Publications by authors named "Matthieu Foll"

59Publications

A molecular map of lung neuroendocrine neoplasms.

Gigascience 2020 Oct;9(11)

Section of Genetics, International Agency for Research on Cancer (IARC-WHO), 150 cours Albert Thomas, 69372 Lyon CEDEX 08, France.

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http://dx.doi.org/10.1093/gigascience/giaa112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7596803PMC
October 2020

Detecting Selection from Linked Sites Using an F-Model.

Genetics 2020 Oct 16. Epub 2020 Oct 16.

University of Fribourg; Swiss Institute of Bioinformatics

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http://dx.doi.org/10.1534/genetics.120.303780DOI Listing
October 2020

Molecular studies of lung neuroendocrine neoplasms uncover new concepts and entities.

Transl Lung Cancer Res 2019 Dec;8(Suppl 4):S430-S434

International Agency for Research on Cancer (IARC/WHO), Section of Genetics, 150 Cours Albert Thomas, Lyon, France.

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http://dx.doi.org/10.21037/tlcr.2019.11.08DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6987337PMC
December 2019

Sex specific associations in genome wide association analysis of renal cell carcinoma.

Authors:
Ruhina S Laskar David C Muller Peng Li Mitchell J Machiela Yuanqing Ye Valerie Gaborieau Matthieu Foll Jonathan N Hofmann Leandro Colli Joshua N Sampson Zhaoming Wang Delphine Bacq-Daian Anne Boland Behnoush Abedi-Ardekani Geoffroy Durand Florence Le Calvez-Kelm Nivonirina Robinot Helene Blanche Egor Prokhortchouk Konstantin G Skryabin Laurie Burdett Meredith Yeager Sanja Radojevic-Skodric Slavisa Savic Lenka Foretova Ivana Holcatova Vladimir Janout Dana Mates Stefan Rascu Anush Mukeria David Zaridze Vladimir Bencko Cezary Cybulski Eleonora Fabianova Viorel Jinga Jolanta Lissowska Jan Lubinski Marie Navratilova Peter Rudnai Beata Świątkowska Simone Benhamou Geraldine Cancel-Tassin Olivier Cussenot Antonia Trichopoulou Elio Riboli Kim Overvad Salvatore Panico Borje Ljungberg Raviprakash T Sitaram Graham G Giles Roger L Milne Gianluca Severi Fiona Bruinsma Tony Fletcher Kvetoslava Koppova Susanna C Larsson Alicja Wolk Rosamonde E Banks Peter J Selby Douglas F Easton Paul Pharoah Gabriella Andreotti Laura E Beane Freeman Stella Koutros Demetrius Albanes Satu Männistö Stephanie Weinstein Peter E Clark Todd L Edwards Loren Lipworth Hallie Carol Matthew L Freedman Mark M Pomerantz Eunyoung Cho Peter Kraft Mark A Preston Kathryn M Wilson J Michael Gaziano Howard D Sesso Amanda Black Neal D Freedman Wen-Yi Huang John G Anema Richard J Kahnoski Brian R Lane Sabrina L Noyes David Petillo Bin Tean Teh Ulrike Peters Emily White Garnet L Anderson Lisa Johnson Juhua Luo Wong-Ho Chow Lee E Moore Toni K Choueiri Christopher Wood Mattias Johansson James D McKay Kevin M Brown Nathaniel Rothman Mark G Lathrop Jean-Francois Deleuze Xifeng Wu Paul Brennan Stephen J Chanock Mark P Purdue Ghislaine Scelo

Eur J Hum Genet 2019 10 23;27(10):1589-1598. Epub 2019 Jun 23.

International Agency for Research on Cancer (IARC), Lyon, France.

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http://dx.doi.org/10.1038/s41431-019-0455-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6777615PMC
October 2019

Exome sequencing identifies germline variants in DIS3 in familial multiple myeloma.

Leukemia 2019 09 9;33(9):2324-2330. Epub 2019 Apr 9.

ProfilExpert, Lyon, France.

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http://dx.doi.org/10.1038/s41375-019-0452-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6756025PMC
September 2019

Linking a mutation to survival in wild mice.

Science 2019 02 31;363(6426):499-504. Epub 2019 Jan 31.

Department of Organismic and Evolutionary Biology, Museum of Comparative Zoology, Harvard University, Cambridge, MA USA.

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http://dx.doi.org/10.1126/science.aav3824DOI Listing
February 2019

The influence of obesity-related factors in the etiology of renal cell carcinoma-A mendelian randomization study.

Authors:
Mattias Johansson Robert Carreras-Torres Ghislaine Scelo Mark P Purdue Daniela Mariosa David C Muller Nicolas J Timpson Philip C Haycock Kevin M Brown Zhaoming Wang Yuanqing Ye Jonathan N Hofmann Matthieu Foll Valerie Gaborieau Mitchell J Machiela Leandro M Colli Peng Li Jean-Guillaume Garnier Helene Blanche Anne Boland Laurie Burdette Egor Prokhortchouk Konstantin G Skryabin Meredith Yeager Sanja Radojevic-Skodric Simona Ognjanovic Lenka Foretova Ivana Holcatova Vladimir Janout Dana Mates Anush Mukeriya Stefan Rascu David Zaridze Vladimir Bencko Cezary Cybulski Eleonora Fabianova Viorel Jinga Jolanta Lissowska Jan Lubinski Marie Navratilova Peter Rudnai Simone Benhamou Geraldine Cancel-Tassin Olivier Cussenot Elisabete Weiderpass Börje Ljungberg Raviprakash Tumkur Sitaram Christel Häggström Fiona Bruinsma Susan J Jordan Gianluca Severi Ingrid Winship Kristian Hveem Lars J Vatten Tony Fletcher Susanna C Larsson Alicja Wolk Rosamonde E Banks Peter J Selby Douglas F Easton Gabriella Andreotti Laura E Beane Freeman Stella Koutros Satu Männistö Stephanie Weinstein Peter E Clark Todd L Edwards Loren Lipworth Susan M Gapstur Victoria L Stevens Hallie Carol Matthew L Freedman Mark M Pomerantz Eunyoung Cho Kathryn M Wilson J Michael Gaziano Howard D Sesso Neal D Freedman Alexander S Parker Jeanette E Eckel-Passow Wen-Yi Huang Richard J Kahnoski Brian R Lane Sabrina L Noyes David Petillo Bin Tean Teh Ulrike Peters Emily White Garnet L Anderson Lisa Johnson Juhua Luo Julie Buring I-Min Lee Wong-Ho Chow Lee E Moore Timothy Eisen Marc Henrion James Larkin Poulami Barman Bradley C Leibovich Toni K Choueiri G Mark Lathrop Jean-Francois Deleuze Marc Gunter James D McKay Xifeng Wu Richard S Houlston Stephen J Chanock Caroline Relton J Brent Richards Richard M Martin George Davey Smith Paul Brennan

PLoS Med 2019 01 3;16(1):e1002724. Epub 2019 Jan 3.

International Agency for Research on Cancer (IARC), Lyon, France.

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http://dx.doi.org/10.1371/journal.pmed.1002724DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6317776PMC
January 2019

Prediction of acute myeloid leukaemia risk in healthy individuals.

Nature 2018 07 9;559(7714):400-404. Epub 2018 Jul 9.

Princess Margaret Cancer Centre, University Health Network (UHN), Toronto, Ontario, Canada.

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http://dx.doi.org/10.1038/s41586-018-0317-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6485381PMC
July 2018

Corrigendum re "Genetic Variants Related to Longer Telomere Length are Associated with Increased Risk of Renal Cell Carcinoma" [Eur Urol 2017;72:747-54].

Authors:
Mitchell J Machiela Jonathan N Hofmann Robert Carreras-Torres Kevin M Brown Mattias Johansson Zhaoming Wang Matthieu Foll Peng Li Nathaniel Rothman Sharon A Savage Valerie Gaborieau James D McKay Yuanqing Ye Marc Henrion Fiona Bruinsma Susan Jordan Gianluca Severi Kristian Hveem Lars J Vatten Tony Fletcher Kvetoslava Koppova Susanna C Larsson Alicja Wolk Rosamonde E Banks Peter J Selby Douglas F Easton Paul Pharoah Gabriella Andreotti Laura E Beane Freeman Stella Koutros Demetrius Albanes Satu Mannisto Stephanie Weinstein Peter E Clark Todd E Edwards Loren Lipworth Susan M Gapstur Victoria L Stevens Hallie Carol Matthew L Freedman Mark M Pomerantz Eunyoung Cho Peter Kraft Mark A Preston Kathryn M Wilson J Michael Gaziano Howard S Sesso Amanda Black Neal D Freedman Wen-Yi Huang John G Anema Richard J Kahnoski Brian R Lane Sabrina L Noyes David Petillo Leandro M Colli Joshua N Sampson Celine Besse Helene Blanche Anne Boland Laurie Burdette Egor Prokhortchouk Konstantin G Skryabin Meredith Yeager Mirjana Mijuskovic Miodrag Ognjanovic Lenka Foretova Ivana Holcatova Vladimir Janout Dana Mates Anush Mukeriya Stefan Rascu David Zaridze Vladimir Bencko Cezary Cybulski Eleonora Fabianova Viorel Jinga Jolanta Lissowska Jan Lubinski Marie Navratilova Peter Rudnai Neonila Szeszenia-Dabrowska Simone Benhamou Geraldine Cancel-Tassin Olivier Cussenot H B As Bueno-de-Mesquita Federico Canzian Eric J Duell Börje Ljungberg Raviprakash T Sitaram Ulrike Peters Emily White Garnet L Anderson Lisa Johnson Juhua Luo Julie Buring I-Min Lee Wong-Ho Chow Lee E Moore Christopher Wood Timothy Eisen James Larkin Toni K Choueiri G Mark Lathrop Bin Tean Teh Jean-Francois Deleuze Xifeng Wu Richard S Houlston Paul Brennan Stephen J Chanock Ghislaine Scelo Mark P Purdue

Eur Urol 2018 09 28;74(3):e85-e86. Epub 2018 May 28.

Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Department Health and Human Services, Bethesda, MS, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S03022838183036
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http://dx.doi.org/10.1016/j.eururo.2018.05.017DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7400767PMC
September 2018

Molecular Subtypes of Pulmonary Large-cell Neuroendocrine Carcinoma Predict Chemotherapy Treatment Outcome.

Clin Cancer Res 2018 01 24;24(1):33-42. Epub 2017 Oct 24.

Department of Pulmonary Diseases, GROW School for Oncology & Developmental Biology, Maastricht University Medical Centre, Maastricht, the Netherlands.

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http://dx.doi.org/10.1158/1078-0432.CCR-17-1921DOI Listing
January 2018

Genetic Variants Related to Longer Telomere Length are Associated with Increased Risk of Renal Cell Carcinoma.

Authors:
Mitchell J Machiela Jonathan N Hofmann Robert Carreras-Torres Kevin M Brown Mattias Johansson Zhaoming Wang Matthieu Foll Peng Li Nathaniel Rothman Sharon A Savage Valerie Gaborieau James D McKay Yuanqing Ye Marc Henrion Fiona Bruinsma Susan Jordan Gianluca Severi Kristian Hveem Lars J Vatten Tony Fletcher Kvetoslava Koppova Susanna C Larsson Alicja Wolk Rosamonde E Banks Peter J Selby Douglas F Easton Paul Pharoah Gabriella Andreotti Laura E Beane Freeman Stella Koutros Demetrius Albanes Satu Mannisto Stephanie Weinstein Peter E Clark Todd E Edwards Loren Lipworth Susan M Gapstur Victoria L Stevens Hallie Carol Matthew L Freedman Mark M Pomerantz Eunyoung Cho Peter Kraft Mark A Preston Kathryn M Wilson J Michael Gaziano Howard S Sesso Amanda Black Neal D Freedman Wen-Yi Huang John G Anema Richard J Kahnoski Brian R Lane Sabrina L Noyes David Petillo Leandro M Colli Joshua N Sampson Celine Besse Helene Blanche Anne Boland Laurie Burdette Egor Prokhortchouk Konstantin G Skryabin Meredith Yeager Mirjana Mijuskovic Miodrag Ognjanovic Lenka Foretova Ivana Holcatova Vladimir Janout Dana Mates Anush Mukeriya Stefan Rascu David Zaridze Vladimir Bencko Cezary Cybulski Eleonora Fabianova Viorel Jinga Jolanta Lissowska Jan Lubinski Marie Navratilova Peter Rudnai Neonila Szeszenia-Dabrowska Simone Benhamou Geraldine Cancel-Tassin Olivier Cussenot H Bas Bueno-de-Mesquita Federico Canzian Eric J Duell Börje Ljungberg Raviprakash T Sitaram Ulrike Peters Emily White Garnet L Anderson Lisa Johnson Juhua Luo Julie Buring I-Min Lee Wong-Ho Chow Lee E Moore Christopher Wood Timothy Eisen James Larkin Toni K Choueiri G Mark Lathrop Bin Tean Teh Jean-Francois Deleuze Xifeng Wu Richard S Houlston Paul Brennan Stephen J Chanock Ghislaine Scelo Mark P Purdue

Eur Urol 2017 11 7;72(5):747-754. Epub 2017 Aug 7.

Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Department Health and Human Services, Bethesda, MS, USA. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S03022838173063
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http://dx.doi.org/10.1016/j.eururo.2017.07.015DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5641242PMC
November 2017

Genome-wide association study identifies multiple risk loci for renal cell carcinoma.

Authors:
Ghislaine Scelo Mark P Purdue Kevin M Brown Mattias Johansson Zhaoming Wang Jeanette E Eckel-Passow Yuanqing Ye Jonathan N Hofmann Jiyeon Choi Matthieu Foll Valerie Gaborieau Mitchell J Machiela Leandro M Colli Peng Li Joshua N Sampson Behnoush Abedi-Ardekani Celine Besse Helene Blanche Anne Boland Laurie Burdette Amelie Chabrier Geoffroy Durand Florence Le Calvez-Kelm Egor Prokhortchouk Nivonirina Robinot Konstantin G Skryabin Magdalena B Wozniak Meredith Yeager Gordana Basta-Jovanovic Zoran Dzamic Lenka Foretova Ivana Holcatova Vladimir Janout Dana Mates Anush Mukeriya Stefan Rascu David Zaridze Vladimir Bencko Cezary Cybulski Eleonora Fabianova Viorel Jinga Jolanta Lissowska Jan Lubinski Marie Navratilova Peter Rudnai Neonila Szeszenia-Dabrowska Simone Benhamou Geraldine Cancel-Tassin Olivier Cussenot Laura Baglietto Heiner Boeing Kay-Tee Khaw Elisabete Weiderpass Borje Ljungberg Raviprakash T Sitaram Fiona Bruinsma Susan J Jordan Gianluca Severi Ingrid Winship Kristian Hveem Lars J Vatten Tony Fletcher Kvetoslava Koppova Susanna C Larsson Alicja Wolk Rosamonde E Banks Peter J Selby Douglas F Easton Paul Pharoah Gabriella Andreotti Laura E Beane Freeman Stella Koutros Demetrius Albanes Satu Männistö Stephanie Weinstein Peter E Clark Todd L Edwards Loren Lipworth Susan M Gapstur Victoria L Stevens Hallie Carol Matthew L Freedman Mark M Pomerantz Eunyoung Cho Peter Kraft Mark A Preston Kathryn M Wilson J Michael Gaziano Howard D Sesso Amanda Black Neal D Freedman Wen-Yi Huang John G Anema Richard J Kahnoski Brian R Lane Sabrina L Noyes David Petillo Bin Tean Teh Ulrike Peters Emily White Garnet L Anderson Lisa Johnson Juhua Luo Julie Buring I-Min Lee Wong-Ho Chow Lee E Moore Christopher Wood Timothy Eisen Marc Henrion James Larkin Poulami Barman Bradley C Leibovich Toni K Choueiri G Mark Lathrop Nathaniel Rothman Jean-Francois Deleuze James D McKay Alexander S Parker Xifeng Wu Richard S Houlston Paul Brennan Stephen J Chanock

Nat Commun 2017 06 9;8:15724. Epub 2017 Jun 9.

Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Department Health and Human Services, Bethesda, Maryland 20892, USA.

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http://dx.doi.org/10.1038/ncomms15724DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5472706PMC
June 2017

BAP1 Is Altered by Copy Number Loss, Mutation, and/or Loss of Protein Expression in More Than 70% of Malignant Peritoneal Mesotheliomas.

J Thorac Oncol 2017 04 27;12(4):724-733. Epub 2016 Dec 27.

Faculty of Medicine, Research Team 3738, Lyon1 University, Oullins, France; French National Network for the Treatment of Rare Peritoneal Surface Malignancies, University Hospital of Lyon and Lyon1 University, Lyon, France; Department of Pathology, University Hospital of Lyon and Lyon1 University, Lyon, France.

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http://dx.doi.org/10.1016/j.jtho.2016.12.019DOI Listing
April 2017

An experimental evaluation of drug-induced mutational meltdown as an antiviral treatment strategy.

Evolution 2016 11 13;70(11):2470-2484. Epub 2016 Sep 13.

School of Life Sciences, École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland.

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http://dx.doi.org/10.1111/evo.13041DOI Listing
November 2016

Likelihood-Free Inference in High-Dimensional Models.

Genetics 2016 06 6;203(2):893-904. Epub 2016 Apr 6.

Department of Biology and Biochemistry, University of Fribourg, 1700 Fribourg, Switzerland Swiss Institute of Bioinformatics, 1700 Fribourg, Switzerland

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http://www.genetics.org/lookup/doi/10.1534/genetics.116.1875
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http://dx.doi.org/10.1534/genetics.116.187567DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4896201PMC
June 2016

Detecting and Quantifying Changing Selection Intensities from Time-Sampled Polymorphism Data.

G3 (Bethesda) 2016 04 7;6(4):893-904. Epub 2016 Apr 7.

School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne, Lausanne, Switzerland Swiss Institute of Bioinformatics, Lausanne, Switzerland.

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http://dx.doi.org/10.1534/g3.115.023200DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4825659PMC
April 2016

The past, present and future of genomic scans for selection.

Mol Ecol 2016 Jan;25(1):1-4

IBIS (Institut de Biologie Intégrative et des Systèmes), Université Laval, Québec, Québec, Canada.

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http://dx.doi.org/10.1111/mec.13493DOI Listing
January 2016

Inferring the age of a fixed beneficial allele.

Mol Ecol 2016 01 24;25(1):157-69. Epub 2015 Dec 24.

School of Life Sciences, Ecole Polytechnique Federale de Lausanne (EPFL), Lausanne, Switzerland.

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http://doi.wiley.com/10.1111/mec.13478
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http://dx.doi.org/10.1111/mec.13478DOI Listing
January 2016

Alterations in the NF2/LATS1/LATS2/YAP Pathway in Schwannomas.

J Neuropathol Exp Neurol 2015 Oct;74(10):952-9

From the International Agency for Research on Cancer, Lyon, France (JEO, TO, KS, MF, GD, JM, FCK, HO); Institute of Neurology (Edinger Institute), Goethe-University Frankfurt, Frankfurt/Main, Germany (MM); and Department of Neurosurgery (BB) and Institute of Neuropathology (WP), University Hospital Munster, Munster, Germany.

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http://pdfs.journals.lww.com/jneuropath/2015/10000/Alteratio
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http://jnen.oxfordjournals.org/lookup/doi/10.1097/NEN.000000
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http://dx.doi.org/10.1097/NEN.0000000000000238DOI Listing
October 2015

Quantifying polymorphism and divergence from epigenetic data: a framework for inferring the action of selection.

Front Genet 2015 28;6:190. Epub 2015 May 28.

School of Life Sciences, École Polytechnique Fédérale de Lausanne Lausanne, Switzerland ; Swiss Institute of Bioinformatics Lausanne, Switzerland.

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http://dx.doi.org/10.3389/fgene.2015.00190DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4446996PMC
June 2015

Detection of convergent genome-wide signals of adaptation to tropical forests in humans.

PLoS One 2015 7;10(4):e0121557. Epub 2015 Apr 7.

Computational and Molecular Population Genetics Laboratory, Institute of Ecology and Evolution, Berne, Switzerland; Swiss Institute of Bioinformatics, Lausanne, Switzerland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0121557PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4388690PMC
March 2016

Neutral and adaptive drivers of microgeographic genetic divergence within continuous populations: the case of the neotropical tree Eperua falcata (Aubl.).

PLoS One 2015 25;10(3):e0121394. Epub 2015 Mar 25.

INRA, UMR745 EcoFoG Ecologie des forêts de Guyane, Campus Agronomique BP316, 97379 Kourou Cedex, France; INRA, UR629 URFM Ecologie des Forêts Méditerranéennes, Domaine Saint Paul, Site Agroparc CS 40509, 84914 Avignon Cedex 9, France.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0121394PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4373894PMC
February 2016

Thinking too positive? Revisiting current methods of population genetic selection inference.

Trends Genet 2014 Dec 19;30(12):540-6. Epub 2014 Nov 19.

School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), 1015 Lausanne, Switzerland; Swiss Institute of Bioinformatics (SIB), 1015 Lausanne, Switzerland.

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http://www.cell.com/trends/genetics/pdf/S0168-9525(14)00158-
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http://linkinghub.elsevier.com/retrieve/pii/S016895251400158
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http://dx.doi.org/10.1016/j.tig.2014.09.010DOI Listing
December 2014

Continental-scale footprint of balancing and positive selection in a small rodent (Microtus arvalis).

PLoS One 2014 10;9(11):e112332. Epub 2014 Nov 10.

Computational and Molecular Population Genetics (CMPG), Institute of Ecology and Evolution, University of Bern, Bern, Switzerland; Swiss Institute of Bioinformatics, Lausanne, Switzerland.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0112332PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4226552PMC
July 2015

Widespread signals of convergent adaptation to high altitude in Asia and america.

Am J Hum Genet 2014 Oct 25;95(4):394-407. Epub 2014 Sep 25.

CMPG, Institute of Ecology and Evolution, University of Berne, Berne 3012, Switzerland; Swiss Institute of Bioinformatics, Lausanne 1015, Switzerland.

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http://dx.doi.org/10.1016/j.ajhg.2014.09.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4185124PMC
October 2014

Adaptive, convergent origins of the pygmy phenotype in African rainforest hunter-gatherers.

Proc Natl Acad Sci U S A 2014 09 18;111(35):E3596-603. Epub 2014 Aug 18.

Sainte-Justine Hospital Research Centre, Montreal, QC, Canada H3T 1C5; Institute of Ecology and Evolution, University of Bern, 3012 Bern, Switzerland;

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http://dx.doi.org/10.1073/pnas.1402875111DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4156716PMC
September 2014

WFABC: a Wright-Fisher ABC-based approach for inferring effective population sizes and selection coefficients from time-sampled data.

Mol Ecol Resour 2015 Jan 11;15(1):87-98. Epub 2014 Jun 11.

School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne (EPFL), Station 15, CH-1015, Lausanne, Switzerland; Swiss Institute of Bioinformatics, Lausanne, Switzerland.

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http://dx.doi.org/10.1111/1755-0998.12280DOI Listing
January 2015

Influenza virus drug resistance: a time-sampled population genetics perspective.

PLoS Genet 2014 Feb 27;10(2):e1004185. Epub 2014 Feb 27.

School of Life Sciences, École Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland ; Swiss Institute of Bioinformatics (SIB), Lausanne, Switzerland.

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http://dx.doi.org/10.1371/journal.pgen.1004185DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3937227PMC
February 2014

Robust demographic inference from genomic and SNP data.

PLoS Genet 2013 Oct 24;9(10):e1003905. Epub 2013 Oct 24.

CMPG, Institute of Ecology and Evolution, Berne, Switzerland ; Swiss Institute of Bioinformatics, Lausanne, Switzerland.

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http://dx.doi.org/10.1371/journal.pgen.1003905DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3812088PMC
October 2013

Approximate Bayesian computation.

PLoS Comput Biol 2013 10;9(1):e1002803. Epub 2013 Jan 10.

Department of Biosystems Science and Engineering, ETH Zurich, Zurich, Switzerland.

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http://dx.doi.org/10.1371/journal.pcbi.1002803DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3547661PMC
June 2013

Genomic data reveal a complex making of humans.

PLoS Genet 2012 19;8(7):e1002837. Epub 2012 Jul 19.

CMPG, Institute of Ecology and Evolution, Berne, Switzerland.

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http://dx.doi.org/10.1371/journal.pgen.1002837DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3400556PMC
January 2013

Evolutionary forces shaping genomic islands of population differentiation in humans.

BMC Genomics 2012 Mar 22;13:107. Epub 2012 Mar 22.

Computational and Molecular Population Genetics Lab, Institute of Ecology and Evolution, University of Bern, 3012 Bern, Switzerland.

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http://dx.doi.org/10.1186/1471-2164-13-107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3317871PMC
March 2012

Quantifying population structure using the F-model.

Mol Ecol Resour 2010 Sep 13;10(5):821-30. Epub 2010 May 13.

Laboratoire d'Ecologie Alpine, UMR CNRS 5553, Université Joseph Fourier, BP 53, 38041 GRENOBLE, France CMPG, Institute of Ecology and Evolution, University of Berne, 3012 Berne, Switzerland.

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http://dx.doi.org/10.1111/j.1755-0998.2010.02873.xDOI Listing
September 2010

fastsimcoal: a continuous-time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios.

Bioinformatics 2011 May 12;27(9):1332-4. Epub 2011 Mar 12.

Institute of Ecology and Evolution, University of Berne, Berne, Switzerland.

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http://dx.doi.org/10.1093/bioinformatics/btr124DOI Listing
May 2011

Enhanced AFLP genome scans detect local adaptation in high-altitude populations of a small rodent (Microtus arvalis).

Mol Ecol 2011 Apr 24;20(7):1450-62. Epub 2011 Feb 24.

Computational and Molecular Population Genetics, Institute of Ecology and Evolution, University of Bern, Baltzerstrasse 6, Bern, Switzerland.

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http://doi.wiley.com/10.1111/j.1365-294X.2011.05015.x
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http://dx.doi.org/10.1111/j.1365-294X.2011.05015.xDOI Listing
April 2011

SPLATCHE2: a spatially explicit simulation framework for complex demography, genetic admixture and recombination.

Bioinformatics 2010 Dec 17;26(23):2993-4. Epub 2010 Oct 17.

EnviroSPACE laboratory, Climate Change and Climate Impacts, Institute for Environmental Sciences, University of Geneva, Battelle - Building D, 7 route de Drize, 1227 Carouge, Switzerland.

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http://dx.doi.org/10.1093/bioinformatics/btq579DOI Listing
December 2010

Estimating population structure from AFLP amplification intensity.

Mol Ecol 2010 Nov 27;19(21):4638-47. Epub 2010 Sep 27.

Computational and Molecular Population Genetics (CMPG), Institute of Ecology and Evolution, University of Bern, Baltzerstrasse 6, CH-3012 Bern, Switzerland.

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http://dx.doi.org/10.1111/j.1365-294X.2010.04820.xDOI Listing
November 2010

Disentangling the effects of evolutionary, demographic, and environmental factors influencing genetic structure of natural populations: Atlantic herring as a case study.

Evolution 2009 Nov 16;63(11):2939-51. Epub 2009 Jul 16.

Laboratoire d'Ecologie Alpine, UMR CNRS 5553, Université Joseph Fourier, 38041 Grenoble, France.

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http://dx.doi.org/10.1111/j.1558-5646.2009.00779.xDOI Listing
November 2009

Correcting for ascertainment bias in the inference of population structure.

Bioinformatics 2009 Feb 9;25(4):552-4. Epub 2009 Jan 9.

Centre for Ecological and Evolutionary Synthesis, Department of Biology, University of Oslo, P.O. Box 1066, Blindern 0316, Oslo, Norway.

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http://dx.doi.org/10.1093/bioinformatics/btn665DOI Listing
February 2009

Identifying the environmental factors that determine the genetic structure of populations.

Genetics 2006 Oct 1;174(2):875-91. Epub 2006 Sep 1.

Laboratoire d'Ecologie Alpine (LECA), UMR CNRS 5553, 38 041 Grenoble Cedex 09, France.

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http://www.genetics.org/content/genetics/174/2/875.full.pdf
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http://www.genetics.org/cgi/doi/10.1534/genetics.106.059451
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http://dx.doi.org/10.1534/genetics.106.059451DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1602080PMC
October 2006