Kim-Anh Le Cao

Time-course analysis of metabolomic and microbial responses in anaerobic digesters exposed to ammonia

Olivier Chapleur, Simon Poirier, Angeline Guenne, Kim-Anh Le Cao

Journal article  |  2021  |  CHEMOSPHERE

Omics longitudinal studies are effective experimental designs to inform on the stability and dynamics of microbial communities in ..

A field guide to cultivating computational biology.

Gregory P Way, Casey S Greene, Piero Carninci, Benilton S Carvalho, Michiel de Hoon, Stacey Finley, Sara JC Gosline, Kim-Anh Lȇ Cao, Jerry SH Lee, Luigi Marchionni, Nicolas Robine, Suzanne S Sindi, Fabian J Theis, Jean YH Yang, Anne E Carpenter, Elana J Fertig

Journal article  |  2021  |  PLoS Biol

Evolving in sync with the computation revolution over the past 30 years, computational biology has emerged as a mature scientific ..

Community-wide hackathons to identify central themes in single-cell multi-omics (vol 22, 220, 2021)

Kim-Anh Le Cao, Al J Abadi, Emily F Davis-Marcisak, Lauren Hsu, Arshi Arora, Alexis Coullomb, Atul Deshpande, Yuzhou Feng, Pratheepa Jeganathan, Melanie Loth, Chen Meng, Wancen Mu, Vera Pancaldi, Kris Sankaran, Dario Righelli, Amrit Singh, Joshua S Sodicoff, Genevieve L Stein-O'Brien, Ayshwarya Subramanian, Joshua D Welch, et al.

Journal article  |  2021  |  GENOME BIOLOGY

Following publication of the original article [1], the authors identified that author Dario Righelli had erroneously been omitted ..

An integrated analysis of human myeloid cells identifies gaps in in vitro models of in vivo biology

Nadia Rajab, Paul W Angel, Yidi Deng, Jennifer Gu, Vanta Jameson, Mariola Kurowska-Stolarska, Simon Milling, Chris M Pacheco, Matt Rutar, Andrew L Laslett, Kim-Anh Le Cao, Jarny Choi, Christine A Wells

Journal article  |  2021  |  STEM CELL REPORTS

The Stemformatics myeloid atlas is an integrated transcriptome atlas of human macrophages and dendritic cells that systematically ..

A multi-modal data harmonisation approach for discovery of COVID-19 drug targets.

Tyrone Chen, Melcy Philip, Kim-Anh Lê Cao, Sonika Tyagi

Journal article  |  2021  |  Brief Bioinform

Despite the volume of experiments performed and data available, the complex biology of coronavirus SARS-COV-2 is not yet fully und..

Streptococcus species enriched in the oral cavity of patients with RA are a source of peptidoglycan-polysaccharide polymers that can induce arthritis in mice

Rabia Moentadj, Yiwen Wang, Kate Bowerman, Linda Rehaume, Hendrik Nel, Paraic Cuiv, Juliette Stephens, Amalina Baharom, Muralidhara Maradana, Vanessa Lakis, Mark Morrison, Timothy Wells, Philip Hugenholtz, Helen Benham, Kim-Anh Le Cao, Ranjeny Thomas

Journal article  |  2021  |  ANNALS OF THE RHEUMATIC DISEASES

OBJECTIVES: Analysis of oral dysbiosis in individuals sharing genetic and environmental risk factors with rheumatoid arthritis (RA..

An integrated metagenomics and metabolomics approach implicates the microbiota-gut-brain axis in the pathogenesis of Huntington's disease

Geraldine Kong, Susan Ellul, Vinod K Narayana, Komal Kanojia, Harvey Tran Thai Ha, Shanshan Li, Thibault Renoir, Le Cao Kim-Anh, Anthony J Hannan

Journal article  |  2021  |  NEUROBIOLOGY OF DISEASE

BACKGROUND: Huntington's disease (HD) is an autosomal dominant neurodegenerative disorder with onset and severity of symptoms infl..

Multi-Omic Data Integration Allows Baseline Immune Signatures to Predict Hepatitis B Vaccine Response in a Small Cohort

Casey P Shannon, Travis M Blimkie, Rym Ben-Othman, Nicole Gladish, Nelly Amenyogbe, Sibyl Drissler, Rachel D Edgar, Queenie Chan, Mel Krajden, Leonard J Foster, Michael S Kobor, William W Mohn, Ryan R Brinkman, Kim-Anh Le Cao, Richard H Scheuermann, Scott J Tebbutt, Robert Ew Hancock, Wayne C Koff, Tobias R Kollmann, Manish Sadarangani, et al.

Journal article  |  2020  |  FRONTIERS IN IMMUNOLOGY

Background: Vaccination remains one of the most effective means of reducing the burden of infectious diseases globally. Improving ..

Integrating independent microbial studies to build predictive models of anaerobic digestion inhibition by ammonia and phenol.

Simon Poirier, Sébastien Déjean, Cédric Midoux, Kim-Anh Lê Cao, Olivier Chapleur

Journal article  |  2020  |  Bioresource Technology

Anaerobic digestion (AD) is a process that can efficiently degrade organic waste into renewable energies. AD failure is however co..

Managing batch effects in microbiome data

Yiwen Wang, Kim-Anh Lecao

Journal article  |  2020  |  BRIEFINGS IN BIOINFORMATICS

Microbial communities have been increasingly studied in recent years to investigate their role in ecological habitats. However, mi..