Machine learning: its challenges and opportunities in plant system biology

M Hesami, M Alizadeh, AMP Jones… - Applied Microbiology and …, 2022 - Springer
Sequencing technologies are evolving at a rapid pace, enabling the generation of massive
amounts of data in multiple dimensions (eg, genomics, epigenomics, transcriptomic …

Machine learning for big data analytics in plants

C Ma, HH Zhang, X Wang - Trends in plant science, 2014 - cell.com
Rapid advances in high-throughput genomic technology have enabled biology to enter the
era of 'Big Data'(large datasets). The plant science community not only needs to build its …

Charting plant gene functions in the multi-omics and single-cell era

T Depuydt, B De Rybel, K Vandepoele - Trends in Plant Science, 2023 - cell.com
Despite the increased access to high-quality plant genome sequences, the set of genes with
a known function remains far from complete. With the advent of novel bulk and single-cell …

Machine learning approaches and their current application in plant molecular biology: A systematic review

JCF Silva, RM Teixeira, FF Silva… - Plant Science, 2019 - Elsevier
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 …

[HTML][HTML] Machine learning approaches for crop improvement: Leveraging phenotypic and genotypic big data

H Tong, Z Nikoloski - Journal of plant physiology, 2021 - Elsevier
Highly efficient and accurate selection of elite genotypes can lead to dramatic shortening of
the breeding cycle in major crops relevant for sustaining present demands for food, feed …

Systematic multi-omics integration (MOI) approach in plant systems biology

IN Jamil, J Remali, KA Azizan… - Frontiers in plant …, 2020 - frontiersin.org
Across all facets of biology, the rapid progress in high-throughput data generation has
enabled us to perform multi-omics systems biology research. Transcriptomics, proteomics …

Systems biology for crop improvement

LT Pazhamala, H Kudapa, W Weckwerth… - The plant …, 2021 - Wiley Online Library
In recent years, generation of large‐scale data from genome, transcriptome, proteome,
metabolome, epigenome, and others, has become routine in several plant species. Most of …

Integrated omics approaches in plant systems biology

A Fukushima, M Kusano, H Redestig, M Arita… - Current opinion in …, 2009 - Elsevier
Understanding cellular metabolic systems is vital not only for determining the function of
enzymatic genes, but also for elucidating the coordination among various metabolic …

OmicsSuite: a customized and pipelined suite for analysis and visualization of multi-omics big data

BB Miao, W Dong, YX Gu, ZF Han, X Luo… - Horticulture …, 2023 - academic.oup.com
With the advancements in high-throughput sequencing technologies such as Illumina,
PacBio, and 10X Genomics platforms, and gas/liquid chromatography-mass spectrometry …

Advances in omics and bioinformatics tools for systems analyses of plant functions

K Mochida, K Shinozaki - Plant and Cell Physiology, 2011 - academic.oup.com
Omics and bioinformatics are essential to understanding the molecular systems that underlie
various plant functions. Recent game-changing sequencing technologies have revitalized …