Smart breeding driven by big data, artificial intelligence, and integrated genomic-enviromic prediction

Y Xu, X Zhang, H Li, H Zheng, J Zhang, MS Olsen… - Molecular Plant, 2022 - cell.com
The first paradigm of plant breeding involves direct selection-based phenotypic observation,
followed by predictive breeding using statistical models for quantitative traits constructed …

Artificial intelligence assists precision medicine in cancer treatment

J Liao, X Li, Y Gan, S Han, P Rong, W Wang… - Frontiers in …, 2023 - frontiersin.org
Cancer is a major medical problem worldwide. Due to its high heterogeneity, the use of the
same drugs or surgical methods in patients with the same tumor may have different curative …

A roadmap for multi-omics data integration using deep learning

M Kang, E Ko, TB Mersha - Briefings in Bioinformatics, 2022 - academic.oup.com
High-throughput next-generation sequencing now makes it possible to generate a vast
amount of multi-omics data for various applications. These data have revolutionized …

[HTML][HTML] Integration strategies of multi-omics data for machine learning analysis

M Picard, MP Scott-Boyer, A Bodein, O Périn… - Computational and …, 2021 - Elsevier
Increased availability of high-throughput technologies has generated an ever-growing
number of omics data that seek to portray many different but complementary biological …

Principles and challenges of modeling temporal and spatial omics data

B Velten, O Stegle - Nature Methods, 2023 - nature.com
Studies with temporal or spatial resolution are crucial to understand the molecular dynamics
and spatial dependencies underlying a biological process or system. With advances in high …

Missing data in multi-omics integration: Recent advances through artificial intelligence

JE Flores, DM Claborne, ZD Weller… - Frontiers in artificial …, 2023 - frontiersin.org
Biological systems function through complex interactions between various 'omics
(biomolecules), and a more complete understanding of these systems is only possible …

Multimodal deep learning approaches for single-cell multi-omics data integration

T Athaya, RC Ripan, X Li, H Hu - Briefings in Bioinformatics, 2023 - academic.oup.com
Integrating single-cell multi-omics data is a challenging task that has led to new insights into
complex cellular systems. Various computational methods have been proposed to effectively …

Unsupervised multi-omics data integration methods: a comprehensive review

N Vahabi, G Michailidis - Frontiers in genetics, 2022 - frontiersin.org
Through the developments of Omics technologies and dissemination of large-scale
datasets, such as those from The Cancer Genome Atlas, Alzheimer's Disease Neuroimaging …

Dealing with missing values in proteomics data

W Kong, HWH Hui, H Peng, WWB Goh - Proteomics, 2022 - Wiley Online Library
Proteomics data are often plagued with missingness issues. These missing values (MVs)
threaten the integrity of subsequent statistical analyses by reduction of statistical power …

Multi-omics analysis: Paving the path toward achieving precision medicine in cancer treatment and immuno-oncology

V Raufaste-Cazavieille, R Santiago… - Frontiers in Molecular …, 2022 - frontiersin.org
The acceleration of large-scale sequencing and the progress in high-throughput
computational analyses, defined as omics, was a hallmark for the comprehension of the …