How gut microbiome research needs to move forward. Going multi-omics, getting to causality, rigorous clinical studies
www.cell.com/cell/fulltex...
@cellpress.bsky.social
www.cell.com/cell/fulltex...
@cellpress.bsky.social
March 6, 2025 at 6:04 PM
How gut microbiome research needs to move forward. Going multi-omics, getting to causality, rigorous clinical studies
www.cell.com/cell/fulltex...
@cellpress.bsky.social
www.cell.com/cell/fulltex...
@cellpress.bsky.social
Higher inflammation burden by blood biomarkers and reduced lifespan, consistent findings in 3 cohorts
www.cell.com/ajhg/fulltex...
www.cell.com/ajhg/fulltex...
Cross-omics risk scores of inflammation markers are associated with all-cause mortality: The Canadian Longitudinal Study on Aging
We developed single- and multi-omics risk scores to assess blood inflammation markers
and validated them across three cohorts. Our multi-omics models outperformed blood
markers in predicting all-cause...
www.cell.com
July 8, 2025 at 2:47 PM
Higher inflammation burden by blood biomarkers and reduced lifespan, consistent findings in 3 cohorts
www.cell.com/ajhg/fulltex...
www.cell.com/ajhg/fulltex...
www.nature.com/articles/s41...
AI-driven multi-omics modeling of myalgic encephalomyelitis/chronic fatigue syndrome
www.biorxiv.org/content/10.1...
BioMapAI: Multi-Omics-Modellierung der Myalgischen Enzephalomyelitis / des Chronischen Erschöpfungssyndroms mittels künstlicher Intelligenz
AI-driven multi-omics modeling of myalgic encephalomyelitis/chronic fatigue syndrome
www.biorxiv.org/content/10.1...
BioMapAI: Multi-Omics-Modellierung der Myalgischen Enzephalomyelitis / des Chronischen Erschöpfungssyndroms mittels künstlicher Intelligenz
AI-driven multi-omics modeling of myalgic encephalomyelitis/chronic fatigue syndrome - Nature Medicine
Analysis of a deeply phenotyped, longitudinal cohort of 249 participants elucidates the network of concurrent molecular and macroscopic patterns related to insurgence and course of ME/CFS.
www.nature.com
July 28, 2025 at 10:19 PM
www.nature.com/articles/s41...
AI-driven multi-omics modeling of myalgic encephalomyelitis/chronic fatigue syndrome
www.biorxiv.org/content/10.1...
BioMapAI: Multi-Omics-Modellierung der Myalgischen Enzephalomyelitis / des Chronischen Erschöpfungssyndroms mittels künstlicher Intelligenz
AI-driven multi-omics modeling of myalgic encephalomyelitis/chronic fatigue syndrome
www.biorxiv.org/content/10.1...
BioMapAI: Multi-Omics-Modellierung der Myalgischen Enzephalomyelitis / des Chronischen Erschöpfungssyndroms mittels künstlicher Intelligenz
Ocean-M: an integrated global-scale multi-omics database for marine microbial diversity, function and ecological interactions academic.oup.com/nar/advance-... #jcampubs 🌊
Ocean-M: an integrated global-scale multi-omics database for marine microbial diversity, function and ecological interactions
Abstract. Multi-omics analyses have significantly advanced the understanding of complex marine microbial communities and their interactions. Despite notabl
academic.oup.com
November 1, 2025 at 7:35 AM
Ocean-M: an integrated global-scale multi-omics database for marine microbial diversity, function and ecological interactions academic.oup.com/nar/advance-... #jcampubs 🌊
The Future of NGS and Multi-Omics: An Integrated Sequencing Platform open.substack.com/pub/albertvi...
The Future of NGS and Multi-Omics: An Integrated Sequencing Platform
Introduction
open.substack.com
April 22, 2025 at 6:53 AM
The Future of NGS and Multi-Omics: An Integrated Sequencing Platform open.substack.com/pub/albertvi...
Update I'm back in France 🇫🇷! Joining Inserm to build a multi-omics team on retinal development, at the nexus of live imaging, omics & human embryology.
Huge thanks to CZ Biohub SF folks, esp. my mentor, friend & science soulmate @loicaroyer.bsky.social for the amazing time. More cool science soon🧪
Huge thanks to CZ Biohub SF folks, esp. my mentor, friend & science soulmate @loicaroyer.bsky.social for the amazing time. More cool science soon🧪
October 1, 2025 at 12:13 PM
Update I'm back in France 🇫🇷! Joining Inserm to build a multi-omics team on retinal development, at the nexus of live imaging, omics & human embryology.
Huge thanks to CZ Biohub SF folks, esp. my mentor, friend & science soulmate @loicaroyer.bsky.social for the amazing time. More cool science soon🧪
Huge thanks to CZ Biohub SF folks, esp. my mentor, friend & science soulmate @loicaroyer.bsky.social for the amazing time. More cool science soon🧪
NGS and Multi-Omics November 2024 update. News from Illumina, Complete Genomics, PacBio, Element Bio and Singular Genomics open.substack.com/pub/albertvi...
NGS and Multi-Omics November 2024 update
News from Illumina, Complete Genomics, PacBio, Element Bio and Singular Genomics
open.substack.com
November 15, 2024 at 8:56 PM
NGS and Multi-Omics November 2024 update. News from Illumina, Complete Genomics, PacBio, Element Bio and Singular Genomics open.substack.com/pub/albertvi...
Multi-omics with A.I. analytics demonstrates critical role of the gut microbiome and immune response and enables accurate diagnosis of ME/CFS, may also be applicable to Long Covid.
www.nature.com/articles/s41...
www.ft.com/content/9cdf...
www.nature.com/articles/s41...
www.ft.com/content/9cdf...
AI-driven multi-omics modeling of myalgic encephalomyelitis/chronic fatigue syndrome - Nature Medicine
Analysis of a deeply phenotyped, longitudinal cohort of 249 participants elucidates the network of concurrent molecular and macroscopic patterns related to insurgence and course of ME/CFS.
www.nature.com
July 25, 2025 at 4:08 PM
Multi-omics with A.I. analytics demonstrates critical role of the gut microbiome and immune response and enables accurate diagnosis of ME/CFS, may also be applicable to Long Covid.
www.nature.com/articles/s41...
www.ft.com/content/9cdf...
www.nature.com/articles/s41...
www.ft.com/content/9cdf...
Integrating multi-omics technologies to decipher microbiome functions
#microbiology #microbiome #omics #MicroSky
@natcomms.nature.com
www.nature.com/articles/s41...
#microbiology #microbiome #omics #MicroSky
@natcomms.nature.com
www.nature.com/articles/s41...
Integrating multi-omics technologies to decipher microbiome functions - Nature Communications
In this Perspective, the authors discuss recent advances in multi-omics microbiome research, outlining key obstacles in data integration and metadata harmonization, and proposing a roadmap for scalabl...
www.nature.com
September 12, 2026 at 10:51 AM
Integrating multi-omics technologies to decipher microbiome functions
#microbiology #microbiome #omics #MicroSky
@natcomms.nature.com
www.nature.com/articles/s41...
#microbiology #microbiome #omics #MicroSky
@natcomms.nature.com
www.nature.com/articles/s41...
Spatial multi-omics reveals cell-type-specific nuclear compartments @nature.com
www.nature.com/articles/s41...
www.nature.com/articles/s41...
April 9, 2025 at 4:52 PM
Spatial multi-omics reveals cell-type-specific nuclear compartments @nature.com
www.nature.com/articles/s41...
www.nature.com/articles/s41...
A Drosophila single-cell 3D spatiotemporal multi-omics atlas unveils panoramic key regulators of cell-type differentiation: Cell
1/2
www.cell.com/cell/abstrac...
1/2
www.cell.com/cell/abstrac...
A Drosophila single-cell 3D spatiotemporal multi-omics atlas unveils panoramic key regulators of cell-type differentiation
This work introduces Flysta3D-v2, a 3D spatiotemporal multi-omics database that spans
Drosophila development from embryogenesis to metamorphosis. Through the integration
of multimodal data, we detail ...
www.cell.com
June 28, 2025 at 5:57 AM
A Drosophila single-cell 3D spatiotemporal multi-omics atlas unveils panoramic key regulators of cell-type differentiation: Cell
1/2
www.cell.com/cell/abstrac...
1/2
www.cell.com/cell/abstrac...
@biorxivpreprint.bsky.social Multi-omics reveals a monocyte-macrophage-fibroblast axis in post-COVID-19 fibroinflammatory lung remodelling
www.biorxiv.org/content/10.6...
www.biorxiv.org/content/10.6...
September 18, 2026 at 2:28 AM
@biorxivpreprint.bsky.social Multi-omics reveals a monocyte-macrophage-fibroblast axis in post-COVID-19 fibroinflammatory lung remodelling
www.biorxiv.org/content/10.6...
www.biorxiv.org/content/10.6...
MLOmics: Cancer Multi-Omics Database for Machine Learning 🧪 🧬🖥️ www.nature.com/articles/s41...
MLOmics: Cancer Multi-Omics Database for Machine Learning - Scientific Data
Scientific Data - MLOmics: Cancer Multi-Omics Database for Machine Learning
www.nature.com
May 31, 2025 at 7:13 AM
MLOmics: Cancer Multi-Omics Database for Machine Learning 🧪 🧬🖥️ www.nature.com/articles/s41...
Spatial multi-omics has just gone to the next level!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
—Integration of 5 omic modalities w/ spatial resolution at 20 -50 μm
—"a new era for characterizing tissue & cellular heterogeneity that single-modality studies alone could not reveal"
www.nature.com/articles/s41...
www.nature.com/articles/s41...
—Integration of 5 omic modalities w/ spatial resolution at 20 -50 μm
—"a new era for characterizing tissue & cellular heterogeneity that single-modality studies alone could not reveal"
January 27, 2025 at 11:26 PM
Spatial multi-omics has just gone to the next level!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
—Integration of 5 omic modalities w/ spatial resolution at 20 -50 μm
—"a new era for characterizing tissue & cellular heterogeneity that single-modality studies alone could not reveal"
www.nature.com/articles/s41...
www.nature.com/articles/s41...
—Integration of 5 omic modalities w/ spatial resolution at 20 -50 μm
—"a new era for characterizing tissue & cellular heterogeneity that single-modality studies alone could not reveal"
Multi-Omics Factor Analysis (MOFA) has become pretty widely used as a first-line tool to look at multi-modal (omics) data from multiple samples.
The method's algorithm is clearly valuable, but I'm starting to realize that for many users, just as valuable is ... (1/2)
biofam.github.io/MOFA2/
The method's algorithm is clearly valuable, but I'm starting to realize that for many users, just as valuable is ... (1/2)
biofam.github.io/MOFA2/
MOFA
Multi-Omics Factor Analysis
biofam.github.io
December 18, 2024 at 1:01 PM
Multi-Omics Factor Analysis (MOFA) has become pretty widely used as a first-line tool to look at multi-modal (omics) data from multiple samples.
The method's algorithm is clearly valuable, but I'm starting to realize that for many users, just as valuable is ... (1/2)
biofam.github.io/MOFA2/
The method's algorithm is clearly valuable, but I'm starting to realize that for many users, just as valuable is ... (1/2)
biofam.github.io/MOFA2/
The (close) future: the need for multi-omics in #cancer research 🧪👇
Earlier this year, we published an article in Cancer Discovery discussing six hallmarks of precancer and highlighting the need for a multi-omics approach to research in this area. aacrjournals.org/cancerdiscov...
Would love to connect with others working in this area!
Would love to connect with others working in this area!
The Hallmarks of Precancer
Summary:. Research on precancers, as defined as at-risk tissues and early lesions, is of high significance given the effectiveness of early intervention. We discuss the need for risk stratification to...
aacrjournals.org
November 20, 2024 at 12:14 AM
The (close) future: the need for multi-omics in #cancer research 🧪👇
🚨 We're hiring! 🚨 The Ewald Lab at EMBL-EBI is looking for a postdoctoral researcher in multi-omics, machine learning, and predictive toxicology to analyze a groundbreaking toxicology dataset as part of the OASIS Consortium.
More details & application here: lnkd.in/eHD7DMdX
More details & application here: lnkd.in/eHD7DMdX
March 5, 2025 at 5:31 PM
🚨 We're hiring! 🚨 The Ewald Lab at EMBL-EBI is looking for a postdoctoral researcher in multi-omics, machine learning, and predictive toxicology to analyze a groundbreaking toxicology dataset as part of the OASIS Consortium.
More details & application here: lnkd.in/eHD7DMdX
More details & application here: lnkd.in/eHD7DMdX
MUUMI: an R package for statistical and network-based meta-analysis for MUlti-omics data Integration www.biorxiv.org/content/10....
March 18, 2025 at 1:45 PM
MUUMI: an R package for statistical and network-based meta-analysis for MUlti-omics data Integration www.biorxiv.org/content/10....
🌱🧬 "Advances in seed omics" now published in its complete form @jxbotany.bsky.social
doi.org/10.1093/jxb/...
Covers how omics tech are revolutionising seed research - single-cell and multi-omics integration towards climate-resilient crops.
La Trobe (@lewseylab.bsky.social) and Zhejiang Uni.
doi.org/10.1093/jxb/...
Covers how omics tech are revolutionising seed research - single-cell and multi-omics integration towards climate-resilient crops.
La Trobe (@lewseylab.bsky.social) and Zhejiang Uni.
September 25, 2025 at 3:02 AM
🌱🧬 "Advances in seed omics" now published in its complete form @jxbotany.bsky.social
doi.org/10.1093/jxb/...
Covers how omics tech are revolutionising seed research - single-cell and multi-omics integration towards climate-resilient crops.
La Trobe (@lewseylab.bsky.social) and Zhejiang Uni.
doi.org/10.1093/jxb/...
Covers how omics tech are revolutionising seed research - single-cell and multi-omics integration towards climate-resilient crops.
La Trobe (@lewseylab.bsky.social) and Zhejiang Uni.
An @nature paper presents a single-cell multi-omics atlas of eight rice organs. Insights emerging from this resource include new cell states during rice development and correlations between cell type and agronomic traits.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
A single-cell multi-omics atlas of rice - Nature
A single-cell multi-omics atlas of rice is revealed, providing insight into cell-type functions and molecular programs.
www.nature.com
July 24, 2025 at 5:32 PM
An @nature paper presents a single-cell multi-omics atlas of eight rice organs. Insights emerging from this resource include new cell states during rice development and correlations between cell type and agronomic traits.
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Nature research paper: Spatial multi-omics reveals cell-type-specific nuclear compartments
https://go.nature.com/4jngJJB
https://go.nature.com/4jngJJB
Spatial multi-omics reveals cell-type-specific nuclear compartments - Nature
A genomic barcoding scheme called two-layer DNA seqFISH+ enables the simultaneous mapping of more than 100,000 loci and has been used to identify cell-type-specific subnuclear compartments in the mouse brain.
go.nature.com
April 10, 2025 at 9:47 AM
Nature research paper: Spatial multi-omics reveals cell-type-specific nuclear compartments
https://go.nature.com/4jngJJB
https://go.nature.com/4jngJJB
Multi-omic underpinnings of Alzheimer's disease promote inflammation (particularly via T cells)whereas those for stroke relate to vascular integrity @cp-neuron.bsky.social
www.cell.com/neuron/abstr...
www.cell.com/neuron/abstr...
Human brain vascular multi-omics elucidates disease-risk associations
Reid et al. develop MultiVINE-seq to map thousands of non-coding disease variants
to genes in human brain vascular cells. Cerebrovascular disease variants compromise
vessel integrity, whereas Alzheime...
www.cell.com
July 28, 2025 at 3:04 PM
Multi-omic underpinnings of Alzheimer's disease promote inflammation (particularly via T cells)whereas those for stroke relate to vascular integrity @cp-neuron.bsky.social
www.cell.com/neuron/abstr...
www.cell.com/neuron/abstr...
Virus in manchen Fällen die Voraussetzungen für Long COVID schaffen kann. „Die Integration von Multi-Omics-Daten ermöglichte uns einen umfassenden Überblick über die Immunlandschaft bei Long COVID und erlaubte uns, wichtige Signalwege zu identifizieren, die therapeutisch
January 3, 2026 at 6:05 PM
Virus in manchen Fällen die Voraussetzungen für Long COVID schaffen kann. „Die Integration von Multi-Omics-Daten ermöglichte uns einen umfassenden Überblick über die Immunlandschaft bei Long COVID und erlaubte uns, wichtige Signalwege zu identifizieren, die therapeutisch
🧠 Excited to share my main PhD project! We mapped the regulatory rules governing Glioblastoma plasticity using single-cell multi-omics and deep learning. This work is part of a two-paper series with @bayraktarlab.bsky.social @oliverstegle.bsky.social and @moritzmall.bsky.social, Preprint at end🧵👇
May 16, 2025 at 10:05 AM
🧠 Excited to share my main PhD project! We mapped the regulatory rules governing Glioblastoma plasticity using single-cell multi-omics and deep learning. This work is part of a two-paper series with @bayraktarlab.bsky.social @oliverstegle.bsky.social and @moritzmall.bsky.social, Preprint at end🧵👇