Markus Stocker bio photo

Markus Stocker

Between information technology and environmental science with a flair for economics, the clarinet, and the world of soups and salads.

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Curriculum Vitae

Overview

Research group leader at the German National Library of Science and Technology (TIB). Interested in knowledge infrastructures, in particular research infrastructures for the earth and environmental sciences. I hold a PhD in Environmental Informatics from the University of Eastern Finland, a MSc in Environmental Science from the University of Eastern Finland, and a Diploma (MSc) in Informatics from the University of Zurich, Switzerland. Prior to TIB, I held a postdoctoral research associate position at PANGAEA, the Data Publisher for Earth & Environmental Science, at the MARUM Center for Marine Environmental Sciences, University of Bremen, Germany. I continue to be affiliated with MARUM. As a member of the Research Data Alliance (RDA), I am involved in various groups, in particular the WG Persistent Identification of Instruments and the IG From Observational Data to Information. Author of Wavellite, a software framework for situation awareness in environmental monitoring, and Emrooz, a scalable database for sensor data, I have several years of professional experience in software development and semantic technologies, with positions at Hewlett Packard Labs, Bristol, UK and Clark & Parsia, Washington DC, USA. I enjoy working together with scientists and have experiences with aerosol scientists, biogeochemists, and agricultural scientists. I actively collaborate with environmental research infrastructures, in particular ACTRIS and ICOS.

Education

I graduated in 2015 with a doctorate (PhD) in Environmental Sciences (Informatics) at the Faculty of Science and Forestry, Department of Environmental and Biological Sciences, Research Group of Environmental Informatics of the University of Eastern Finland, Kuopio, supervised by Professor Mikko Kolehmainen, DSc. The PhD dissertation—entitled Situation Awareness in Environmental Monitoring—explored the representation of situational knowledge extracted from processed data acquired from environmental sensor networks, for situation awareness applications and in environmental research infrastructures. I developed Wavellite and various Wavellite applications.

I graduated in 2017 with a MSc in Environmental Sciences at the University of Eastern Finland. Key areas included biogeochemistry, soil ecology, risk assessment, exposure assessment, environmental health, and environmental epidemiology. The MSc dissertation—entitled Semantic Representation of Marine Monitoring Data—explored the application of semantic technologies to represent and link metadata about and data by sensors utilized in marine monitoring and observation systems.

I graduated in 2007 with a diploma (MSc) in Informatics at the Faculty of Economics, Business Administration and Information Technology, Department of Informatics of the University of Zurich, Switzerland, with a diploma thesis supervised by Professor Abraham Bernstein, PhD. Dynamic and distributed information systems, database technologies and software engineering were key areas during the MSc in Informatics. The aim of the MSc dissertation—entitled The Fundamentals of iSPARQL—was to extend the SPARQL query language with similarity measures such that RDF resources can be queried and ranked according to their similarity. Furthermore, we investigated SPARQL query optimization techniques, in particular by means of basic graph pattern selectivity estimation.

Languages

Italian is my mother tongue. I grew up speaking Swiss German and I’m fluent in German. Combined, I spent two years in the UK and the US, where I attained proficiency in English language. I completed the TOEFL iBT with score 110/120. French was my first foreign language in elementary school and I took French classes until the end of high school. I took two semesters of Finnish language classes at the University of Eastern Finland.

Employment

Technische Informationsbibliothek, Hannover, Germany
12/2017 - Present | Research Group Leader | 100%

Leading the Knowledge Infrastructures research group.

University of Bremen, Bremen, Germany
02/2016 - 11/2017 | Research Associate | 100%

Research associate involved in THOR, ENVRIplus, OpenAIRE2020, and GFBio. THOR is a Horizon 2020 project that aims at seamless integration between articles, data, and researchers across the research lifecycle. ENVRIplus is a Horizon 2020 project that brings together Environmental and Earth System Research Infrastructures, projects and networks, and technical specialist partners to create a more coherent, interdisciplinary and interoperable cluster of Environmental Research Infrastructures across Europe. OpenAIRE2020 is a Horizon 2020 project and large-scale initiative that aims to promote open scholarship and substantially improve the discoverability and reusability of research publications and data. GFBio is a DFG funded project and is the authoritative, national contact point for issues concerning the management and standardisation of biological research data during the entire data lifecycle.

University of Eastern Finland, Kuopio, Finland
09/2009 - 01/2016 | Research Assistant | 40-100%

Assisted the implementation of numerous research projects in collaboration with Finnish universities and industry, specifically in modelling methods for situation awareness; smart grids and energy markets; measurement, monitoring and environmental efficiency assessment; high-quality measurement infrastructure for future resilient control systems; and biomass atlas.

Clark & Parsia LLC, Washington, DC, USA
02/2008 - 01/2009 | Software Engineer | 100%

R&D in semantic web technologies with focus on reasoning techniques. Involved in the development of Owlgres, a scalable OWL reasoner implemented on top of PostgreSQL; development of a proof-of-concept application for policy management with XACML-DL; maintenance and development of the Pellet OWL reasoner; design and implementation of a customer project on SPARQL querying over distributed data sources with inference at query time. A paper describing Owlgres was presented at the OWLED 2008 workshop.

HP Laboratories Bristol, UK
05/2007 - 10/2007 | Software Engineer | 100%

Design and development of the ARQ-Optimizer, a cost based static SPARQL query optimizer. The optimizer was fully integrated into ARQ, the Jena SPARQL query processor. A paper describing the results was presented at the WWW 2008 conference.

University of Zurich, Zurich, Switzerland
12/2006 - 04/2007 | Research Assistant | 60%

Research on static SPARQL query optimization with focus on future work identified during the MSc dissertation. The resulting proposal The Scalable Triple Store - Towards Web Scale Storage for RDF Data submitted to the Swiss National Science Foundation was awarded with a grant totalling CHF 168,650.

Farner Consulting AG, Zurich, Switzerland
11/2005 - 03/2007 | Software Developer | 60%

Design and development of Intranet applications. Migration of Farner’s work hours reporting software. End-user software training for employees and customers.

Flooring Adventures LLC, Virginia, USA
08/2005 - 09/2005 | Software Developer | 100%

Design and development of a new e-commerce Web application for Tuff-Seal Tiles, the core product of Flooring Adventures LLC.

Archivista GmbH, Zurich, Switzerland
07/2004 - 10/2004 | Software Developer | 100%

Design and development of an invoicing solution for the company. Responsible for all project phases, from requirements analysis to documentation and end-user training.

Archivista GmbH, Zurich, Switzerland
03/2003 - 12/2005 | Software Developer | 50%

Design and development of software projects for national and international customers. Project leader of the Web-client application for the company’s archiving system. The Web-client became the core component within the company’s product range.

Archivista GmbH, Zurich, Switzerland
04/2002 - 02/2003 | Software Developer | 20%

Migration of the software documentation for the company’s archiving system from Microsoft Word to LaTeX.

Neolution GmbH, Zurich, Switzerland
03/2002 - 02/2003 | Software Developer | 20%

Development of Internet and Intranet Web applications for various customers.

Julius Baer Investment Funds Services, Zurich, Switzerland
10/1999 - 02/2002 | Software Developer | 20%

Design and development of Intranet Web applications.

Julius Baer Investment Funds Services, Zurich, Switzerland
06/1999 - 09/1999 | IT Support | 100%

Software installation and configuration.

Teaching

Introduction to writing with LaTeX
MARUM, University of Bremen, Bremen, Germany, May 12, 2017

Supervision

Jukka Hirvonen, MSc dissertation
University of Eastern Finland, Kuopio, Finland, 2014

Peer Review

Applied Soft Computing
Data Science Journal
Earth Science Informatics
Entropy
Environmental Modelling & Software
IEEE Transactions on Knowledge and Data Engineering
IEEE Transactions on Systems, Man, and Cybernetics: Systems
IET Signal Processing
Information Systems
International Journal of Geographical Information Science
Multimedia Tools and Applications
Sensors
Telematics and Informatics

Program Comittee

Multimedia Technologies for Environmental & Biodiversity Informatics (Springer)

Ninth International Conference on Knowledge Capture
Austin, Texas, USA, December 4-6, 2017

International Workshop on Environmental Multimedia Retrieval
In Conjunction with ACM International Conference on Multimedia Retrieval
Shanghai, China, June 23-26, 2015

International Workshop on Environmental Multimedia Retrieval
In Conjunction with ACM International Conference on Multimedia Retrieval
Glasgow, UK, April 1, 2014

Conferences

RDA Plenary 10
Montréal, Canada, September 19-21, 2017

Geospatial Sensor Webs Conference 2017
Münster, Germany, August 28-30, 2017

Workshop Ontology & Semantic Web for Biodiversity & Ecosystem Research
Lecce, Italy, July 11-14, 2017

Symposium on Linking Environmental Data and Samples
Canberra, Australia, May 29 - June 2, 2017
Slides (Keynote)

EGU General Assembly 2017
Vienna, Austria, April 24-28, 2017
Slides

RDA Plenary 9
Barcelona, Spain, April 3-7, 2017

AGU Fall Meeting
San Francisco, California, USA, December 12-16, 2016

3rd ENVRIweek
Prague, Czech Republic, November 14-18, 2016

PIDapalooza
Reykjavik, Iceland, November 9-10, 2016
Slides

International Data Week
Denver, Colorado, USA, September 12-17, 2016

First International Workshop on Reproducible Open Science
Hannover, Germany, September 9, 2016
Slides

2nd ENVRIweek
Zandvoort, The Netherlands, May 9-13, 2016

EGU General Assembly 2016
Vienna, Austria, April 17-22, 2016
Slides

1st ENVRIweek
Prague, Czech Republic, November 16-17, 2015

International Workshop on Semantic Sensor Networks and Terra Cognita
Bethlehem, Pennsylvania, USA, October 11, 2015
Slides

International Conference on Knowledge Engineering and Semantic Web
Moscow, Russia, September 30 - October 2, 2015
Slides (Keynote)

International Symposium on Environmental Software Systems
Melbourne, Australia, March 25-27, 2015
Slides 1 | Slides 2 | Slides 3

International Congress on Environmental Modelling and Software
San Diego, California, USA, June 15-19, 2014
Slides 1 | Slides 2

International Symposium on Environmental Software Systems
Neusiedl am See, Austria, October 9-11, 2013
Slides

Artificial Intelligence Applications and Innovations Conference
Halkidiki, Greece, September 27-30, 2012
Slides

International Congress on Environmental Modelling and Software
Leipzig, Germany, July 1-5, 2012
Slides

International Symposium on Environmental Software Systems
Brno, Czech Republic, June 27-29, 2011
Slides

International Conference on Adaptive and Natural Computing Algorithms
Kuopio, Finland, April 23-25, 2009

International World Wide Web Conference
Beijing, China, April 24, 2008
Slides

European Semantic Web Conference
Innsbruck, Austria, June 3-7, 2007

IEEE European Conference on Web Services
Zurich, Switzerland, December 4-6, 2006

Outreach

ACTRIS Data Center
Norwegian Institute for Air Research
Kjeller, Norway, October 23-27, 2017

ORCID and its integration in PANGAEA
GEO, Bremen, Germany, July 7, 2017

ORCID and its integration in PANGAEA
MARUM, Bremen, Germany, June 12, 2017

PostDoc Day
MARUM, Bremen, Germany, May 19, 2017

THOR-ENVRIplus Bootcamp on
ORCID Integrations in Environmental Research Infrastructures
Helsinki, Finland, March 28-29, 2017
(Chair)

Max Planck Institute for Biogeochemistry
Jena, Germany, August 25, 2016
Slides

LI-COR
Berlin, Germany, July 27, 2016
Slides

PostDoc Day
MARUM, Bremen, Germany, June 1, 2016

ICOS Carbon Portal
Lund University, Lund, Sweden, August 10-14, 2015
Slides 1 | Slides 2 | Slides 3

Terrestrial Ecosystem Research Network
University of Adelaide, Adelaide, Australia, March 23, 2015
Slides

Integrated Carbon Observation System
University of Helsinki, Helsinki, Finland, December 9, 2014
Slides

Harvest Symposium
University of Eastern Finland, Kuopio, Finland, November 28, 2014
Slides

Vaisala Technology Transfer Seminar
Helsinki, Finland, October 31, 2014
Slides

SMEAR Field Station
Hyytiälä, Finland, September 10, 2014

Distributed Information Systems Laboratory
EPFL, Lausanne, Switzerland, August 11, 2014

MTT Agrifood Research Finland
Helsinki, Finland, April 14, 2014
Slides

Distributed Systems Laboratory
Âbo Akademi University, Turku, Finland, April 4, 2013
Slides

Aerosol Physics Group
University of Eastern Finland, Kuopio, Finland, March 21, 2013
Slides

Sino-Finnish Environmental Research Center
University of Eastern Finland, Kuopio, Finland, August 23, 2012
Slides

Environmental Informatics Seminar
University of Eastern Finland, Kuopio, Finland, March 13, 2012
Slides

Journal Club in Biogeochemistry
University of Eastern Finland, Kuopio, Finland, February 3, 2012
Slides

Sino-Finnish Environmental Research Centre
Nanjing University, Nanjing, China, October 30 - November 4, 2011
Slides

Sino-Finnish Environmental Research Centre
University of Eastern Finland, Joensuu, Finland, August 22-23, 2011
Slides

Informatics and Sustainability Group
University of Zurich, Zurich, Switzerland, August 5, 2011

Basque Center for Climate Change
Bilbao, Spain, August 2, 2011

Dalle Molle Institute for Artificial Intelligence
Lugano, Switzerland, June 18, 2009
Slides

Washington Semantic Web Group
Washington DC, USA, October 16, 2008

University of Manchester
Manchester, UK, October 23, 2007
Slides

Activities

Co-chair of the RDA IG From Observational Data to Information
Co-chair of the RDA WG Persistent Identification of Instruments
Advisory Board Environmental Informatics and Modeling
Chair of the University of Eastern Finland Doctoral Student Association (2014)
Vice chair of the University of Eastern Finland Doctoral Student Association (2013)
Member of the European Geosciences Union
Member of the International Society for Environmental Information Sciences
Member of the International Environmental Modelling & Software Society

Coursera

Getting and Cleaning Data
Jeff Leek, Johns Hopkins University, May 11, 2015
Certificate

R Programming
Roger D. Peng, Johns Hopkins University, April 04, 2015
Certificate

The Data Scientist’s Toolbox
Roger D. Peng, Johns Hopkins University, April 03, 2015
Certificate

Understanding Europe: Why It Matters and What It Can Offer You
Alberto Alemanno, HEC Paris, July 21, 2014
Certificate

The Changing Global Order
Madeleine O. Hosli, Universiteit Leiden, July 14, 2014
Certificate

Analyzing Global Trends for Business and Society
Mauro F. Guillén, University of Pennsylvania, July 2, 2014
Certificate

Practical Ethics
Peter Singer, Princeton University, June 21, 2014

Buddhism and Modern Psychology
Robert Wright, Princeton University, May 11, 2014

Moralities of Everyday Life
Paul Bloom, Yale University, March 8, 2014
Certificate

Machine Learning
Andrew Ng, Stanford University, July 2, 2012

Model Thinking
Scott E. Page, University of Michigan, April 11, 2012