2D Representation of Transcriptomes by t-SNE Exposes Relatedness between Human Tissues

The GTEx Consortium reported that hierarchical clustering of RNA profiles from 25 unique tissue types among 1641 individuals accurately distinguished the tissue types, but a multidimensional scaling failed to generate a 2D projection of the data that separates tissue-subtypes. In this study we show...

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Detalles Bibliográficos
Autores principales: Taskesen, Erdogan, Reinders, Marcel J. T.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2016
Materias:
Research Article
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4764374/
https://www.ncbi.nlm.nih.gov/pubmed/26906061
http://dx.doi.org/10.1371/journal.pone.0149853
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author Taskesen, Erdogan
Reinders, Marcel J. T.
author_facet Taskesen, Erdogan
Reinders, Marcel J. T.
author_sort Taskesen, Erdogan
collection PubMed
description The GTEx Consortium reported that hierarchical clustering of RNA profiles from 25 unique tissue types among 1641 individuals accurately distinguished the tissue types, but a multidimensional scaling failed to generate a 2D projection of the data that separates tissue-subtypes. In this study we show that a projection by t-Distributed Stochastic Neighbor Embedding is in line with the cluster analysis which allows a more detailed examination and visualization of human tissue relationships.
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spelling pubmed-47643742016-03-07 2D Representation of Transcriptomes by t-SNE Exposes Relatedness between Human Tissues Taskesen, Erdogan Reinders, Marcel J. T. PLoS One Research Article The GTEx Consortium reported that hierarchical clustering of RNA profiles from 25 unique tissue types among 1641 individuals accurately distinguished the tissue types, but a multidimensional scaling failed to generate a 2D projection of the data that separates tissue-subtypes. In this study we show that a projection by t-Distributed Stochastic Neighbor Embedding is in line with the cluster analysis which allows a more detailed examination and visualization of human tissue relationships. Public Library of Science 2016-02-23 /pmc/articles/PMC4764374/ /pubmed/26906061 http://dx.doi.org/10.1371/journal.pone.0149853 Text en © 2016 Taskesen, Reinders http://creativecommons.org/licenses/by/4.0/ This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
spellingShingle Research Article
Taskesen, Erdogan
Reinders, Marcel J. T.
2D Representation of Transcriptomes by t-SNE Exposes Relatedness between Human Tissues
title 2D Representation of Transcriptomes by t-SNE Exposes Relatedness between Human Tissues
title_full 2D Representation of Transcriptomes by t-SNE Exposes Relatedness between Human Tissues
title_fullStr 2D Representation of Transcriptomes by t-SNE Exposes Relatedness between Human Tissues
title_full_unstemmed 2D Representation of Transcriptomes by t-SNE Exposes Relatedness between Human Tissues
title_short 2D Representation of Transcriptomes by t-SNE Exposes Relatedness between Human Tissues
title_sort 2d representation of transcriptomes by t-sne exposes relatedness between human tissues
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4764374/
https://www.ncbi.nlm.nih.gov/pubmed/26906061
http://dx.doi.org/10.1371/journal.pone.0149853
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