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Genome-wide single ...
Genome-wide single cell annotation of the human protein-coding genes
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- Karlsson, Max (author)
- KTH,Proteinvetenskap
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- Alvez, Maria Bueno (author)
- KTH,Proteinvetenskap
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- Shi, Mengnan (author)
- KTH,Proteinvetenskap
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show more...
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- Zhang, Cheng (author)
- KTH,Proteinvetenskap
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Méar, Loren (author)
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- Zhong, Wen (author)
- KTH,Proteinvetenskap
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Schutten, Rutger (author)
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Hikmet, Feria (author)
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Digre, Andreas (author)
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Katona, Borbala (author)
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Vuu, Jimmy (author)
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Sjöstedt, Evelina (author)
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Bosic, Martina (author)
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- Edfors, Fredrik (author)
- KTH,Proteinvetenskap
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- Oksvold, Per (author)
- KTH,Proteinvetenskap
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- von Feilitzen, Kalle (author)
- KTH,Proteinvetenskap
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- Zwahlen, Martin (author)
- KTH,Proteinvetenskap
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- Forsberg, Mattias (author)
- KTH,Proteinvetenskap
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- Johansson, Fredric (author)
- KTH,Proteinvetenskap
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Mulder, Jan (author)
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- Mardinoglu, Adil (author)
- KTH,Proteinvetenskap
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- Sivertsson, Åsa (author)
- KTH,Proteinvetenskap
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Ponten, Fredrik (author)
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Lindskog, Cecilia (author)
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- Fagerberg, Linn (author)
- KTH,Proteinvetenskap
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- Uhlén, Mathias (author)
- KTH,Proteinvetenskap
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(creator_code:org_t)
- English.
- Related links:
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https://urn.kb.se/re...
Abstract
Subject headings
Close
- An important quest for the life science community is to deliver a complete annotation of the human building-blocks of life, the genes and the proteins. Here, we report on a genome-wide effort to annotate all protein-coding genes based on single cell transcriptomics data representing all major tissues and organs in the human body, integrated with data from bulk transcriptomics and antibody-based tissue profiling. Altogether, 25 tissues have been analyzed with single cell transcriptomics resulting in genome-wide expression in 444 single cell types using a strategy involving pooling data from individual cells to obtain genome-wide expression profiles of individual cell type. We introduce a new genome-wide classification tool based on clustering of similar expression profiles across single cell types, which can be visualized using dimensional reduction maps (UMAP). The clustering classification is integrated with a new “tau” score classification for all protein-coding genes, resulting in a measure of single cell specificity across all cell types for all individual genes. The analysis has allowed us to annotate all human protein-coding genes with regards to function and spatial distribution across individual cell types across all major tissues and organs in the human body. A new version of the open access Human Protein Atlas (www.proteinatlas.org) has been launched to enable researchers to explore the new genome-wide annotation on an individual gene level.
Subject headings
- NATURVETENSKAP -- Biologi -- Bioinformatik och systembiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Bioinformatics and Systems Biology (hsv//eng)
Keyword
- protein
- annotation
- clustering
- specificity
- tissue
- single-cell
- RNA-Seq
- scRNA-Seq
- Biotechnology
- Bioteknologi
Publication and Content Type
- vet (subject category)
- ovr (subject category)
To the university's database
- By the author/editor
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Karlsson, Max
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Alvez, Maria Bue ...
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Shi, Mengnan
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Zhang, Cheng
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Méar, Loren
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Zhong, Wen
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show more...
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Schutten, Rutger
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Hikmet, Feria
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Digre, Andreas
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Katona, Borbala
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Vuu, Jimmy
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Sjöstedt, Evelin ...
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Bosic, Martina
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Edfors, Fredrik
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Oksvold, Per
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von Feilitzen, K ...
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Zwahlen, Martin
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Forsberg, Mattia ...
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Johansson, Fredr ...
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Mulder, Jan
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Mardinoglu, Adil
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Sivertsson, Åsa
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Ponten, Fredrik
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Lindskog, Cecili ...
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Fagerberg, Linn
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Uhlén, Mathias
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show less...
- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Bioinformatics a ...
- By the university
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Royal Institute of Technology