Article
Modeling 0.6 million genes for the rational design of functional cis-regulatory variants and de novo design of cis-regulatory sequences.
Proceedings of the National Academy of Sciences of the United States of America - 25 Jun 2024
Li Tianyi, Xu Hui, Teng Shouzhen, Suo Mingrui, Bahitwa Revocatus, Xu Mingchi, Qian Yiheng, Ramstein Guillaume P, Song Baoxing, Buckler Edward S, Wang Hai
Abstract excerpt
Rational design of plant cis-regulatory DNA sequences without expert intervention or prior domain knowledge is still a daunting task. Here, we developed PhytoExpr, a deep learning framework capable of predicting both mRNA abundance and plant species using the proximal regulatory sequence as the sole input. PhytoExpr was trained over 17 species representative of major clades of the plant kingdom to enhance its...
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