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John C. Marioni

Active 2004–2026

Also published as
John C Marioni
173
Papers
56,898
Citations
101
h-index
164
i10-index

Citations

Citations per year for John C. Marioni1957: 3 citations1975: 2 citations1976: 1 citations1977: 1 citations1981: 1 citations1983: 1 citations1986: 1 citations1987: 3 citations1989: 2 citations1990: 2 citations1991: 1 citations1994: 1 citations1996: 2 citations1998: 1 citations2000: 1 citations2001: 3 citations2002: 1 citations2003: 3 citations2005: 4 citations2006: 4 citations2007: 12 citations2008: 34 citations2009: 126 citations2010: 204 citations2011: 255 citations2012: 275 citations2013: 306 citations2014: 330 citations2015: 418 citations2016: 619 citations2017: 756 citations2018: 920 citations2019: 2,120 citations2020: 2,753 citations2021: 3,197 citations2022: 2,913 citations2023: 2,720 citations2024: 3,754 citations2025: 2,352 citations2026: 204 citations1958–1974: no citations, so these years are not shown1978–1980: no citations, so these years are not shown1982: no citations, so this year is not shown1984–1985: no citations, so these years are not shown1988: no citations, so this year is not shown1992–1993: no citations, so these years are not shown1995: no citations, so this year is not shown1997: no citations, so this year is not shown1999: no citations, so this year is not shown2004: no citations, so this year is not shown

Citation sources

Countries

World map of the countries and regions citing this authorUnited States: 8,217 citing papers, 27.7% of this breakdownChina: 3,653 citing papers, 12.3% of this breakdownUnited Kingdom: 2,756 citing papers, 9.3% of this breakdownGermany: 2,078 citing papers, 7% of this breakdownCanada: 993 citing papers, 3.4% of this breakdownFrance: 955 citing papers, 3.2% of this breakdownAustralia: 893 citing papers, 3% of this breakdownSwitzerland: 863 citing papers, 2.9% of this breakdownNetherlands: 756 citing papers, 2.6% of this breakdownSpain: 705 citing papers, 2.4% of this breakdownSweden: 676 citing papers, 2.3% of this breakdownItaly: 659 citing papers, 2.2% of this breakdown
0%27.7%Other 21.7%

Institutions

Fields

  • Biochemistry, Genetics and Molecular Biology64.2%
  • Medicine19.9%
  • Immunology and Microbiology6.2%
  • Neuroscience3.5%
  • Agricultural and Biological Sciences1.7%
  • Computer Science1.4%
  • Other3.1%

Topics

  • Single-cell and spatial transcriptomics11.8%
  • Gene expression and cancer classification3.7%
  • Cancer Genomics and Diagnostics2.8%
  • Cell Image Analysis Techniques2.6%
  • Epigenetics and DNA Methylation2.4%
  • RNA Research and Splicing2.2%
  • Other74.5%

Coauthors

All papers

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

    Authors: Laleh Haghverdi, Aaron T. L. Lun, Michael D. Morgan, John C. Marioni - Nature Biotechnology 2018 cited by 2,720

  2. Resolving the fibrotic niche of human liver cirrhosis at single-cell level

    Authors: Prakash Ramachandran, Ross Dobie, John R. Wilson‐Kanamori, Elena Dorà, Beth E. P. Henderson, N. Thin Luu, Jordan R. Portman, Kylie P. Matchett, Madara Brice, John A. Marwick, Richard S. Taylor, Mirjana Efremova, Roser Vento‐Tormo, Neil O. Carragher, Timothy J. Kendall, Jonathan Fallowfield, Ewen M. Harrison, Damian J. Mole, Stephen J. Wigmore, Philip N. Newsome, Chris J. Weston, John P. Iredale, Frank Tacke, Jeffrey W. Pollard, Chris P. Ponting, John C. Marioni, Sarah A. Teichmann, Neil C. Henderson - Nature 2019 cited by 1,801

  3. The Human Cell Atlas

    Authors: Aviv Regev, Sarah A Teichmann, Eric S Lander, Ido Amit, Christophe Benoist, Ewan Birney, Bernd Bodenmiller, Peter Campbell, Piero Carninci, Menna Clatworthy, Hans Clevers, Bart Deplancke, Ian Dunham, James Eberwine, Roland Eils, Wolfgang Enard, Andrew Farmer, Lars Fugger, Berthold Göttgens, Nir Hacohen, Muzlifah Haniffa, Martin Hemberg, Seung Kim, Paul Klenerman, Arnold Kriegstein, Ed Lein, Sten Linnarsson, Emma Lundberg, Joakim Lundeberg, Partha Majumder, John C Marioni, Miriam Merad, Musa Mhlanga, Martijn Nawijn, Mihai Netea, Garry Nolan, Dana Pe'er, Anthony Phillipakis, Chris P Ponting, Stephen Quake, Wolf Reik, Orit Rozenblatt-Rosen, Joshua Sanes, Rahul Satija, Ton N Schumacher, Alex Shalek, Ehud Shapiro, Padmanee Sharma, Jay W Shin, Oliver Stegle, Michael Stratton, Michael J T Stubbington, Fabian J Theis, Matthias Uhlen, Alexander van Oudenaarden, Allon Wagner, Fiona Watt, Jonathan Weissman, Barbara Wold, Ramnik Xavier, Nir Yosef, Human Cell Atlas Meeting Participants - eLife 2017 cited by 2,352

  4. Differential abundance testing on single-cell data using k-nearest neighbor graphs

    Authors: Emma Dann, Neil C. Henderson, Sarah A. Teichmann, Michael D. Morgan, John C. Marioni - Nature Biotechnology 2021 cited by 928

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

    Authors: Ricard Argelaguet, Britta Velten, Damien Arnol, Sascha Dietrich, Thorsten Zenz, John C. Marioni, Florian Buettner, Wolfgang Huber, Oliver Stegle - Molecular Systems Biology 2018 cited by 1,459

  6. Unsupervised removal of systematic background noise from droplet-based single-cell experiments using CellBender

    Authors: Stephen J. Fleming, Mark Chaffin, Alessandro Arduini, Amer-Denis Akkad, Eric Banks, John C. Marioni, Anthony Philippakis, Patrick T. Ellinor, Mehrtash Babadi - Nature Methods 2023 cited by 813

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

    Authors: Aaron T. L. Lun, Davis J. McCarthy, John C. Marioni - F1000Research 2016 cited by 1,813

  8. MOFA+: a statistical framework for comprehensive integration of multi-modal single-cell data

    Authors: Ricard Argelaguet, Damien Arnol, Danila Bredikhin, Yonatan Deloro, Britta Velten, John C. Marioni, Oliver Stegle - Genome biology 2020 cited by 1,007

  9. Eleven grand challenges in single-cell data science

    Authors: David Lähnemann, Johannes Köster, Ewa Szczurek, Davis J. McCarthy, Stephanie C. Hicks, Mark D. Robinson, Catalina A. Vallejos, Kieran R. Campbell, Niko Beerenwinkel, Ahmed Mahfouz, Luca Pinello, Pavel Skums, Alexandros Stamatakis, Camille Stephan‐Otto Attolini, Samuel Aparício, Jasmijn A. Baaijens, Marleen Balvert, Buys de Barbanson, Antonio Cappuccio, Giacomo Corleone, Bas E. Dutilh, Maria Florescu, Victor Guryev, Rens Holmer, Katharina Jahn, Thamar Jessurun Lobo, Emma M Keizer, Indu Khatri, Szymon M. Kiełbasa, Jan O. Korbel, Alexey M. Kozlov, Tzu-Hao Kuo, Boudewijn P. F. Lelieveldt, Ion Măndoiu, John C. Marioni, Tobias Marschall, Felix Mölder, Amir Niknejad, Alicja Rączkowska, Marcel Reinders, Jeroen de Ridder, Antoine-Emmanuel Saliba, Antonios Somarakis, Oliver Stegle, Fabian J. Theis, Huan Yang, Alex Zelikovsky, Alice C. McHardy, Benjamin J. Raphael, Sohrab P. Shah, Alexander Schönhuth - Genome biology 2020 cited by 1,429

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

    Authors: participants in the 1st Human Cell Atlas Jamboree, Aaron T. L. Lun, Samantha J. Riesenfeld, Tallulah Andrews, The Phuong Dao, Tomás Gomes, John C. Marioni - Genome biology 2019 cited by 1,212

  11. The Technology and Biology of Single-Cell RNA Sequencing

    Authors: Aleksandra A. Kolodziejczyk, Jong Kim, Valentine Svensson, John C. Marioni, Sarah A. Teichmann - Molecular Cell 2015 cited by 1,595

  12. Cells of the human intestinal tract mapped across space and time

    Authors: Rasa Elmentaite, Natsuhiko Kumasaka, Kenny Roberts, Aaron Fleming, Emma Dann, Hamish W. King, Vitalii Kleshchevnikov, Monika Dabrowska, Sophie Pritchard, Liam Bolt, Sara F. Vieira, Lira Mamanova, Ni Huang, Francesca Perrone, Issac Goh, Steven Lisgo, Matilda Katan, Steven Leonard, Thomas R. W. Oliver, C. Elizabeth Hook, Komal Nayak, Lia S. Campos, Cecilia Domínguez Conde, Emily Stephenson, Justin Engelbert, Rachel A. Botting, Krzysztof Polański, Stijn van Dongen, Minal Patel, Michael D. Morgan, John C. Marioni, Omer Ali Bayraktar, Kerstin B. Meyer, Xiaoling He, Roger A. Barker, Holm H. Uhlig, Krishnaa T. Mahbubani, Kourosh Saeb‐Parsy, Matthias Zilbauer, Menna R. Clatworthy, Muzlifah Haniffa, Kylie R. James, Sarah A. Teichmann - Nature 2021 cited by 739

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

    Authors: Blanca Pijuan-Sala, Jonathan A. Griffiths, Carolina Guibentif, Tom W. Hiscock, Wajid Jawaid, Fernando J. Calero-Nieto, Carla Mulas, Ximena Ibarra-Soria, Richard C. V. Tyser, Debbie Lee Lian Ho, Wolf Reik, Shankar Srinivas, Benjamin D. Simons, Jennifer Nichols, John C. Marioni, Berthold Göttgens - Nature, Nat. 2019 cited by 1,168

  14. A step-by-step workflow for low-level analysis of single-cell RNA-seq data

    Authors: Aaron T. L. Lun, Davis J. McCarthy, John C. Marioni - F1000Research 2016 cited by 822

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

    Authors: Aaron T. L. Lun, Karsten Bach, John C. Marioni - Genome biology 2016 cited by 1,291

  16. Single-cell multi-omics analysis of the immune response in COVID-19

    Authors: Emily Stephenson, Gary Reynolds, Rachel A. Botting, Fernando J. Calero‐Nieto, Michael D. Morgan, Zewen Kelvin Tuong, Karsten Bach, Waradon Sungnak, Kaylee B. Worlock, Masahiro Yoshida, Natsuhiko Kumasaka, Katarzyna Kania, Justin Engelbert, Bayanne Olabi, Jarmila Stremenova Spegarova, Nicola K. Wilson, Nicole Mende, Laura Jardine, Louis Gardner, Issac Goh, Dave Horsfall, Jim McGrath, Simone Webb, Michael Mather, Rik G.H. Lindeboom, Emma Dann, Ni Huang, Krzysztof Polański, Elena Prigmore, Florian Gothe, Jonathan Scott, Rebecca Payne, Kenneth F. Baker, Aidan T. Hanrath, Ina Schim van der Loeff, Andrew Barr, Amada Sanchez-Gonzalez, Laura Bergamaschi, Federica Mescia, Josephine L. Barnes, Eliz Kilich, Angus de Wilton, Anita Saigal, Aarash Saleh, Sam M. Janes, Claire M. Smith, Nusayhah Hudaa Gopee, Caroline Wilson, Paul Coupland, Jonathan Coxhead, Vladimir Yu Kiselev, Stijn van Dongen, Jaume Bacardit, Hamish W. King, Anthony Rostron, A. John Simpson, Sophie Hambleton, Elisa Laurenti, Paul Lyons, Kerstin B. Meyer, Marko Nikolić, C.J. Duncan, Kenneth G. C. Smith, Sarah A. Teichmann, Menna R. Clatworthy, John C. Marioni, Berthold Göttgens, Muzlifah Haniffa - Nature Medicine 2021 cited by 827

  17. Computational principles and challenges in single-cell data integration

    Authors: Ricard Argelaguet, Anna Cuomo, Oliver Stegle, John C. Marioni - Nature Biotechnology 2021 cited by 489

  18. Intratumor heterogeneity in human glioblastoma reflects cancer evolutionary dynamics

    Authors: Andrea Sottoriva, Inmaculada Spiteri, Sara Piccirillo, Anestis Touloumis, V. Peter Collins, John C. Marioni, Christina Curtis, Colin Watts, Simon Tavaré - National Academy of Sciences, Proceedings of the National Academy of Sciences 2013 cited by 1,759

  19. Integration of spatial and single-cell transcriptomic data elucidates mouse organogenesis

    Authors: Tim Lohoff, Shila Ghazanfar, Alsu Missarova, Noushin Koulena, Nico Pierson, Jonathan A. Griffiths, Evan Bardot, C.-H. L. Eng, Richard C. V. Tyser, Ricard Argelaguet, Carolina Guibentif, Shankar Srinivas, James Briscoe, Benjamin D. Simons, Anna‐Katerina Hadjantonakis, Berthold Göttgens, Wolf Reik, Jennifer Nichols, Long Cai, John C. Marioni - Nature Biotechnology 2021 cited by 351

  20. Mitochondrial complex I activity in microglia sustains neuroinflammation

    Authors: Luca Peruzzotti‐Jametti, Carolyn M. Willis, Grzegorz Krzak, Regan Hamel, Liviu Pirvan, Rosana-Bristena Ionescu, Julie A. Reisz, Hiran A. Prag, Monica Emili Garcia‐Segura, Vin‐Cent Wu, Yaping Xiang, B. Barlas, Alva M. Casey, Aletta M.R. van den Bosch, Alexandra M. Nicaise, L. Roth, G. R. Bates, Hailiang Huang, Pranathi Prasad, Annelet Vincent, Christian Frezza, Carlo Viscomi, Gabriel Balmus, Zoltán Takáts, John C. Marioni, Angelo D’Alessandro, Michael P. Murphy, Irina Mohorianu, Stefano Pluchino - Nature 2024 cited by 203

  21. Computational and analytical challenges in single-cell transcriptomics

    Authors: Oliver Stegle, Sarah A. Teichmann, John C. Marioni - Nature Reviews Genetics 2015 cited by 1,320

  22. A reference human induced pluripotent stem cell line for large-scale collaborative studies

    Authors: Caroline B. Pantazis, Andrian Yang, Erika Lara, Justin A. McDonough, Cornelis Blauwendraat, Lirong Peng, Hideyuki Oguro, Jitendra Kumar Kanaujiya, Jizhong Zou, David P. Sebesta, Gretchen Pratt, Erin Cross, Jeffrey Blockwick, Philip Buxton, Lauren Kinner-Bibeau, Constance Medura, Christopher Tompkins, Stephen H. Hughes, Marianita Santiana, Faraz Faghri, Mike A. Nalls, Dan Vitale, Shannon Ballard, Yue Qi, Daniel M. Ramos, Kailyn Anderson, Julia T. Stadler, Priyanka Narayan, Jason Papademetriou, Luke Reilly, Matthew P. Nelson, Sanya Aggarwal, Leah U. Rosen, Peter Kirwan, Venkat Pisupati, Steven L. Coon, Sonja W. Scholz, Theresa Priebe, Miriam Öttl, Jian Dong, Marieke Meijer, Lara J.M. Janssen, Vanessa S. Lourenco, Rik van der Kant, Dennis Crusius, Dominik Paquet, Ana‐Caroline Raulin, Guojun Bu, Aaron Held, Brian J. Wainger, Rebecca Gabriele, Jackie M. Casey, Selina Wray, Dad Abu-Bonsrah, Clare L. Parish, Melinda S. Beccari, Don W. Cleveland, Emmy Li, Indigo V.L. Rose, Martin Kampmann, Carles Calatayud, Patrik Verstreken, Laurin Heinrich, Max Y. Chen, Birgitt Schüle, Dan Dou, Erika L.F. Holzbaur, Maria Clara Zanellati, Richa Basundra, Mohanish Deshmukh, Sarah Cohen, Richa Khanna, Malavika Raman, Zachary S. Nevin, Madeline Matia, Jonas Van Lent, Vincent Timmerman, Bruce R. Conklin, Katherine Johnson Chase, Ke Zhang, Salome Funes, Daryl A. Bosco, Lena Erlebach, Marc Welzer, Deborah Kronenberg‐Versteeg, Guochang Lyu, Ernest Arenas, Elena Coccia, Lily Sarrafha, Tim Ahfeldt, John C. Marioni, William C. Skarnes, Mark Cookson, Michael E. Ward, Florian T. Merkle - Cell stem cell 2022 cited by 304

  23. Mapping the developing human immune system across organs

    Authors: Chenqu Suo, Emma Dann, Issac Goh, Laura Jardine, Vitalii Kleshchevnikov, Jong-Eun Park, Rachel A. Botting, Emily Stephenson, Justin Engelbert, Zewen Kelvin Tuong, Krzysztof Polański, Nadav Yayon, Chuan Xu, Ondřej Suchánek, Rasa Elmentaite, Cecilia Domínguez Conde, Peng He, Sophie Pritchard, Mohi Miah, Corina Moldovan, Alexander S. Steemers, Pavel Mazin, Martin Prete, Dave Horsfall, John C. Marioni, Menna R. Clatworthy, Muzlifah Haniffa, Sarah A. Teichmann - Science 2022 cited by 314

  24. Single-Cell Transcriptomics Uncovers Zonation of Function in the Mesenchyme during Liver Fibrosis

    Authors: Ross Dobie, John R. Wilson‐Kanamori, Beth E. P. Henderson, James R. Smith, Kylie P. Matchett, Jordan R. Portman, Karolina Wallenborg, Simone Picelli, Anna Zagórska, Swetha Pendem, Thomas E. Hudson, Minnie M. Wu, Grant R. Budas, David G. Breckenridge, Ewen M. Harrison, Damian J. Mole, Stephen J. Wigmore, Prakash Ramachandran, Chris P. Ponting, Sarah A. Teichmann, John C. Marioni, Neil C. Henderson - Cell Reports 2019 cited by 426