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Integration of Tran...
Integration of Transcriptomics and Antibody-Based Proteomics for Exploration of Proteins Expressed in Specialized Tissues
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- Sjöstedt, Evelina (author)
- Uppsala universitet,KTH,Science for Life Laboratory, SciLifeLab,Systembiologi,Science for Life Laboratory, SciLifeLab,Klinisk och experimentell patologi,KTH Royal Inst Technol, Sch Engn Sci Chem Biotechnol & Hlth, Sci Life Lab, SE-17121 Stockholm, Sweden
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- Sivertsson, Åsa (author)
- KTH,Systembiologi,KTH Royal Inst Technol, Sch Engn Sci Chem Biotechnol & Hlth, Sci Life Lab, SE-17121 Stockholm, Sweden
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- Noraddin, Feria Hikmet (author)
- Uppsala universitet,Klinisk och experimentell patologi,Science for Life Laboratory, SciLifeLab
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- Katona, Borbala (author)
- Uppsala universitet,Science for Life Laboratory, SciLifeLab,Klinisk och experimentell patologi
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- Näsström, Åsa (author)
- Uppsala universitet,Institutionen för immunologi, genetik och patologi,Science for Life Laboratory, SciLifeLab
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- Vuu, Jimmy (author)
- Uppsala universitet,Klinisk och experimentell patologi,Science for Life Laboratory, SciLifeLab
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- Kesti, Dennis (author)
- Uppsala universitet,Klinisk och experimentell patologi,Science for Life Laboratory, SciLifeLab
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- Oksvold, Per (author)
- KTH,Science for Life Laboratory, SciLifeLab,KTH Royal Inst Technol, Sch Engn Sci Chem Biotechnol & Hlth, Sci Life Lab, SE-17121 Stockholm, Sweden
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- Edqvist, Per-Henrik D (author)
- Uppsala universitet,Experimentell och klinisk onkologi,Science for Life Laboratory, SciLifeLab
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- Olsson, Ingmarie (author)
- Uppsala universitet,Science for Life Laboratory, SciLifeLab,Klinisk och experimentell patologi
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- Uhlén, Mathias (author)
- KTH,Science for Life Laboratory, SciLifeLab,Systembiologi,KTH Royal Inst Technol, Sch Engn Sci Chem Biotechnol & Hlth, Sci Life Lab, SE-17121 Stockholm, Sweden
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- Lindskog, Cecilia (author)
- Uppsala universitet,Science for Life Laboratory, SciLifeLab,Klinisk och experimentell patologi
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(creator_code:org_t)
- 2018-10-01
- 2018
- English.
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In: Journal of Proteome Research. - : American Chemical Society (ACS). - 1535-3893 .- 1535-3907. ; 17:12, s. 4127-4137
- Related links:
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https://urn.kb.se/re...
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https://doi.org/10.1...
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https://urn.kb.se/re...
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Abstract
Subject headings
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- A large portion of human proteins are referred to as missing proteins, defined as protein-coding genes that lack experimental data on the protein level due to factors such as temporal expression, expression in tissues that are difficult to sample, or they actually do not encode functional proteins. In the present investigation, an integrated omics approach was used for identification and exploration of missing proteins. Transcriptomics data from three different sourcesthe Human Protein Atlas (HPA), the GTEx consortium, and the FANTOM5 consortiumwere used as a starting point to identify genes selectively expressed in specialized tissues. Complementing the analysis with profiling on more specific tissues based on immunohistochemistry allowed for further exploration of cell-type-specific expression patterns. More detailed tissue profiling was performed for >300 genes on complementing tissues. The analysis identified tissue-specific expression of nine proteins previously listed as missing proteins (POU4F1, FRMD1, ARHGEF33, GABRG1, KRTAP2-1, BHLHE22, SPRR4, AVPR1B, and DCLK3), as well as numerous proteins with evidence of existence on the protein level that previously lacked information on spatial resolution and cell-type- specific expression pattern. We here present a comprehensive strategy for identification of missing proteins by combining transcriptomics with antibody-based proteomics. The analyzed proteins provide interesting targets for organ-specific research in health and disease.
Subject headings
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinsk bioteknologi -- Medicinsk bioteknologi (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Medical Biotechnology -- Medical Biotechnology (hsv//eng)
- NATURVETENSKAP -- Biologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences (hsv//eng)
- NATURVETENSKAP -- Biologi -- Biokemi och molekylärbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biochemistry and Molecular Biology (hsv//eng)
Keyword
- missing proteins
- transcriptomics
- proteomics
- protein localization
- immunohistochemistry
- antibodies
- tissue profiling
- Biotechnology
- Bioteknologi
Publication and Content Type
- ref (subject category)
- art (subject category)
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- By the author/editor
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Sjöstedt, Evelin ...
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Sivertsson, Åsa
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Noraddin, Feria ...
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Katona, Borbala
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Näsström, Åsa
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Vuu, Jimmy
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show more...
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Kesti, Dennis
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Oksvold, Per
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Edqvist, Per-Hen ...
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Olsson, Ingmarie
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Uhlén, Mathias
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Lindskog, Cecili ...
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- About the subject
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- MEDICAL AND HEALTH SCIENCES
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MEDICAL AND HEAL ...
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and Medical Biotechn ...
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and Medical Biotechn ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Biochemistry and ...
- Articles in the publication
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Journal of Prote ...
- By the university
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Royal Institute of Technology
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Uppsala University