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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Veröffentlicht in:	PloS one 2016-02, Vol.11 (2), p.e0149853-e0149853
Hauptverfasser:	Taskesen, Erdogan, Reinders, Marcel J T
Format:	Artikel
Sprache:	eng
Schlagworte:	Algorithms Bioinformatics Biology and Life Sciences Brain Cluster analysis Clustering Consortia Databases, Genetic Embedding Female Gene expression Genomics Human tissues Humans Male Medicine and Health Sciences Multidimensional scaling Organ Specificity Physical Sciences Principal components analysis Research and Analysis Methods Ribonucleic acid RNA Scaling Social Sciences Stochasticity Tissues Transcription (Genetics) Transcriptome
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Zusammenfassung:	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.
ISSN:	1932-6203 1932-6203
DOI:	10.1371/journal.pone.0149853