RT Journal Article
SR Electronic
T1 A deep proteome and transcriptome abundance atlas of 29 healthy human tissues
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 357137
DO 10.1101/357137
A1 Dongxue Wang
A1 Basak Eraslan
A1 Thomas Wieland
A1 Björn Hallström
A1 Thomas Hopf
A1 Daniel Paul Zolg
A1 Jana Zecha
A1 Anna Asplund
A1 Li-hua Li
A1 Chen Meng
A1 Martin Frejno
A1 Tobias Schmidt
A1 Karsten Schnatbaum
A1 Mathias Wilhelm
A1 Frederik Ponten
A1 Mathias Uhlen
A1 Julien Gagneur
A1 Hannes Hahne
A1 Bernhard Kuster
YR 2018
UL http://biorxiv.org/content/early/2018/06/27/357137.abstract
AB Genome-, transcriptome- and proteome-wide measurements provide valuable insights into how biological systems are regulated. However, even fundamental aspects relating to which human proteins exist, where they are expressed and in which quantities are not fully understood. Therefore, we have generated a systematic, quantitative and deep proteome and transcriptome abundance atlas from 29 paired healthy human tissues from the Human Protein Atlas Project and representing human genes by 17,615 transcripts and 13,664 proteins. The analysis revealed that few proteins show truly tissue-specific expression, that vast differences between mRNA and protein quantities within and across tissues exist and that the expression levels of proteins are often more stable across tissues than those of transcripts. In addition, only ~2% of all exome and ~7% of all mRNA variants could be confidently detected at the protein level showing that proteogenomics remains challenging, requires rigorous validation using synthetic peptides and needs more sophisticated computational methods. Many uses of this resource can be envisaged ranging from the study of gene/protein expression regulation to protein biomarker specificity evaluation to name a few.AbbreviationsaTISAlternative translation initiation sitesBHBenjamini-HochbergCIACoinertia analysisCIDCollision-induced dissociationETDElectron-transfer dissociationEThcDElectron-transfer/Higher-energy collision dissociationFDRFalse discovery rateFPKMFragments per kilobase millionGPCRG-protein-coupled receptorsHCDHigher-energy collision dissociationLC-MS/MSLiquid chromatography tandem mass spectrometrylncRNALong non-coding RNAMSMass spectrometryPTRProtein-to-mRNASAAVSingle amino acid variantSNVSingle nucleotide variantTFTranscription factoruORFUpstream open-reading frame