World's Best Scientists 2026 revealed!

D-Index & Metrics

Genetics

D-Index
102
Citations
54937
World Ranking
695
National Ranking
102

Research.com Recognitions

  • Member of the European Molecular Biology Organization (EMBO)
  • Member of the European Molecular Biology Organization (EMBO)

Overview

John C. Marioni is affiliated with the European Bioinformatics Institute in the United Kingdom. Their research primarily focuses on biochemistry, genetics, and molecular biology, with a total of 238 publications in this field. Within this broad domain, Marioni's work spans several subfields including molecular biology, immunology, biophysics, surgery, and pulmonary and respiratory medicine.

Their scientific contributions emphasize key topics such as single-cell and spatial transcriptomics, cell image analysis techniques, gene regulatory network analysis, congenital heart defects research, neonatal respiratory health research, gene expression and cancer classification, and immune cell function and interaction.

Marioni's frequent collaborators include Sarah A. Teichmann, Berthold Göttgens, Emma Dann, Kerstin B. Meyer, and Krzysztof Polański. These partnerships have supported a diverse publication record across various high-impact journals and platforms.

The scientist's notable publication venues include bioRxiv (Cold Spring Harbor Laboratory) with 45 publications, Nature with 9 publications, Genome biology with 8, Nature Communications with 7, and Nature Biotechnology with 5 publications.

Some of Marioni's recent papers are:

  • "Eleven grand challenges in single-cell data science," 2020, Genome biology
  • "MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell data," 2020, Genome biology
  • "Single-cell multi-omics analysis of the immune response in COVID-19," 2021, Nature Medicine
  • "Differential abundance testing on single-cell data using k-nearest neighbor graphs," 2021, Nature Biotechnology
  • "Cells of the human intestinal tract mapped across space and time," 2021, Nature

Marioni has been recognized as a member of the European Molecular Biology Organization (EMBO), acknowledging their participation in the broader molecular biology research community.

Best Publications

  • RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays

    John C. Marioni;Christopher E. Mason;Shrikant M. Mane;Matthew Stephens

  • Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors.

    Laleh Haghverdi;Aaron T L Lun;Michael D Morgan;John C Marioni;John C Marioni;John C Marioni

  • Intratumor heterogeneity in human glioblastoma reflects cancer evolutionary dynamics

    Andrea Sottoriva;Andrea Sottoriva;Andrea Sottoriva;Inmaculada Spiteri;Sara G. M. Piccirillo;Anestis Touloumis

  • The Human Cell Atlas

    Aviv Regev;Aviv Regev;Aviv Regev;Sarah A Teichmann;Sarah A Teichmann;Sarah A Teichmann;Eric S Lander;Eric S Lander;Eric S Lander;Ido Amit

  • Understanding mechanisms underlying human gene expression variation with RNA sequencing

    Joseph K. Pickrell;John C. Marioni;Athma A. Pai;Jacob F. Degner

  • A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor

    Aaron T.L. Lun;Davis J. McCarthy;John C. Marioni

  • The technology and biology of single-cell RNA sequencing.

    Aleksandra A. Kolodziejczyk;Aleksandra A. Kolodziejczyk;Jong Kyoung Kim;Valentine Svensson;John C. Marioni;John C. Marioni

  • Eleven grand challenges in single-cell data science

    David Lähnemann;David Lähnemann;Johannes Köster;Johannes Köster;Ewa Szczurek;Davis J. McCarthy;Davis J. McCarthy

  • Computational and analytical challenges in single-cell transcriptomics

    Oliver Stegle;Sarah A. Teichmann;John C. Marioni

  • Resolving the fibrotic niche of human liver cirrhosis at single cell level

    P Ramachandran;R Dobie;J R Wilson-Kanamori;E F Dora

  • Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells

    Florian Buettner;Kedar N Natarajan;Kedar N Natarajan;F Paolo Casale;Valentina Proserpio;Valentina Proserpio

  • Pooling across cells to normalize single-cell RNA sequencing data with many zero counts

    Aaron T. L. Lun;Karsten Bach;John C. Marioni;John C. Marioni;John C. Marioni

  • Accounting for technical noise in single-cell RNA-seq experiments

    Philip Brennecke;Simon Anders;Jong Kyoung Kim;Aleksandra A Kołodziejczyk;Aleksandra A Kołodziejczyk

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

    Ricard Argelaguet;Britta Velten;Damien Arnol;Sascha Dietrich

  • EmptyDrops: distinguishing cells from empty droplets in droplet-based single-cell RNA sequencing data

    Aaron T. L. Lun;Samantha Riesenfeld;Tallulah Andrews

  • A single-cell molecular map of mouse gastrulation and early organogenesis.

    Blanca Pijuan-Sala;Jonathan A. Griffiths;Carolina Guibentif;Tom W. Hiscock

  • A Bayesian deconvolution strategy for immunoprecipitation-based DNA methylome analysis

    Thomas A. Down;Vardhman K. Rakyan;Daniel J. Turner;Paul Flicek

  • Classification of low quality cells from single-cell RNA-seq data

    Tomislav Ilicic;Tomislav Ilicic;Jong Kyoung Kim;Aleksandra A. Kolodziejczyk;Aleksandra A. Kolodziejczyk;Frederik Otzen Bagger;Frederik Otzen Bagger;Frederik Otzen Bagger

  • Effect of read-mapping biases on detecting allele-specific expression from RNA-sequencing data

    Jacob F. Degner;John C. Marioni;Athma A. Pai;Joseph K. Pickrell

  • scNMT-seq enables joint profiling of chromatin accessibility DNA methylation and transcription in single cells.

    Stephen James Clark;Ricardo Argelaguet;Chantriolnt-Andreas Kapourani;Thomas M Stubbs

Frequent Co-Authors

Sarah A. Teichmann
Sarah A. Teichmann University of Cambridge
Oliver Stegle
Oliver Stegle German Cancer Research Center
Wolf Reik
Wolf Reik Babraham Institute
Duncan T. Odom
Duncan T. Odom University of Cambridge
Simon Tavaré
Simon Tavaré Columbia University
Paul Flicek
Paul Flicek The Jackson Laboratory
Berthold Göttgens
Berthold Göttgens University of Cambridge
Benjamin D. Simons
Benjamin D. Simons University of Cambridge
Alvis Brazma
Alvis Brazma European Bioinformatics Institute
Aviv Regev
Aviv Regev Genentech

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