GPMDB00328OtherBattle A, et al.InstrumentNot AvailableNot availableHomo_sapiens_viruses, Humangilad@uchicago.eduNot availableDepartment of Genetics, Stanford University, et 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availableGPMDBThe phenotypic consequences of expression quantitative trait loci (eQTLs) are presumably due to their effects on protein expression levels. Yet the impact of genetic variation, including eQTLs, on protein levels remains poorly understood. To address this, we mapped genetic variants that are associated with eQTLs, ribosome occupancy (rQTLs), or protein abundance (pQTLs). We found that most QTLs are associated with transcript expression levels, with consequent effects on ribosome and protein levels. However, eQTLs tend to have significantly reduced effect sizes on protein levels, which suggests that their potential impact on downstream phenotypes is often attenuated or buffered. Additionally, we identified a class of cis QTLs that affect protein abundance with little or no effect on messenger RNA or ribosome levels, which suggests that they may arise from differences in posttranslational regulation.Genomic variation. Impact of regulatory variation from RNA to protein.Battle Alexis A,Khan Zia Z,Wang Sidney H SH,Mitrano Amy A,Ford Michael J MJ,Pritchard Jonathan K JK,Gilad Yoav Y,Battle Alexis A, Khan Zia Z, Wang Sidney H SH, Mitrano Amy A, Ford Michael J MJ, Pritchard Jonathan K JK, Gilad Yoav YNon-Polyadenylated RNA, ribonucleic acid, Acid, polypeptide, proteins., RNA, Ribonucleic, ribose nucleic acid, yeast nucleic acid, Ribonukleinsaeure, Non Polyadenylated RNA, Gene Products, ribonucleic acids, pentosenucleic acids, Non-Polyadenylated, Ribonucleic acids, RNS, Ribonucleic Acid, E430016J11Rik, Non Polyadenylated, RWDD5, RNA Gene Productssmall, protein levels, Ribosome, data, GM19138, 10q23del, underdeveloped, GLM2, MMAC1, hypoplasia, ribosomal RNA, Sciences, proteins, decreased number, INSDC_feature:misc_RNA, polypeptide, Phenotypes, MHAM, DEC, Experiment, decreased, reduced, PTEN1, subnumerary, CWS1, TEP1, tiny, associated, attenuated., membrane bound ribosome, E430016J11Rik, BZS, present in fewer numbers in organism, RWDD5, free ribosomeNon-Polyadenylated RNA, ribonucleic acid, Acid, polypeptide, proteins., RNA, Ribonucleic, ribose nucleic acid, yeast nucleic acid, Ribonukleinsaeure, Non Polyadenylated RNA, Gene Products, ribonucleic acids, pentosenucleic acids, Non-Polyadenylated, Ribonucleic acids, RNS, Ribonucleic Acid, E430016J11Rik, Non Polyadenylated, RWDD5, RNA Gene ProductsGenetic Variations, small, protein levels, ahl4, Variations, Affects, ribosomal RNA, Diversities, Trait Loci, 2610511A05Rik, Quantitative, INSDC_feature:misc_RNA, BB234005, Quantitative Trait, polypeptide, reduced, subnumerary, Cis, CIS, Quantitative Trait Locus, Genetic Diversities, G18, INSDC_feature:mRNA, Mood, tiny, membrane bound ribosome, present in fewer numbers in organism, attenuated, regulation., free ribosome, Ribosome, CIS-1, Diversity, Genetic, protein_coding_transcript, underdeveloped, mRNA, Moods, hypoplasia, messenger RNA, Trait Locus, 9030605P22Rik, proteins, Genetic Diversity, decreased number, Locus, Phenotypes, template RNA, decreased, SOCS, Loci, Protein G18, Quantitative Trait Loci Genes, associated, E430016J11Rik, Suppressor of cytokine signaling, RWDD5, Variation, BACTS23208http://gpmdb.thegpm.org/~/dblist_gpmnum/gpmnum=GPM32320005946dbgap_ncbi~0patentfamilies~0rfam~0merops~0complex-portal~0uniprot~0wormbaseparasite~0embl-covid19~0reactome~0emdb~0wgs_masters~0ebiweb_resources~0opentargets_genetics~0biomodels_all~0ipd-mhc~0ebiweb_teams~0taxonomy~0genome_assembly~0sc-experiments~0ebiweb_people~0enzymeportal_enzymes~0ipd-nhkir~0cellosaurus~0pdbe~0chebi~0patentproteins~0interpro7~0uniref~0chembl~0pdbekb~0gpcrdb~0hgnc~0sc-genes~0intact~0rhea~0ebiweb_training~0alphafold~0imgt-hla~0patentnucleotides~0ensemblroot~0eva_studies~0non-coding~0europepmc~0pubmed~1identifiers_registry~0pdbechem~0hpa-covid19~0eva-variants-covid19~0biosamples~0gwas_catalog~0biotools~0tls_masters~0mesh~0coding~0sra~1opentargets~0efo~0embl-pathogen~0pride~1human_diseases~0geo_datasets~0embl~0treefam~0project~1uniparc~0ols~0dgva~0intenz~0go~0tsa_masters~0biosamples-covid19~0ebiweb_corporate~0omim~0lrg~0earlycause-molecular-sequences~0ipd-kir~0empiar~0rnacentral~0orcid_data_claims~0gpmdb~3lineage-covid19~0metagenomics~0pfam~0pride archive~1varsite~00Resource Reanalysis0.00.00.009870450339296731.00.0falseImpact of regulatory variation from RNA to proteinData from ProteomeXchange, PXD ID: PXD001406. Experiment: GM19138, MSB14233, file: GM19138_MSB14233_29.mzml. Published as part of Science 2014 Dec. 18 . From the Abstract: {{i}} ... we mapped genetic variants that are associated with eQTLs, ribosome occupancy (rQTLs), or protein abundance (pQTLs). We found that most QTLs are associated with transcript expression levels, with consequent effects on ribosome and protein levels. However, eQTLs tend to have significantly reduced effect sizes on protein levels, suggesting that their potential impact on downstream phenotypes is often attenuated or buffered ... {{/i}}2014-12-23GPM3232000594625657249PXD001406PXD001406