Transipedia.org: k-mer-based exploration of large RNA sequencing datasets and application to cancer data
Chloé Bessière,
Haoliang Xue,
Benoit Guibert
et al.
Abstract:Indexing techniques relying on k-mers have proven effective in searching for RNA sequences across thousands of RNA-seq libraries, but without enabling direct RNA quantification. We show here that arbitrary RNA sequences can be quantified in seconds through their decomposition into k-mers, with a precision akin to that of conventional RNA quantification methods. Using an index of the Cancer Cell Line Encyclopedia (CCLE) collection consisting of 1019 RNA-seq samples, we show that k-mer indexing offers a powerful… Show more
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