Stéphane Joost
Maître d'enseignement et de recherche
stephane.joost@epfl.ch +41 21 693 57 82 https://www.epfl.ch/labs/lasig/
EPFL ENAC SSIE-GE
GC D2 398 (Bâtiment GC)
Station 18
CH-1015 Lausanne
EPFL ENAC IIE LASIG
GC D2 398 (Bâtiment GC)
Station 18
CH-1015 Lausanne
Projects
- METASANTE (NCCR LIVES, UNIL, UNISANTE, VILLE de LAUSANNE)
- Local Adaptation of freshwater bacteria Communities (ENAC)
- Impact of climate and land planning on the occurrence of hepatitis E virus (ENAC)
- GEOSAN (ETAT VD)
- GEOSMOKE (FPT OFSP)
- SAFE (FHW Geneva)
- IMAGE (EU H2020)
- GENMON (BLW)
- ADAPTMAP
- CLIMGEN (ERANET)
- GREENTRACE (CROSS)
- URBANGENE (ETAT GE)
- GENESCALE (SNF)
- NEXTGEN (EU FP7)
- GENOMIC RESOURCES (ESF RNP)
- SAVMAP (CODEV)
- PIGDIV (CODEV)
- MESSAGE (SATW)
- GLOBALDIV (EU)
- ECONOGENE (EU FP5)
Ph.D. Thesis
Media
Capsule NOUVO: écologie moléculaire des papillons en milieu urbain - Rochat et al. (2017) Heredity [NOUVO RTS, le 22.8.2017]
Comment les vaches s'adapteront-elles au changement climatique? [RTS Intercités, Journal du matin, le 3.5.2017]
Why do we need traditional livestock breeds adapted to their local environment? SwissInfo.ch [16.12.2015]
Awards
- Winner of the AAGs first William L. Garrison Award for best dissertation in computational geography
(AAG website) Garrison Award
Commissions and boards
Member of the Commission on Geovisualization of the International Cartographic Association (ICA, http://geoanalytics.net/ica/)
Secretary General of the Geographic Information Technology Training Alliance steering committee (GITTA)
Researcher ID
Mission
I specialized in the contribution of Geographic Information Science approaches for the analysis and for the management of genetic and health data. Within a small landscape genetics research group at the Laboratory of Geographic Information Systems (LASIG), I apply spatial analysis, spatial statistics, spatial modelling, and geocomputational methods to evolutionary biology and health data. I also make use of environmental engineering monitoring tools (e.g. meteorological stations, airborne sensors) to enhance the quality and the spatial resolution of geo-environmental data used in landscape genomics models.
GIScience : Spatial analysis, Spatial statistics, Geocomputation, Exploratory spatial data analysis
Spatial analysis of genetic (Landscape Genetics, Landscape Genomics, Conservation genetics) and health data (see GIRAPH group)
I currently serve on the editorial boards of BMC Genetics (associate editor), Frontiers in Genetics (associate editor), Frontiers in Ecology and Evolution (review editor), Frontiers in Environmental Informatics (review editor) and of the International Journal of Geomatics and Spatial Analysis (Revue Internationale de Géomatique). I also serve on the standing committee of the Association of American Geographers (AAG) for the attribution of the William L. Garrison award for best dissertation in computational geography.
GIScience : Spatial analysis, Spatial statistics, Geocomputation, Exploratory spatial data analysis
Spatial analysis of genetic (Landscape Genetics, Landscape Genomics, Conservation genetics) and health data (see GIRAPH group)
I currently serve on the editorial boards of BMC Genetics (associate editor), Frontiers in Genetics (associate editor), Frontiers in Ecology and Evolution (review editor), Frontiers in Environmental Informatics (review editor) and of the International Journal of Geomatics and Spatial Analysis (Revue Internationale de Géomatique). I also serve on the standing committee of the Association of American Geographers (AAG) for the attribution of the William L. Garrison award for best dissertation in computational geography.
Biography
2012 Co-founder Geographic Information Research and Analysis in Public Health (GIRAPH)
2008 Co-founder MicroGIS Foundation for Spatial Analysis (MFSA)
1996 Co-founder MicroGIS SA
2008 Co-founder MicroGIS Foundation for Spatial Analysis (MFSA)
1996 Co-founder MicroGIS SA
Liens
MOOCs recorded
Compétences
Geographic Information Science - Landscape genomics - Seascape genomics - Spatial epidemiology - Geomedicine & Precision population health
Publications
Infoscience
References
Les données en-ligne ne sont pas accessibles. Population density and water balance influence the global occurrence of hepatitis E epidemics, in Scientific Reports, vol. 9, num. 10042, p. 1-10, 2019-07-11.
. Neighbourhood socioeconomic deprivation and allostatic load: a multi-cohort study, in Scientific Reports, vol. 9, num. 8790, p. 1-11, 2019-06-19.
. Rapid identification and interpretation of gene‐environment associations using the new R.SamBada landscape genomics pipeline, in Molecular Ecology Resources, vol. ahead of print, 2019-06-01.
. Addressing Urban Sprawl from the Complexity Sciences, in Urban Science, vol. 3, num. 2, p. 60, 2019-06-01.
. Indication of spatially random occurrence of Chlamydia-like organisms in Bufo bufo tadpoles from ponds located in the Geneva metropolitan area, in New Microbes and New Infections, vol. 27, p. 54-63, 2019-01-31.
. Genome-wide variation in nucleotides and retrotransposons in alpine populations of Arabis alpina (Brassicaceae), in Molecular Ecology Resources, vol. 19, num. 3, p. 773-787, 2019-01-13.
. Landscape Genomics: Understanding Relationships Between Environmental Heterogeneity and Genomic Characteristics of Populations, in Population Genomics: Concepts, Strategies, and Applications, p. 261-322Springer, Cham, 2019.
. Genome-wide SNP profiling of worldwide goat populations reveals strong partitioning of diversity and highlights post-domestication migration routes, in Genetics Selection Evolution, vol. 50, p. 58BMC, London, 2018.
. Signatures of selection and environmental adaptation across the goat genome post-domestication, in Genetics Selection Evolution, vol. 50, p. 57BMC, London, 2018.
. AdaptMap: exploring goat diversity and adaptation, in Genetics Selection Evolution, vol. 50, p. 61BMC, London, 2018.
. The impact of a public smoking ban on smoking socioeconomic inequalities in a Swiss urban population, in European Journal Of Public Health, vol. 28, p. 138-138OXFORD UNIV PRESS, Oxford, 2018.
. Spatial distribution of mammography adherence in a Swiss urban population and its association with socioeconomic status, in Cancer Medicine, vol. 7, num. 12, p. 6299-6307, 2018-10-25.
. Combining Landscape Genomics and Ecological Modelling to Investigate Local Adaptation of Indigenous Ugandan Cattle to East Coast Fever, in Frontiers in Genetics, vol. 9, num. 385, p. 1-16, 2018-10-03.
. Crystal structure evaluation: calculating relative stabilities and other criteria: general discussion, in Faraday Discussions, vol. 211, p. 325-381, 2018-10-01.
. Developing Attitude Measures Based on Respondents’ Representations of Unfamiliar Objects, in Field Methods, p. 1525822X1879728, 2018-09-03.
. Spatial distribution of mammography adherence in a Swiss urban population and its association with socioeconomic status, in BioRxiv preprint, p. 404673, 2018-08-31.
. Indication of spatially random infection of chlamydia-like organisms in Bufo bufo tadpoles from ponds located in the Geneva metropolitan area, submitted in BioRxiv preprint, p. 402487, 2018-08-30.
. Detecting overlapping spatial clusters of high sugar-sweetened beverage intake and high body mass index in a general population: a cross-sectional study, submitted in BioRxiv preprint, p. 2018/08/29/399584, 2018-08-29.
. The Least Cost Path From Landscape Genetics to Landscape Genomics: Challenges and Opportunities to Explore NGS Data in a Spatially Explicit Context, in Frontiers in Genetics, vol. 9, p. 1-4, 2018-06-19.
. Spatial clusters of daytime sleepiness and association with nighttime noise levels in a Swiss general population (GeoHypnoLaus), in International Journal of Hygiene and Environmental Health, p. 1-7, 2018-06-04.
. NTIRE 2018 Challenge on Spectral Reconstruction from RGB Images. IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR), Salt Lake City, UT, 2018.
. Population density and water balance influence the global occurrence of hepatitis E epidemics. 16th Annual Ecology and Evolution of Infection Diseases - EEID, Glasgow, Scotland, 2018.
. NTIRE 2018 Challenge on Spectral Reconstruction from RGB Images. IEEE Conference on Computer Vision and Pattern Recognition Workshops 2018, Salt Lake City, USA, 2018.
. Switchable Light Reflectance in Dilute Magneto-Optical Colloids Based on Nickel Ferrite Nanowires, in E-JOURNAL OF SURFACE SCIENCE AND NANOTECHNOLOGY, vol. 16, p. 119-121, 2018.
. Combining landscape genomics and ecological modelling to investigate local adaptation of indigenous Ugandan cattle to East Coast fever, in BioRxiv, p. 1-52, 2018.
. Convergent genomic signatures of domestication in sheep and goats, in Nature Communications, vol. 9:813, num. 1, 2018.
. Some unexpected facets of open access geodata publishing. Noon Talks EPFL Library, Lausanne, Switzerland, 2018.
. Effets de l'environnement urbain sur la santé: l’importance des données géoréférencées au lieu de résidence en géomédecine. 19e Conférence nationale sur la promotion de la santé et 4e Conférence des parties prenantes MNT - Promotion Santé Suisse, Eventfabrik, Berne, 2018.
. Public smoking ban and socioeconomic inequalities in smoking prevalence and cessation: a cross-sectional population-based study in Geneva, Switzerland (1995–2014), in Tobacco Control, vol. 27, num. 6, p. 663-669, 2018.
. Multiscale landscape genomic models to detect signatures of selection in the alpine plant Biscutella laevigata, in Ecology and Evolution, vol. 8, p. 1794-1806, 2018.
. Healthy Urban Planning: Body Mass Index association with exposure to night-time noise in the canton of Geneva. GeoMed, Porto, 2017-09-07.
. Modeling the present and future distribution of waterborne Hepatitis E virus. IECID 2017 Impact of Environmental Change on Infectious Diseases, Trieste, Italy, 2017-05-17.
. Des médecins à la direction de l’urbanisme ?. Forum Bâtir et Planifier "Villes en pleine santé", Lausanne, EPFL, Switzerland, 2017.
. Données médicales et génétiques géoréférencées au lieu de résidence pour un service de santé publique de précision. Swiss Public Health Conference 2017, Basel, Switzerland, 2017.
| Lassueur, T., Joost, S., Randin, C. 2006 Ecological Modelling, 198:139-153 |
Very high resolution digital elevation models: do they improve models of plant species distribution ? |
| Bertaglia, M., Joost, S., Roosen, J., and the Econogene Consortium 2007 Agricultural Systems, 94:657-670 |
Identifying European Marginal Areas in the Context of Local Sheep and Goat Breeds Conservation: A Geographic Information System Approach |
| Joost, S., Bonin, A., Taberlet, P., Caloz, R. 2008 Revue Internationale de G�omatique, 2:215-237 |
Un r�le pour la science de l'information g�ographique en �cologie mol�culaire: la d�tection de r�gions du g�nome soumises � la s�lection naturelle |
| Kalbermatten, M., Van De Ville, D., Turberg, P., Tuia, D., Joost, S. 2012 Geomorphology, 138:352�363 |
Multiscale analysis of geomorphological and geological features in high resolution digital elevation models using the wavelet transform |
| Joost, S., Bonin, A., Bruford, M.W., Despr�s, L., Conord, C., Erhardt, G., Taberlet, P. 2007 Molecular Ecology, 18:3955�3969 |
A Spatial Analysis Method (SAM) to detect candidate loci for selection: towards a landscape genomics approach to adaptation |
| Joost, S., Colli, L., Bonin, A., Biebach, I., Allendorf, F., Hoffmann, I., Hanotte, O., Taberlet, P., Bruford, M. and the GLOBALDIV Consortium 2011 Conservation Genetics Resources, 3:785�788 |
Promoting collaboration between livestock and wildlife conservation genetics communities |
| Parisod, C., Joost, S. 2010 Annals of Botany, doi: 10.1093/aob/mcq014 |
Divergent selection in trailing versus leading edge populations of Biscutella laevigata |
| Scott, E.C., Matzke, N.J., Branch, G., Steve et al. 2004 Annals of Improbable Research, July-August 2004 |
The Morphology of Steve |
| Pariset, L., Joost, S., Ajmone Marsan, P., Valentini, A. 2009 BMC Genetics, 10:7 |
Landscape genomics and biased FST approaches reveal Single Nucleotide Polymorphisms under selection in goat breeds of North-East Mediterranean |
| S. Joost, L. Colli, P. V. Baret, J. F. Garcia, P. J. Boettcher, M. Tixier-Boichard, P. Ajmone-Marsan, and Globaldiv Consortium 2010 Animal Genetics, 41(Suppl. 1):47-63 |
Integrating geo-referenced multiscale and multidisciplinary data for the management of biodiversity in livestock genetic resources |
| Joost, S., Kalbermatten, M., Bonin, A. 2008 Molecular Ecology Resources, 8:957�960 |
Spatial Analysis Method (SAM): a software tool combining molecular and environmental data to identify candidate loci for selection |
Enseignement & Phd
Enseignement
- Environmental Sciences and Engineering,
Programmes doctoraux
- Doctoral Program in Civil and Environmental Engineering
Doctorants
Bosch Padros MartíGaillard Solange Catherine
Ladoy Anaïs Laurence
Rochat Estelle
Salmi Andrea
Selmoni Oliver Michele
A dirigé les thèses de
Leempoel Kevin ...Stucki Sylvie ...
Cours
Exploratory data analysis and geovisualization
Ce cours permet d'acquérir les notions nécessaires à la mise en oeuvre d'approches spatiales exploratoires et à leur application à des données géoréférencées issues de cas d'études en ingénierie environnementale, en urbanisme et en épidémiologie spatiale. 