3rd Annual Metagenomics and Metadesign of Subways and Urban Biomes (MetaSUB) Conference
18-19 July – Royal Academy of Engineering Sciences, Grev Turegatan 16, Stockholm (www.iva.se)
20 July – Stockholm University, Svante Arrhenius väg 20C, Stockholm (www.su.se)
Tuesday, July 18, 2017 – Royal Academy of Engineering Sciences
8:00 – 9:30
Arrival at the Royal Academy of Engineering Sciences Registration & Coffee
9:30 – 9:40
Opening Remarks
Dr. Klas Udekwu, Associate Senior Lecturer, The Wenner-Gren Institute, Stockholm University
Dr. Per Ljungdahl, Professor in the Department of Molecular Biosciences, The Wenner-Gren Institute, Stockholm University
Plenary Session I:
Moderator: Sofia Ahsanuddin
9:45 – 10:15
“Application of Next Generation Sequencing and Bioinformatics for Rapid and Accurate Pathogen Detection and Characterization of the Microbiome”
Dr. Rita Colwell, Former Director of the U.S. National Science Foundation (NSF)
10:20 – 10:50
“Into the Gowanus Canal: A Community Lab Partnership with MetaSUB”
Dr. Ellen Jorgensen, Co-founder and Director of Genspace, USA, Bio-hacker lab
10:50 – 11:20
“Dark Matter in Urban Metagenomes”
Dr. Alexandra Graf, Assistant Professor, FH Campus Wien, Austria; PI for MetaSUB Vienna
11:20 – 11:50
“Understanding the Interactive Nature of Aquatic Microbial Communities from Genomic Data”
Dr. Stefan Bertilsson, Professor of Ecology and Genetics, Uppsala University, Stockholm, Sweden
12:00 – 13:00
Lunch
Plenary Session II:
Moderator: Paulina Pastuczek
13:00 – 13:30
Arrival at the Royal Academy of Engineering Sciences Registration & Coffee
13:30 – 14:00
“Lessons and Questions About the Microbiomes of Buildings”
Dr. Kyle Bibby, Assistant Professor, University of Pittsburgh
14:00 – 14:30
Sponsored Talk by Promega
14:30 – 15:00
Sponsored Talk by Zymo Research
15:00 – 16:00
Coffee and Break (Sponsor Tables & Networking Reception)
16:00 – 17:00
Breakout Sessions
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Library Methods in Metagenomics
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Sampling methods for sampling air, subways, buses, sewage systems, beaches, and rivers
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Strategies of NGS Sequencing of unique sample types
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Novel approaches to library synthesis and sequencing
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Alternative sequencing approach methods-Epigenetics and the Virome
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Validation of Metagenomics and Sequencing Data
17:00 – 17:30
Reports from Breakout Groups
Moderated by Dr. Klas Udekwu and Sofia Ahsanuddin
17:30 – 17:45
Address by Dr. Klas Udekwu and Dr. Christopher E. Mason
Distinguished Conference Co-Hosts; PIs for MetaSUB Stockholm and MetaSUB New York City
17:45
Depart for Dinner
18:30 – 22:30
Shrimp Cruise Dinner
Wednesday, July 19, 2017 – Royal Academy of Engineering Sciences
8:00 – 8:30
“Precision Interplanetary Metagenomics”
Dr. Christopher Mason, Associate Professor of Computational Biology at Weill Cornell Medicine; PI for MetaSUB New York City
8:30 – 9:00
“Mapping the Urban Microbiome of New York City”
Dr. Jane Carlton, Professor, Director, Center for Genomics and Systems Biology, New York University, USA
9:00 – 9:30
“Boeing Fly-Healthy Study”
Dr. Howard Weiss, Professor of Mathematics, Georgia Tech, Atlanta, Georgia, USA
9:30 – 10:00
Coffee and Tea Break
10:00 – 11:00
Thematic Session I (panel discussion): Metagenomics, Health Surveillance, and Antibiotic Resistance
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Dr. Gaston Gonnet, Professor of Computer Science at ETH Zurich and Institut Pasteur Montevideo, Montevideo, Uruguay
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Dr. Lynn Schriml, Associate Professor of Epidemiology and Public Health at the Institute for Genome Sciences at University of Maryland School of Medicine, Baltimore, USA
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Dr. Torsten Semmler, Assistant Professor at Robert Koch Institute, Berlin, Germany
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Dr. Timothy Read, Professor of Infectious Diseases with Secondary Appointment in Human Genetics at Emory University School of Medicine, Atlanta, GA, USA
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Dr. Velavan Thirumalaisamy, Professor of Infectious Diseases at the Institute for Tropical Medicine, Universitätsklinikum Tübingen, Tübingen, Germany
11:00 – 11:30
Sponsored Talk by QIAGEN
11:30 – 12:00
CAMDA MetaSUB Challenge
Dr. Paweł Łabaj, Assistant Professor at Boku University, Vienna, Austria
12:00 – 13:00
Lunch
13:00 – 14:00
Thematic Session II (panel discussion): Advances in Bioinformatics and Data Visualization
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David Danko, PhD Candidate in computational biology at Weill Cornell Medicine
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Dr. Pawel Labaj, Assistant Professor at Boku University, Vienna, Austria
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Dr. Nicolas Rascovan, Post-Doctoral Fellow at Mediterranee Infection Institute – Aix Marseille University, Marseille, France
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Dr. Hugues Richard, Assistant Professor in the Computational and Quantitative Biology Unit at University Pierre et Marie Curie, Paris, France
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Dr. Dimitar Vassilev, Associate Professor of Computer Informatics at University of Sofia, Sofia, Bulgaria
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Dr. Eran Elhaik, Professor University of Sheffield, U.K
14:00 – 14:30
Olympiome Updates
Dr. Emmanual Dias-Neto, Professor of medical genomics and bioinformatics at AC Camargo Center, Sao Paulo, Brazil
14:30 – 15:00
Coffee and Tea Break (visit sponsors)
15:00 – 17:00
Lightening Round: City Updates
15-minute talks on city updates and data analyses
17:00 – 18:00
Data Dissemination and Access
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Demo of metagenscope and other tools
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Ideas for new pipelines/methods
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SRA/ENA/Gates Open Access
18:00 – 18:40
Break, Sponsor Visits, and Networking
19:00 – 1:00
Visit to the Vasa Museum and dinner (Night at the Museum!)
Thursday, July 20, 2017 – Stockholm University – open to the public
8:00 – 8:30
Coffee and Tea
8:30 – 9:30
Poster Session (highlighted posters below)
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Xinzhao Tong, “Individual factors and conditionally rare taxa shape the skin mycobiome dynamics over seasons”
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Dr. Aspa D. Chatziefthmiou, “Microbial community structure and inter-phyla interactions exhibit distinct patterns in desert marine mats”
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Andre Kahles, “Metagenome Representation with Scalable Reference Graphs”
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Marcus Leung et al, “Composition and dynamics of the air microbiome within a zero carbon building”
9:30 – 10:00
“Precision Medicine and Standardization in Genomics and Bioinformatics”
Dr. Leming Shi, Professor of Personalized Genomics, Fudan University, China; PI for MetaSUB Shanghai
10:00 – 11:00
Thematic Session III (panel discussion): Air, Land, and Sea; Challenges in Metagenomics Standardization
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Daniela Bezdan, Research Director of Mason Lab for Integrative Genomics, Weill Cornell Medicine, New York City, USA
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Dr. Aspa D. Chatziefthmiou, Research Scientist at Weill Cornell Medicine Doha and Founder of Richer Environments, Doha, Qatar
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Dr. Patrick Lee, Assistant Professor in the School of Energy and Environment at the City University of Hong Kong, Hong Kong, China
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Dr. Marius Dybwad, Research Scientist at the Norwegian Defense Research Establishment
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Dr. Gaston Gonnet, Professor of Computer Science at ETH Zurich and Institut Pasteur Montevideo, Montevideo, Uruguay
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Dr. Haruo Suzuki, Associate Professor, Institute for Advanced Biosciences, Keio University, Japan
11:00 – 12:00
Lunch
12:00 – 12:30
Sponsored Talk by Illumina
12:30 – 14:10
Highlighted Student Talks
14:10 – 14:40
Thematic Session IV (panel discussion): Metatranscriptomics and Viral RNA -Omics
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Dr. Emmanuel Dias-Neto, Assistant Professor of Genomics at AC Camargo Cancer Center, Sao Paulo, Brazil
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Dr. Nicolas Rascovan, Post-Doctoral Fellow at Mediterranee Infection Institute – Aix Marseille University, Marseille, France
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Dr. Christopher E. Mason, Associate Professor at Weill Cornell Medicine, New York City, USA