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Open Access
Peer-reviewed
Research Article
Building gene regulatory networks from scATAC-seq and scRNA-seq using Linked Self Organizing Maps
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Camden Jansen ,
Contributed equally to this work with: Camden Jansen, Ricardo N. Ramirez
Roles Conceptualization, Data curation, Formal analysis, Methodology, Software, Visualization, Writing – original draft, Writing – review & editing
Affiliations Developmental and Cell Biology, University of California Irvine, Irvine, California, United States of America, Center for Complex Biological Systems, University of California Irvine, Irvine, California, United States of America
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Ricardo N. Ramirez ,
Contributed equally to this work with: Camden Jansen, Ricardo N. Ramirez
Roles Conceptualization, Data curation, Resources, Writing – original draft, Writing – review & editing
Affiliations Developmental and Cell Biology, University of California Irvine, Irvine, California, United States of America, Center for Complex Biological Systems, University of California Irvine, Irvine, California, United States of America
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Nicole C. El-Ali,
Roles Data curation, Validation, Writing – review & editing
Affiliation Developmental and Cell Biology, University of California Irvine, Irvine, California, United States of America
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David Gomez-Cabrero,
Roles Data curation, Writing – review & editing
Affiliations Unit of Computational Medicine, Department of Medicine, Solna, Center for Molecular Medicine, Karolinska Institutet, Stockholm, Sweden, Mucosal and Salivary Biology Division, King’s College London Dental Institute, London United Kingdom
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Jesper Tegner,
Roles Project administration, Supervision, Writing – review & editing
Affiliations Unit of Computational Medicine, Department of Medicine, Solna, Center for Molecular Medicine, Karolinska Institutet, Stockholm, Sweden, Science for Life Laboratory, Solna, Sweden, Biological and Environmental Sciences and Engineering Division, Computer, Electrical and Mathematical Sciences and Engineering Division, King Abdullah University of Science and Technology (KAUST), Thuwal, Kingdom of Saudi Arabia
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Matthias Merkenschlager,
Roles Project administration, Resources, Writing – review & editing
Affiliation MRC London Institute of Medical Sciences, Imperial College London, Hammersmith Hospital Campus, London, United Kingdom
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Ana Conesa,
Roles Project administration, Resources, Writing – review & editing
Affiliation Microbiology and Cell Science Department, Institute of Food and Agricultural Sciences, University of Florida, Gainesville, Florida, United States of America
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Ali Mortazavi
Roles Conceptualization, Formal analysis, Funding acquisition, Methodology, Project administration, Supervision, Writing – original draft, Writing – review & editing
* E-mail: ali.mortazavi@uci.edu
Affiliations Developmental and Cell Biology, University of California Irvine, Irvine, California, United States of America, Center for Complex Biological Systems, University of California Irvine, Irvine, California, United States of America
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Building gene regulatory networks from scATAC-seq and scRNA-seq using Linked Self Organizing Maps
- Camden Jansen,
- Ricardo N. Ramirez,
- Nicole C. El-Ali,
- David Gomez-Cabrero,
- Jesper Tegner,
- Matthias Merkenschlager,
- Ana Conesa,
- Ali Mortazavi
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- Published: November 4, 2019
- https://doi.org/10.1371/journal.pcbi.1006555
- See the preprint