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Machine learning: its challenges and opportunities in plant system biology
Sequencing technologies are evolving at a rapid pace, enabling the generation of massive
amounts of data in multiple dimensions (eg, genomics, epigenomics, transcriptomic …
amounts of data in multiple dimensions (eg, genomics, epigenomics, transcriptomic …
Data integration and predictive modeling methods for multi-omics datasets
M Kim, I Tagkopoulos - Molecular omics, 2018 - pubs.rsc.org
Translating data to knowledge and actionable insights is the Holy Grail for many scientific
fields, including biology. The unprecedented massive and heterogeneous data have created …
fields, including biology. The unprecedented massive and heterogeneous data have created …
Deep learning suggests that gene expression is encoded in all parts of a co-evolving interacting gene regulatory structure
Understanding the genetic regulatory code governing gene expression is an important
challenge in molecular biology. However, how individual coding and non-coding regions of …
challenge in molecular biology. However, how individual coding and non-coding regions of …
Recognition of prokaryotic and eukaryotic promoters using convolutional deep learning neural networks
RK Umarov, VV Solovyev - PloS one, 2017 - journals.plos.org
Accurate computational identification of promoters remains a challenge as these key DNA
regulatory regions have variable structures composed of functional motifs that provide gene …
regulatory regions have variable structures composed of functional motifs that provide gene …
iProEP: a computational predictor for predicting promoter
Promoter is a fundamental DNA element located around the transcription start site (TSS) and
could regulate gene transcription. Promoter recognition is of great significance in …
could regulate gene transcription. Promoter recognition is of great significance in …
Identification of promoter regions and regulatory sites
VV Solovyev, IA Shahmuradov, AA Salamov - Computational biology of …, 2010 - Springer
Promoter sequences are the main regulatory elements of gene expression. Their recognition
by computer algorithms is fundamental for understanding gene expression patterns, cell …
by computer algorithms is fundamental for understanding gene expression patterns, cell …
Machine learning approaches and their current application in plant molecular biology: A systematic review
Abstract Machine learning (ML) is a field of artificial intelligence that has rapidly emerged in
molecular biology, thus allowing the exploitation of Big Data concepts in plant genomics. In …
molecular biology, thus allowing the exploitation of Big Data concepts in plant genomics. In …
Artificial miRNAs: A potential tool for genetic improvement of horticultural crops
Gene silencing by artificial microRNAs (amiRNAs) is one of the most crucial methods for the
development of desired horticultural plants. amiRNAs are highly specific, around 21 nt long …
development of desired horticultural plants. amiRNAs are highly specific, around 21 nt long …
Critical assessment of computational tools for prokaryotic and eukaryotic promoter prediction
Promoters are crucial regulatory DNA regions for gene transcriptional activation. Rapid
advances in next-generation sequencing technologies have accelerated the accumulation …
advances in next-generation sequencing technologies have accelerated the accumulation …