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A deep proteome and transcriptome abundance atlas of 29 healthy human tissues

ABSTRACT: We generated a systematic, quantitative and deep proteome and transcriptome abundance atlas from 29 paired healthy human to serve as a molecular baseline to study human biology.

OTHER RELATED OMICS DATASETS IN: PXD010154

INSTRUMENT(S): Orbitrap Fusion Lumos, Q Exactive Plus, Q Exactive HF

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

SUBMITTER: Bernhard K�ster

PROVIDER: MSV000083508 | MassIVE | Sat Mar 02 03:15:00 GMT 2019

SECONDARY ACCESSION(S): PXD010154

REPOSITORIES: MassIVE

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A deep proteome and transcriptome abundance atlas of 29 healthy human tissues.

Wang Dongxue D Eraslan Basak B Wieland Thomas T Hallström Björn B Hopf Thomas T Zolg Daniel Paul DP Zecha Jana J Asplund Anna A Li Li-Hua LH Meng Chen C Frejno Martin M Schmidt Tobias T Schnatbaum Karsten K Wilhelm Mathias M Ponten Frederik F Uhlen Mathias M Gagneur Julien J Hahne Hannes H Kuster Bernhard B

Molecular systems biology 20190218 2

Genome-, transcriptome- and proteome-wide measurements provide insights into how biological systems are regulated. However, fundamental aspects relating to which human proteins exist, where they are expressed and in which quantities are not fully understood. Therefore, we generated a quantitative proteome and transcriptome abundance atlas of 29 paired healthy human tissues from the Human Protein Atlas project representing human genes by 18,072 transcripts and 13,640 proteins including 37 without ...[more]

PMID: 30777892

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A deep proteome and transcriptome abundance atlas of 29 healthy human tissues

Project description:We generated a systematic, quantitative and deep proteome and transcriptome abundance atlas from 29 paired healthy human to serve as a molecular baseline to study human biology.

2019-07-10 | PXD010154 | Pride

A deep proteome and transcriptome abundance atlas of 29 healthy human tissues

Project description:Genome-, transcriptome- and proteome-wide measurements provide insights into how biological systems are regulated. However, fundamental aspects relating to which human proteins exist, where they are expressed and in which quantities are not fully understood. Therefore, we generated a quantitative proteome and transcriptome abundance atlas of 29 paired healthy human tissues from the Human Protein Atlas Project representing human genes by 18,072 transcripts and 13,640 proteins including 37 without prior protein level evidence. The analysis revealed that hundreds of proteins, particularly in testis, could not be detected even for highly expressed mRNAs, that few proteins show tissue-specific expression, that strong differences between mRNA and protein quantities within and across tissues exist and that protein expression is often more stable across tissues than that of transcripts. Only 238 of 9,848 amino acid variants found by exome sequencing could be confidently detected at the protein level showing that proteogenomics remains challenging, needs better computational methods and requires rigorous validation. Many uses of this resource can be envisaged including the study of gene/protein expression regulation and biomarker specificity evaluation.

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A deep proteome and transcriptome abundance atlas of 29 healthy human tissues.

Project description:Genome-, transcriptome- and proteome-wide measurements provide insights into how biological systems are regulated. However, fundamental aspects relating to which human proteins exist, where they are expressed and in which quantities are not fully understood. Therefore, we generated a quantitative proteome and transcriptome abundance atlas of 29 paired healthy human tissues from the Human Protein Atlas project representing human genes by 18,072 transcripts and 13,640 proteins including 37 without prior protein-level evidence. The analysis revealed that hundreds of proteins, particularly in testis, could not be detected even for highly expressed mRNAs, that few proteins show tissue-specific expression, that strong differences between mRNA and protein quantities within and across tissues exist and that protein expression is often more stable across tissues than that of transcripts. Only 238 of 9,848 amino acid variants found by exome sequencing could be confidently detected at the protein level showing that proteogenomics remains challenging, needs better computational methods and requires rigorous validation. Many uses of this resource can be envisaged including the study of gene/protein expression regulation and biomarker specificity evaluation.

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2024-07-25 | PXD037632 | Pride

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Project description:Tissue transcriptome atlas across DIO and lean mouse tissues

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Diurnal transcriptome atlas of a primate across major neural and peripheral tissues.

Project description:Diurnal gene expression patterns underlie time-of-the-day-specific functional specialization of tissues. However, available circadian gene expression atlases of a few organs are largely from nocturnal vertebrates. We report the diurnal transcriptome of 64 tissues, including 22 brain regions, sampled every 2 hours over 24 hours, from the primate Papio anubis (baboon). Genomic transcription was highly rhythmic, with up to 81.7% of protein-coding genes showing daily rhythms in expression. In addition to tissue-specific gene expression, the rhythmic transcriptome imparts another layer of functional specialization. Most ubiquitously expressed genes that participate in essential cellular functions exhibit rhythmic expression in a tissue-specific manner. The peak phases of rhythmic gene expression clustered around dawn and dusk, with a "quiescent period" during early night. Our findings also unveil a different temporal organization of central and peripheral tissues between diurnal and nocturnal animals.

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