD risks was in general mediated by protein levels. |
| first_indexed | 2024-04-13T04:10:02Z |
| format | Article |
| id | doaj.art-92bc12241c724d5a8465b1bc15205630 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-04-13T04:10:02Z |
| publishDate | 2022-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-92bc12241c724d5a8465b1bc152056302022-12-22T03:03:08ZengPublic Library of Science (PLoS)PLoS ONE1932-62032022-01-01175e026881510.1371/journal.pone.0268815Genetically regulated gene expression and proteins revealed discordant effects.Janne PottTarcyane GarciaStefanie M HauckAgnese PetreraKerstin WirknerMarkus LoefflerHolger KirstenAnnette PetersMarkus Scholz<h4>Background</h4>Although gene-expression (GE) and protein levels are typically strongly genetically regulated, their correlation is known to be low. Here we investigate this phenomenon by focusing on the genetic background of this correlation in order to understand the similarities and differences in the genetic regulation of these omics layers.<h4>Methods and results</h4>We performed locus-wide association studies of 92 protein levels measured in whole blood for 2,014 samples of European ancestry and found that 66 are genetically regulated. Three female- and one male-specific effects were detected. We estimated the genetically regulated GE for all significant genes in 49 GTEx v8 tissues. A total of 7 proteins showed negative correlations with their respective GE across multiple tissues. Finally, we tested for causal links of GE on protein expression via Mendelian Randomization, and confirmed a negative causal effect of GE on protein level for five of these genes in a total of 63 gene-tissue pairs: BLMH, CASP3, CXCL16, IL6R, and SFTPD. For IL6R, we replicated the negative causal effect on coronary-artery disease (CAD), while its GE was positively linked to CAD.<h4>Conclusion</h4>While total GE and protein levels are only weakly correlated, we found high correlations between their genetically regulated components across multiple tissues. Of note, strong negative causal effects of tissue-specific GE on five protein levels were detected. Causal network analyses revealed that GE effects on CAD risks was in general mediated by protein levels.https://doi.org/10.1371/journal.pone.0268815 |
| spellingShingle | Janne Pott Tarcyane Garcia Stefanie M Hauck Agnese Petrera Kerstin Wirkner Markus Loeffler Holger Kirsten Annette Peters Markus Scholz Genetically regulated gene expression and proteins revealed discordant effects. PLoS ONE |
| title | Genetically regulated gene expression and proteins revealed discordant effects. |
| title_full | Genetically regulated gene expression and proteins revealed discordant effects. |
| title_fullStr | Genetically regulated gene expression and proteins revealed discordant effects. |
| title_full_unstemmed | Genetically regulated gene expression and proteins revealed discordant effects. |
| title_short | Genetically regulated gene expression and proteins revealed discordant effects. |
| title_sort | genetically regulated gene expression and proteins revealed discordant effects |
| url | https://doi.org/10.1371/journal.pone.0268815 |
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