Computational principles and challenges in single-cell data integration

R Argelaguet, ASE Cuomo, O Stegle… - Nature biotechnology, 2021 - nature.com
The development of single-cell multimodal assays provides a powerful tool for investigating
multiple dimensions of cellular heterogeneity, enabling new insights into development …

[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 …

Multi-omics data integration, interpretation, and its application

I Subramanian, S Verma, S Kumar… - … and biology insights, 2020 - journals.sagepub.com
To study complex biological processes holistically, it is imperative to take an integrative
approach that combines multi-omics data to highlight the interrelationships of the involved …

State of the field in multi-omics research: from computational needs to data mining and sharing

M Krassowski, V Das, SK Sahu, BB Misra - Frontiers in Genetics, 2020 - frontiersin.org
Multi-omics, variously called integrated omics, pan-omics, and trans-omics, aims to combine
two or more omics data sets to aid in data analysis, visualization and interpretation to …

Multi-omics data integration using ratio-based quantitative profiling with Quartet reference materials

Y Zheng, Y Liu, J Yang, L Dong, R Zhang, S Tian… - Nature …, 2024 - nature.com
Abstract Characterization and integration of the genome, epigenome, transcriptome,
proteome and metabolome of different datasets is difficult owing to a lack of ground truth …

Life history strategies of soil bacterial communities across global terrestrial biomes

G Piton, SD Allison, M Bahram, F Hildebrand… - Nature …, 2023 - nature.com
The life history strategies of soil microbes determine their metabolic potential and their
response to environmental changes. Yet these strategies remain poorly understood. Here …

Multi‐Omics Factor Analysis—a framework for unsupervised integration of multi‐omics data sets

R Argelaguet, B Velten, D Arnol, S Dietrich… - Molecular systems …, 2018 - embopress.org
Multi‐omics studies promise the improved characterization of biological processes across
molecular layers. However, methods for the unsupervised integration of the resulting …

Integrated omics: tools, advances and future approaches

BB Misra, C Langefeld, M Olivier… - Journal of molecular …, 2019 - jme.bioscientifica.com
With the rapid adoption of high-throughput omic approaches to analyze biological samples
such as genomics, transcriptomics, proteomics, and metabolomics, each analysis can …

Multi-omic and multi-view clustering algorithms: review and cancer benchmark

N Rappoport, R Shamir - Nucleic acids research, 2018 - academic.oup.com
Recent high throughput experimental methods have been used to collect large biomedical
omics datasets. Clustering of single omic datasets has proven invaluable for biological and …

Multi-omics integration in biomedical research–A metabolomics-centric review

MA Wörheide, J Krumsiek, G Kastenmüller… - Analytica chimica …, 2021 - Elsevier
Recent advances in high-throughput technologies have enabled the profiling of multiple
layers of a biological system, including DNA sequence data (genomics), RNA expression …