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Computational Medicine Center Faculty Papers

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Mintbase V2.0: A Comprehensive Database For Trna-Derived Fragments That Includes Nuclear And Mitochondrial Fragments From All The Cancer Genome Atlas Projects., Venetia Pliatsika, Phillipe Loher, Rogan Magee, Aristeidis G. Telonis, Eric R. Londin, Megumi Shigematsu, Yohei Kirino, Isidore Rigoutsos Jan 2018

Mintbase V2.0: A Comprehensive Database For Trna-Derived Fragments That Includes Nuclear And Mitochondrial Fragments From All The Cancer Genome Atlas Projects., Venetia Pliatsika, Phillipe Loher, Rogan Magee, Aristeidis G. Telonis, Eric R. Londin, Megumi Shigematsu, Yohei Kirino, Isidore Rigoutsos

Computational Medicine Center Faculty Papers

MINTbase is a repository that comprises nuclear and mitochondrial tRNA-derived fragments ('tRFs') found in multiple human tissues. The original version of MINTbase comprised tRFs obtained from 768 transcriptomic datasets. We used our deterministic and exhaustive tRF mining pipeline to process all of The Cancer Genome Atlas datasets (TCGA). We identified 23 413 tRFs with abundance of ≥ 1.0 reads-per-million (RPM). To facilitate further studies of tRFs by the community, we just released version 2.0 of MINTbase that contains information about 26 531 distinct human tRFs from 11 719 human datasets as of October 2017. Key new elements include: the ...