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Global Genetic Cartography of Urban Metagenomes and Anti-Microbial Resistance
View ORCID ProfileDavid Danko, Daniela Bezdan, Ebrahim Afshinnekoo, Sofia Ahsanuddin, Chandrima Bhattacharya, Daniel J Butler, Kern Rei Chng, Francesca De Filippis, Jochen Hecht, Andre Kahles, Mikhail Karasikov, Nikos C Kyrpides, Marcus H Y Leung, Dmitry Meleshko, Harun Mustafa, Beth Mutai, Russell Y Neches, Amanda Ng, Marina Nieto-Caballero, Olga Nikolayeva, Tatyana Nikolayeva, Eileen Png, Jorge L Sanchez, Heba Shaaban, Maria A Sierra, Xinzhao Tong, Ben Young, Josue Alicea, Malay Bhattacharyya, Ran Blekhman, Eduardo Castro-Nallar, Ana M Cañas, Aspassia D Chatziefthimiou, Robert W Crawford, Youping Deng, Christelle Desnues, Emmanuel Dias-Neto, Daisy Donnellan, Marius Dybwad, Eran Elhaik, Danilo Ercolini, Alina Frolova, Alexandra B Graf, David C Green, Iman Hajirasouliha, Mark Hernandez, Gregorio Iraola, Soojin Jang, Angela Jones, Frank J Kelly, Kaymisha Knights, Paweł P Łabaj, Patrick K H Lee, Levy Shawn, Per Ljungdahl, Abigail Lyons, Gabriella Mason-Buck, Ken McGrath, Emmanuel F Mongodin, Milton Ozorio Moraes, Niranjan Nagarajan, Houtan Noushmehr, Manuela Oliveira, Stephan Ossowski, Olayinka O Osuolale, Orhan Özcan, David Paez-Espino, Nicolas Rascovan, Hugues Richard, Gunnar Rätsch, Lynn M Schriml, Torsten Semmler, Osman U Sezerman, Leming Shi, Le Huu Song, Haruo Suzuki, Denise Syndercombe Court, Dominique Thomas, Scott W Tighe, Klas I Udekwu, Juan A Ugalde, Brandon Valentine, Dimitar I Vassilev, Elena Vayndorf, Thirumalaisamy P Velavan, María M Zambrano, Jifeng Zhu, Sibo Zhu, Christopher E Mason, The International MetaSUB Consortium
doi: https://doi.org/10.1101/724526
David Danko
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Daniela Bezdan
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Ebrahim Afshinnekoo
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Sofia Ahsanuddin
3Icahn School of Medicine at Mount Sinai Icahn School of Medicine at Mount Sinai, New York, New York 10029
Chandrima Bhattacharya
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Daniel J Butler
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Kern Rei Chng
4Genome Institute of Singapore 60 Biopolis Street, Genome, Singapore 138672
Francesca De Filippis
5Department of Agricultural Sciences, Division of Microbiology, University of Naples Federico II nan
Jochen Hecht
6Centre for Genomic Regulation Dr. Aiguader 88, 08003, The Barcelona Institute of Science and Technology, Barcelona, Spain
Andre Kahles
7ETH Zurich, Department of Compter Science, Biomedical Informatics Group ETH Zurich, Universitätstrasse 6, 8092 Zurich
Mikhail Karasikov
7ETH Zurich, Department of Compter Science, Biomedical Informatics Group ETH Zurich, Universitätstrasse 6, 8092 Zurich
Nikos C Kyrpides
8Department of Energy Joint Genome Institute, Walnut Creek, California 94598, USA
Marcus H Y Leung
9School of Energy and Environment, City University of Hong Kong, Hong Kong SAR, China School of Energy and Environment, City University of Hong Kong, Tat Chee Avenue, Kowloon
Dmitry Meleshko
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Harun Mustafa
7ETH Zurich, Department of Compter Science, Biomedical Informatics Group ETH Zurich, Universitätstrasse 6, 8092 Zurich
Beth Mutai
10Kenya Medical Research Institute US Army medical Research Directrorate, Kenya
6Centre for Genomic Regulation Dr. Aiguader 88, 08003, The Barcelona Institute of Science and Technology, Barcelona, Spain
Russell Y Neches
8Department of Energy Joint Genome Institute, Walnut Creek, California 94598, USA
Amanda Ng
4Genome Institute of Singapore 60 Biopolis Street, Genome, Singapore 138672
Marina Nieto-Caballero
11University of Colorado at Boulder Department of Civil, Environmental and Architectural Engineering, University of Colorado at Boulder, Boulder, CO
Olga Nikolayeva
12ETH Zurich, Functional Genomics Center Zurich Functional Genomics Center Zurich, ETH Zurich, University of Zurich, Winterthurerstrasse 190, 8057 Zurich
Tatyana Nikolayeva
12ETH Zurich, Functional Genomics Center Zurich Functional Genomics Center Zurich, ETH Zurich, University of Zurich, Winterthurerstrasse 190, 8057 Zurich
Eileen Png
4Genome Institute of Singapore 60 Biopolis Street, Genome, Singapore 138672
Jorge L Sanchez
13Weill Cornell Medicine Clinical and Translational Science Center 407 East 61st Street, 2nd Floor, RR-C1 New York, NY 10065
Heba Shaaban
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Maria A Sierra
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Xinzhao Tong
9School of Energy and Environment, City University of Hong Kong, Hong Kong SAR, China School of Energy and Environment, City University of Hong Kong, Tat Chee Avenue, Kowloon
Ben Young
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Josue Alicea
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Malay Bhattacharyya
14Machine Intelligence Unit, Indian Statistical Institute, Kolkata Machine Intelligence Unit, Indian Statistical Institute, Kolkata, 203 B. T. Road, Kolkata
Ran Blekhman
15University of Minnesota University of Minnesota, MN, USA
Eduardo Castro-Nallar
16Universidad Andrés Bello, Center for Bioinformatics and Integrative Biology, Facultad de Ciencias de la Vida Avenida República 330, Santiago, Chile
Ana M Cañas
13Weill Cornell Medicine Clinical and Translational Science Center 407 East 61st Street, 2nd Floor, RR-C1 New York, NY 10065
Aspassia D Chatziefthimiou
17Weill Cornell Medicine Qatar Education City Al Luqta St, Ar Rayyan, Qatar
Robert W Crawford
18California State University Sacramento Tschannen Science Complex 3000, 6000 J Street, Sacramento, CA, 95819
Youping Deng
19University of Hawaii John A. Burns School of Mecidine University of Hawaii John A. Burns School of Mecidine, 651 Ilalo Street, Honolulu, HI 96822
Christelle Desnues
20Aix-Marseille Université, Mediterranean Institute of Oceanology, Université de Toulon, CNRS, IRD, UM 110 163 Avenue de Luminy, Case 901, Bâtiment OCEANOMED-Méditerranée,13288 Marseille, Cedex 09, France
Emmanuel Dias-Neto
21A.C.Camargo Cancer Center Laboratory of Medical Genomics, AC Camargo Cancer Center, Rua Taguá 440, São Paulo
Daisy Donnellan
13Weill Cornell Medicine Clinical and Translational Science Center 407 East 61st Street, 2nd Floor, RR-C1 New York, NY 10065
Marius Dybwad
22Norwegian Defence Research Establishment FFI, Kjeller, Norway Norwegian Defence Research Establishment FFI, PO Box 25, NO-2027 Kjeller, Norway
Eran Elhaik
23Department of Animal & Plant Sciences, University of Sheffield Department of Animal & Plant Sciences, University of Sheffield, Sheffield, S10 2TN, UK
Danilo Ercolini
5Department of Agricultural Sciences, Division of Microbiology, University of Naples Federico II nan
Alina Frolova
24Institute of Molecular Biology and Genetics of National Academy of Science of Ukraine Institute of Molecular Biology and Genetics of National Academy of Science of Ukraine, 150 Zabolotnogo str., Kyiv 03143, Ukraine
Alexandra B Graf
25University of Applied Sciences Vienna FH Campus Wien, University of Applied Sciences, Vienna
David C Green
26Department of Analytical, Environmental and Forensic Sciences MRC Centre for Environment & Health, King
Iman Hajirasouliha
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Mark Hernandez
11University of Colorado at Boulder Department of Civil, Environmental and Architectural Engineering, University of Colorado at Boulder, Boulder, CO
Gregorio Iraola
27Microbial Genomics Laboratory, Institut Pasteur de Montevideo, Uruguay Institut Pasteur Montevideo, Mataojo 2020, Montevideo 11400, Uruguay
Soojin Jang
28Institut Pasteur Korea Institut Pasteur Korea, 16, Daewangpangyo-ro 712 beon-gil, Bundang-gu, Seongnam-si, Gyeonggi-do, 13488
Angela Jones
52Corporación Corpogen Corporación Corpogen, Carrera 4 #20-41, Bogotá, DC, 110311, Colombia
Frank J Kelly
26Department of Analytical, Environmental and Forensic Sciences MRC Centre for Environment & Health, King
Kaymisha Knights
13Weill Cornell Medicine Clinical and Translational Science Center 407 East 61st Street, 2nd Floor, RR-C1 New York, NY 10065
Paweł P Łabaj
29Małopolska Centre of Biotechnology, Jagiellonian University Małopolska Centre of Biotechnology, Jagiellonian University, Gronostajowa 7A, 30-387 Kraków
Patrick K H Lee
9School of Energy and Environment, City University of Hong Kong, Hong Kong SAR, China School of Energy and Environment, City University of Hong Kong, Tat Chee Avenue, Kowloon
Levy Shawn
53HudsonAlpha Biotechnology Institute, Huntsville, AL
Per Ljungdahl
30Stockholm University Frescativägen, 114 19 Stockholm, Sweden
Abigail Lyons
13Weill Cornell Medicine Clinical and Translational Science Center 407 East 61st Street, 2nd Floor, RR-C1 New York, NY 10065
Gabriella Mason-Buck
31Department of Analytical, Environmental and Forensic Sciences King’s Forsenics, King’s College London
Ken McGrath
32Microba 388 Queen St, Brisbane, 4000
Emmanuel F Mongodin
33University of Maryland School of Medicine, Institute for Genome Sciences University of Maryland School of Medicine, Institute for Genome Sciences
Milton Ozorio Moraes
34Fundação Oswaldo Cruz Laboratório de Hanseníase, Fundação Oswaldo Cruz FIOCRUZ, Rio de Janeiro, Rio de Janeiro, Brasil
Niranjan Nagarajan
4Genome Institute of Singapore 60 Biopolis Street, Genome, Singapore 138672
Houtan Noushmehr
35University of São Paulo, Ribeirão Preto Medical School University of São Paulo, Ribeirão Preto Medical School
Manuela Oliveira
36Instituto de Patologia e Imunologia Molecular da Universidade do Porto Instituto de Patologia e Imunologia Molecular da Universidade do Porto
Stephan Ossowski
37Institute of Medical Genetics and Applied Genomics, University of Tübingen, Tübingen, Germany. 2 Institute of Medical Genetics and Applied Genomics, University of Tübingen, Calwerstrasse 7, 72076 Tübingen, Germany
Olayinka O Osuolale
38Applied Environmental Metagenomics and Infectious Diseases Research, Department of Biological Sciences, Elizade University 002, Wuraola-Adeojo Avenue, Ilara-Mokin, Ondo State
Orhan Özcan
39Acibadem Mehmet Ali Aydinlar University Acibadem Mehmet Ali Aydinlar University
David Paez-Espino
8Department of Energy Joint Genome Institute, Walnut Creek, California 94598, USA
Nicolas Rascovan
40Aix-Marseille Université, IRD, AP-HM, IHU Méditerranée Infection 19-21 Boulevard Jean Moulin, 13005 Marseille, France
Hugues Richard
41Sorbonne University, Faculty of science, Institute of Biology Paris-Seine, Laboratory of Computational and Quantitative Biology 4 Place Jussieu, 75005 Paris, France
Gunnar Rätsch
7ETH Zurich, Department of Compter Science, Biomedical Informatics Group ETH Zurich, Universitätstrasse 6, 8092 Zurich
Lynn M Schriml
33University of Maryland School of Medicine, Institute for Genome Sciences University of Maryland School of Medicine, Institute for Genome Sciences
Torsten Semmler
42Robert Koch Institute Berlin Robert Koch Institute, Nordufer 20, 13353 Berlin
Osman U Sezerman
39Acibadem Mehmet Ali Aydinlar University Acibadem Mehmet Ali Aydinlar University
Leming Shi
43State Key Laboratory of Genetic Engineering and MOE Key Laboratory of Contemporary Anthropology, School of Life Sciences, Fudan University Shanghai, China, 200438
44Department of Epidemiology, School of Public Health, Fudan University Fudan University, Shanghai, China, 200032
Le Huu Song
45Institute of Tropical Medicine, Vietnamese-German Center of Excellence 108 Military Central Hospital, N 1, Tran Hung Dao Str, Hai Ba Trung District, 10000, Hanoi
Haruo Suzuki
46Keio University Endo 5322, Fujisawa, Kanagawa, 252-0882
Denise Syndercombe Court
31Department of Analytical, Environmental and Forensic Sciences King’s Forsenics, King’s College London
Dominique Thomas
13Weill Cornell Medicine Clinical and Translational Science Center 407 East 61st Street, 2nd Floor, RR-C1 New York, NY 10065
Scott W Tighe
47University of Vermont -Extreme Microbio 149 Beaumont ave Univ of Vermont Cancer Center HSRF 303 Burlington, VT 05405
Klas I Udekwu
30Stockholm University Frescativägen, 114 19 Stockholm, Sweden
Juan A Ugalde
48Millennium Initiative for Collaborative Research on Bacterial Resistance Millennium Initiative for Collaborative Research on Bacterial Santiago, Chile
Brandon Valentine
13Weill Cornell Medicine Clinical and Translational Science Center 407 East 61st Street, 2nd Floor, RR-C1 New York, NY 10065
Dimitar I Vassilev
49Faculty of Mathematics and Informatics, Sofia University “St. Kliment Ohridski” 5 James Bourchier Blvd., Sofia 1164, Bulgaria
Elena Vayndorf
50Institute of Arctic Biology, University of Alaska Fairbanks, Fairbanks, AK
Thirumalaisamy P Velavan
51Institute of Tropical Medicine, Univeristätsklinikum Tübingen, Wilhelmstrasse 27, 72074,Tübingen
María M Zambrano
52Corporación Corpogen Corporación Corpogen, Carrera 4 #20-41, Bogotá, DC, 110311, Colombia
Jifeng Zhu
13Weill Cornell Medicine Clinical and Translational Science Center 407 East 61st Street, 2nd Floor, RR-C1 New York, NY 10065
Sibo Zhu
43State Key Laboratory of Genetic Engineering and MOE Key Laboratory of Contemporary Anthropology, School of Life Sciences, Fudan University Shanghai, China, 200438
44Department of Epidemiology, School of Public Health, Fudan University Fudan University, Shanghai, China, 200032
Christopher E Mason
1Weill Cornell Medicine 1300 York Ave., New York, NY 10065
2The Bin Talal Bin Abdulaziz Alsaud Institute for Computational Biomedicine 1305 York Ave., Y13-05, New York, NY 10065
Article usage
Posted October 04, 2019.
Global Genetic Cartography of Urban Metagenomes and Anti-Microbial Resistance
David Danko, Daniela Bezdan, Ebrahim Afshinnekoo, Sofia Ahsanuddin, Chandrima Bhattacharya, Daniel J Butler, Kern Rei Chng, Francesca De Filippis, Jochen Hecht, Andre Kahles, Mikhail Karasikov, Nikos C Kyrpides, Marcus H Y Leung, Dmitry Meleshko, Harun Mustafa, Beth Mutai, Russell Y Neches, Amanda Ng, Marina Nieto-Caballero, Olga Nikolayeva, Tatyana Nikolayeva, Eileen Png, Jorge L Sanchez, Heba Shaaban, Maria A Sierra, Xinzhao Tong, Ben Young, Josue Alicea, Malay Bhattacharyya, Ran Blekhman, Eduardo Castro-Nallar, Ana M Cañas, Aspassia D Chatziefthimiou, Robert W Crawford, Youping Deng, Christelle Desnues, Emmanuel Dias-Neto, Daisy Donnellan, Marius Dybwad, Eran Elhaik, Danilo Ercolini, Alina Frolova, Alexandra B Graf, David C Green, Iman Hajirasouliha, Mark Hernandez, Gregorio Iraola, Soojin Jang, Angela Jones, Frank J Kelly, Kaymisha Knights, Paweł P Łabaj, Patrick K H Lee, Levy Shawn, Per Ljungdahl, Abigail Lyons, Gabriella Mason-Buck, Ken McGrath, Emmanuel F Mongodin, Milton Ozorio Moraes, Niranjan Nagarajan, Houtan Noushmehr, Manuela Oliveira, Stephan Ossowski, Olayinka O Osuolale, Orhan Özcan, David Paez-Espino, Nicolas Rascovan, Hugues Richard, Gunnar Rätsch, Lynn M Schriml, Torsten Semmler, Osman U Sezerman, Leming Shi, Le Huu Song, Haruo Suzuki, Denise Syndercombe Court, Dominique Thomas, Scott W Tighe, Klas I Udekwu, Juan A Ugalde, Brandon Valentine, Dimitar I Vassilev, Elena Vayndorf, Thirumalaisamy P Velavan, María M Zambrano, Jifeng Zhu, Sibo Zhu, Christopher E Mason, The International MetaSUB Consortium
bioRxiv 724526; doi: https://doi.org/10.1101/724526
Global Genetic Cartography of Urban Metagenomes and Anti-Microbial Resistance
David Danko, Daniela Bezdan, Ebrahim Afshinnekoo, Sofia Ahsanuddin, Chandrima Bhattacharya, Daniel J Butler, Kern Rei Chng, Francesca De Filippis, Jochen Hecht, Andre Kahles, Mikhail Karasikov, Nikos C Kyrpides, Marcus H Y Leung, Dmitry Meleshko, Harun Mustafa, Beth Mutai, Russell Y Neches, Amanda Ng, Marina Nieto-Caballero, Olga Nikolayeva, Tatyana Nikolayeva, Eileen Png, Jorge L Sanchez, Heba Shaaban, Maria A Sierra, Xinzhao Tong, Ben Young, Josue Alicea, Malay Bhattacharyya, Ran Blekhman, Eduardo Castro-Nallar, Ana M Cañas, Aspassia D Chatziefthimiou, Robert W Crawford, Youping Deng, Christelle Desnues, Emmanuel Dias-Neto, Daisy Donnellan, Marius Dybwad, Eran Elhaik, Danilo Ercolini, Alina Frolova, Alexandra B Graf, David C Green, Iman Hajirasouliha, Mark Hernandez, Gregorio Iraola, Soojin Jang, Angela Jones, Frank J Kelly, Kaymisha Knights, Paweł P Łabaj, Patrick K H Lee, Levy Shawn, Per Ljungdahl, Abigail Lyons, Gabriella Mason-Buck, Ken McGrath, Emmanuel F Mongodin, Milton Ozorio Moraes, Niranjan Nagarajan, Houtan Noushmehr, Manuela Oliveira, Stephan Ossowski, Olayinka O Osuolale, Orhan Özcan, David Paez-Espino, Nicolas Rascovan, Hugues Richard, Gunnar Rätsch, Lynn M Schriml, Torsten Semmler, Osman U Sezerman, Leming Shi, Le Huu Song, Haruo Suzuki, Denise Syndercombe Court, Dominique Thomas, Scott W Tighe, Klas I Udekwu, Juan A Ugalde, Brandon Valentine, Dimitar I Vassilev, Elena Vayndorf, Thirumalaisamy P Velavan, María M Zambrano, Jifeng Zhu, Sibo Zhu, Christopher E Mason, The International MetaSUB Consortium
bioRxiv 724526; doi: https://doi.org/10.1101/724526
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