Christophe Dessimoz: Difference between revisions

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{{Infobox scientist
{{Cleanup bare URLs}}{{Infobox scientist
| name = Christophe Dessimoz
| name = Christophe Dessimoz
| honorific_suffix =
| honorific_suffix =
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| image_upright =
| image_upright =
| alt =
| alt =
| caption =
| caption = Christophe Dessimoz in 2014
| birth_name = <!-- if different from "name" -->
| birth_name = Christophe Dessimoz
| birth_date = <!--{{birth date |YYYY|MM|DD}}-->
| birth_date = {{birth year and age |1980}}
| birth_place =
| birth_place =
| death_date = <!--{{death date and age |YYYY|MM|DD |YYYY|MM|DD}} (death date then birth date)-->
| death_date = <!--{{death date and age |YYYY|MM|DD |YYYY|MM|DD}} (death date then birth date)-->
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| nationality =
| nationality =
| fields = [[Bioinformatics]]<br>[[Genomics]]<br>[[Phylogenetics]]<br>[[Evolution]]<br>[[Computational Biology]]<ref name=gs/>
| fields = [[Bioinformatics]]<br>[[Genomics]]<br>[[Phylogenetics]]<br>[[Evolution]]<br>[[Computational Biology]]<ref name=gs/>
| workplaces = [[University of Lausanne]]<br>[[European Bioinformatics Institute]]<br>[[University College London]]
| workplaces = [[University of Lausanne]]<br>[[European Bioinformatics Institute]]<br>[[University College London]]<br>[[Swiss Institute of Bioinformatics]]
| patrons =
| patrons =
| education =
| education =
| alma_mater = [[ETH Zurich]] (PhD)
| alma_mater = [[ETH Zurich]] (MSc, PhD)
| thesis_title = Comparative Genomics Using Pairwise Evolutionary Distances
| thesis_title = Comparative Genomics Using Pairwise Evolutionary Distances
| thesis_url = http://dx.doi.org/10.3929/ethz-a-005762050
| thesis_url = http://dx.doi.org/10.3929/ethz-a-005762050
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| doctoral_students =
| doctoral_students =
| notable_students =
| notable_students =
| known_for =
| known_for = [[Orthologous MAtrix]] (OMA)<ref name=oma/>
| influences =
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| website = {{URL|lab.dessimoz.org/people/christophe-dessimoz}}
| website = {{URL|lab.dessimoz.org/people/christophe-dessimoz}}
}}'''Christophe Dessimoz''' is a [[Swiss National Science Foundation]] (SNSF) Professor at the [[University of Lausanne]], Associate Professor at [[University College London]] and a group leader at the [[Swiss Institute of Bioinformatics]].<ref name=lab>{{cite web|url=https://lab.dessimoz.org/people/christophe-dessimoz|title=Dessimoz Lab - Christophe Dessimoz|website=lab.dessimoz.org}}</ref><ref name=gs>{{Google scholar id}}</ref><ref name=epmc>{{EuropePMC|ORCID=0000-0002-2170-853X}}</ref><ref name=scopus>{{Scopus id}}</ref><ref name=twitter>{{twitter}}</ref> He was awarded the [[Overton Prize]] in 2019 for his contributions to [[computational biology]].<ref name=overton>{{cite web|url=https://www.iscb.org/iscb-awards/3903|title=2019 Overton Prize: Christophe Dessimoz|website=iscb.org}}</ref>
}}'''Christophe Dessimoz''' is a [[Swiss National Science Foundation]] (SNSF) Professor at the [[University of Lausanne]], Associate Professor at [[University College London]] and a group leader at the [[Swiss Institute of Bioinformatics]].<ref name=lab>{{cite web|url=https://lab.dessimoz.org/people/christophe-dessimoz|title=Dessimoz Lab|first=Christophe |last=Dessimoz|year=2019|website=lab.dessimoz.org}}</ref><ref name=gs>{{Google scholar id}}</ref><ref name=epmc>{{EuropePMC|ORCID=0000-0002-2170-853X}}</ref><ref name=scopus>{{Scopus id}}</ref><ref name=twitter>{{twitter}}</ref> He was awarded the [[Overton Prize]] in 2019 for his contributions to [[computational biology]].<ref name=overton>{{cite web|url=https://www.iscb.org/iscb-awards/3903|author=Anon|year=2019|title=2019 Overton Prize: Christophe Dessimoz|website=iscb.org|publisher=International Society for Computational Biology}}</ref>


==Education==
==Education==
Dessimoz obtained his [[Master of biological sciences]] degree in 2003<ref name=lab/> and [[PhD]] in [[Computer Science]] in 2009 from [[ETH Zurich]] in [[Switzerland]].<ref name=dphd>{{cite thesis|degree=PhD|first=Christophe|last=Dessimoz|url=https://www.research-collection.ethz.ch/handle/20.500.11850/72801|year=2009|title=Comparative Genomics Using Pairwise Evolutionary Distances|doi=10.3929/ethz-a-005762050|website=ethz.ch|oclc=935351416|publisher=ETH Zurich}} {{open access}}</ref>
Dessimoz obtained his [[Master of Science]] degree in 2003<ref name=lab/> and [[PhD]] in [[Computer Science]] in 2009 from [[ETH Zurich]] in [[Switzerland]]<ref name=dphd>{{cite thesis|degree=PhD|first=Christophe|last=Dessimoz|url=https://www.research-collection.ethz.ch/handle/20.500.11850/72801|year=2009|title=Comparative Genomics Using Pairwise Evolutionary Distances|doi=10.3929/ethz-a-005762050|website=ethz.ch|oclc=935351416|publisher=ETH Zurich}} {{open access}}</ref> where his doctoral research was supervised by [[Gaston Gonnet]]<ref name=mathgene/> and examined by [[Amos Bairoch]].<ref name=dphd/>


==Career and research==
==Career and research==
After [[postdoctoral research]] at the [[European Bioinformatics Institute]] (EBI) on the [[Wellcome Genome Campus]] in [[Hinxton]], [[Cambridgeshire]],<ref name="GoldmanBertone2013">{{cite journal|last1=Goldman|first1=Nick|last2=Bertone|first2=Paul|last3=Chen|first3=Siyuan|last4=Dessimoz|first4=Christophe|last5=LeProust|first5=Emily M.|last6=Sipos|first6=Botond|last7=Birney|first7=Ewan|title=Towards practical, high-capacity, low-maintenance information storage in synthesized DNA|journal=Nature|volume=494|issue=7435|year=2013|pages=77–80|issn=0028-0836|doi=10.1038/nature11875|pmid=23354052|pmc=3672958 }}</ref> he joined [[University College London]] (UCL) as [[lecturer]] in 2013, and was promoted to [[Reader (academic rank)|Reader]] in 2015.<ref name=lab/> In 2015, he joined the [[University of Lausanne]] as professor, retaining an appointment at UCL.<ref name=ucl>https://www.ucl.ac.uk/biosciences/departments/gee/staff/tabs/academic-iris-link/dessimoz</ref> Since 2016, Dessimoz has served as group leader at the [[Swiss Institute of Bioinformatics]]<ref name=lab/> where his research interests are in [[bioinformatics]], [[genomics]], [[phylogenetics]], [[evolution]] and [[computational biology]].<ref name=gs/><ref name="WodakSunnåker2013">{{cite journal|last1=Wodak|first1=Shoshana|authorlink1=Shoshana Wodak|last2=Sunnåker|first2=Mikael|last3=Busetto|first3=Alberto Giovanni|last4=Numminen|first4=Elina|last5=Corander|first5=Jukka|last6=Foll|first6=Matthieu|last7=Dessimoz|first7=Christophe|title=Approximate Bayesian Computation|journal=PLoS Computational Biology|volume=9|issue=1|year=2013|pages=e1002803|issn=1553-7358|doi=10.1371/journal.pcbi.1002803|pmid=23341757|pmc=3547661 }}</ref><ref name="AnisimovaGil2011">{{cite journal|last1=Anisimova|first1=Maria|last2=Gil|first2=Manuel|last3=Dufayard|first3=Jean-François|last4=Dessimoz|first4=Christophe|last5=Gascuel|first5=Olivier|title=Survey of Branch Support Methods Demonstrates Accuracy, Power, and Robustness of Fast Likelihood-based Approximation Schemes|journal=Systematic Biology|volume=60|issue=5|year=2011|pages=685–699|issn=1076-836X|doi=10.1093/sysbio/syr041|pmid=21540409 |pmc=3158332 }}</ref><ref name="EisenAltenhoff2009">{{cite journal|last1=Eisen|first1=Jonathan A.|authorlink1=Jonathan Eisen|last2=Altenhoff|first2=Adrian M.|last3=Dessimoz|first3=Christophe|title=Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods|journal=PLoS Computational Biology|volume=5|issue=1|year=2009|pages=e1000262|issn=1553-7358|doi=10.1371/journal.pcbi.1000262|pmid=19148271|pmc=2612752 }}</ref><ref name="AbboshBirkbak2017">{{cite journal|last1=Abbosh|first1=Christopher|last2=Birkbak|first2=Nicolai J.|last3=Wilson|first3=Gareth A.|last4=Jamal-Hanjani|first4=Mariam|last5=Constantin|first5=Tudor|last6=Salari|first6=Raheleh|last7=Le Quesne|first7=John|last8=Moore|first8=David A.|last9=Veeriah|first9=Selvaraju|last10=Rosenthal|first10=Rachel|last11=Marafioti|first11=Teresa|last12=Kirkizlar|first12=Eser|last13=Watkins|first13=Thomas B. K.|last14=McGranahan|first14=Nicholas|last15=Ward|first15=Sophia|last16=Martinson|first16=Luke|last17=Riley|first17=Joan|last18=Fraioli|first18=Francesco|last19=Al Bakir|first19=Maise|last20=Grönroos|first20=Eva|last21=Zambrana|first21=Francisco|last22=Endozo|first22=Raymondo|last23=Bi|first23=Wenya Linda|last24=Fennessy|first24=Fiona M.|last25=Sponer|first25=Nicole|last26=Johnson|first26=Diana|last27=Laycock|first27=Joanne|last28=Shafi|first28=Seema|last29=Czyzewska-Khan|first29=Justyna|last30=Rowan|first30=Andrew|last31=Chambers|first31=Tim|last32=Matthews|first32=Nik|last33=Turajlic|first33=Samra|last34=Hiley|first34=Crispin|last35=Lee|first35=Siow Ming|last36=Forster|first36=Martin D.|last37=Ahmad|first37=Tanya|last38=Falzon|first38=Mary|last39=Borg|first39=Elaine|last40=Lawrence|first40=David|last41=Hayward|first41=Martin|last42=Kolvekar|first42=Shyam|last43=Panagiotopoulos|first43=Nikolaos|last44=Janes|first44=Sam M.|last45=Thakrar|first45=Ricky|last46=Ahmed|first46=Asia|last47=Blackhall|first47=Fiona|last48=Summers|first48=Yvonne|last49=Hafez|first49=Dina|last50=Naik|first50=Ashwini|last51=Ganguly|first51=Apratim|last52=Kareht|first52=Stephanie|last53=Shah|first53=Rajesh|last54=Joseph|first54=Leena|last55=Marie Quinn|first55=Anne|last56=Crosbie|first56=Phil A.|last57=Naidu|first57=Babu|last58=Middleton|first58=Gary|last59=Langman|first59=Gerald|last60=Trotter|first60=Simon|last61=Nicolson|first61=Marianne|last62=Remmen|first62=Hardy|last63=Kerr|first63=Keith|last64=Chetty|first64=Mahendran|last65=Gomersall|first65=Lesley|last66=Fennell|first66=Dean A.|last67=Nakas|first67=Apostolos|last68=Rathinam|first68=Sridhar|last69=Anand|first69=Girija|last70=Khan|first70=Sajid|last71=Russell|first71=Peter|last72=Ezhil|first72=Veni|last73=Ismail|first73=Babikir|last74=Irvin-Sellers|first74=Melanie|last75=Prakash|first75=Vineet|last76=Lester|first76=Jason F.|last77=Kornaszewska|first77=Malgorzata|last78=Attanoos|first78=Richard|last79=Adams|first79=Haydn|last80=Davies|first80=Helen|last81=Oukrif|first81=Dahmane|last82=Akarca|first82=Ayse U.|last83=Hartley|first83=John A.|last84=Lowe|first84=Helen L.|last85=Lock|first85=Sara|last86=Iles|first86=Natasha|last87=Bell|first87=Harriet|last88=Ngai|first88=Yenting|last89=Elgar|first89=Greg|last90=Szallasi|first90=Zoltan|last91=Schwarz|first91=Roland F.|last92=Herrero|first92=Javier|last93=Stewart|first93=Aengus|last94=Quezada|first94=Sergio A.|last95=Peggs|first95=Karl S.|last96=Van Loo|first96=Peter|last97=Dive|first97=Caroline|last98=Lin|first98=C. 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G.|last327=Rabinowitz|first327=Matthew|last328=Aerts|first328=Hugo J. W. L.|last329=Dentro|first329=Stefan|last330=Dessimoz|first330=Christophe|last331=Swanton|first331=Charles|title=Phylogenetic ctDNA analysis depicts early-stage lung cancer evolution|journal=Nature|volume=545|issue=7655|year=2017|pages=446–451|issn=0028-0836|doi=10.1038/nature22364|pmid=28445469 |pmc=5812436 |display-authors=11}}</ref>
After [[postdoctoral research]] at the [[European Bioinformatics Institute]] (EBI) in the UK,<ref name="GoldmanBertone2013">{{cite journal|last1=Goldman|first1=Nick|last2=Bertone|first2=Paul|last3=Chen|first3=Siyuan|last4=Dessimoz|first4=Christophe|last5=LeProust|first5=Emily M.|last6=Sipos|first6=Botond|last7=Birney|first7=Ewan|title=Towards practical, high-capacity, low-maintenance information storage in synthesized DNA|journal=Nature|volume=494|issue=7435|year=2013|pages=77–80|issn=0028-0836|doi=10.1038/nature11875|pmid=23354052|pmc=3672958 }}</ref> he joined [[University College London]] (UCL) as [[lecturer]] in 2013, and was promoted to [[Reader (academic rank)|Reader]] in 2015.<ref name=lab/> In 2015, he joined the [[University of Lausanne]] as professor, retaining an appointment at UCL. Since 2016, Dessimoz has served as group leader at the [[Swiss Institute of Bioinformatics]].<ref name=lab/>

Dessimoz is known for his management of the [[Orthologous MAtrix]] (OMA)<ref name=oma>{{cite journal|last1=Altenhoff|first1=Adrian M|last2=Glover|first2=Natasha M|last3=Train|first3=Clément-Marie|last4=Kaleb|first4=Klara|last5=Warwick Vesztrocy|first5=Alex|last6=Dylus|first6=David|last7=de Farias|first7=Tarcisio M|last8=Zile|first8=Karina|last9=Stevenson|first9=Charles|last10=Long|first10=Jiao|last11=Redestig|first11=Henning|last12=Gonnet|first12=Gaston H|last13=Dessimoz|first13=Christophe|title=The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces|journal=Nucleic Acids Research|volume=46|issue=D1|year=2018|pages=D477–D485|issn=0305-1048|doi=10.1093/nar/gkx1019|pmid= 29106550 |pmc=5753216 }}</ref> which provides information on [[sequence homology|orthologous]] [[protein]]s. OMA has important applications in [[protein function prediction]].<ref name=overton/> Dessimoz's approach to [[Benchmark (computing)|benchmarking]] had a major impact on three key subfields of computational biology: [[sequence homology|orthology inference]], [[sequence alignment]], and the [[gene ontology]] (GO).<ref name=overton/><ref name=GO>{{cite book|editor-last1=Dessimoz|editor-first1=Christophe|editor-last2=Škunca|editor-first2=Nives|volume=1446|year=2017|issn=1064-3745|doi=10.1007/978-1-4939-3743-1|title=The Gene Ontology Handbook|ISBN=9781493937431}} {{open access}}</ref><ref name="GaudetŠkunca2017">{{cite journal|last1=Gaudet|first1=Pascale|last2=Škunca|first2=Nives|last3=Hu|first3=James C.|last4=Dessimoz|first4=Christophe|title=Primer on the Gene Ontology|volume=1446|year=2017|pages=25–37|issn=1064-3745|doi=10.1007/978-1-4939-3743-1_3}}</ref>


===Awards and honours===
===Awards and honours===

Revision as of 17:00, 6 March 2019

Christophe Dessimoz
Christophe Dessimoz in 2014
Born
Christophe Dessimoz

1980 (age 43–44)
Alma materETH Zurich (MSc, PhD)
Known forOrthologous MAtrix (OMA)[4]
AwardsOverton Prize (2019)[1]
Scientific career
FieldsBioinformatics
Genomics
Phylogenetics
Evolution
Computational Biology[2]
InstitutionsUniversity of Lausanne
European Bioinformatics Institute
University College London
Swiss Institute of Bioinformatics
ThesisComparative Genomics Using Pairwise Evolutionary Distances (2009)
Doctoral advisorGaston Gonnet[3]
Websitelab.dessimoz.org/people/christophe-dessimoz

Christophe Dessimoz is a Swiss National Science Foundation (SNSF) Professor at the University of Lausanne, Associate Professor at University College London and a group leader at the Swiss Institute of Bioinformatics.[5][2][6][7][8] He was awarded the Overton Prize in 2019 for his contributions to computational biology.[1]

Education

Dessimoz obtained his Master of Science degree in 2003[5] and PhD in Computer Science in 2009 from ETH Zurich in Switzerland[9] where his doctoral research was supervised by Gaston Gonnet[3] and examined by Amos Bairoch.[9]

Career and research

After postdoctoral research at the European Bioinformatics Institute (EBI) on the Wellcome Genome Campus in Hinxton, Cambridgeshire,[10] he joined University College London (UCL) as lecturer in 2013, and was promoted to Reader in 2015.[5] In 2015, he joined the University of Lausanne as professor, retaining an appointment at UCL.[11] Since 2016, Dessimoz has served as group leader at the Swiss Institute of Bioinformatics[5] where his research interests are in bioinformatics, genomics, phylogenetics, evolution and computational biology.[2][12][13][14][15]

Dessimoz is known for his management of the Orthologous MAtrix (OMA)[4] which provides information on orthologous proteins. OMA has important applications in protein function prediction.[1] Dessimoz's approach to benchmarking had a major impact on three key subfields of computational biology: orthology inference, sequence alignment, and the gene ontology (GO).[1][16][17]

Awards and honours

Dessimoz was awarded the Overton Prize by the International Society for Computational Biology (ISCB) in 2019 for outstanding contributions to computational biology.[1]

References

  1. ^ a b c d e Anon (2019). "2019 Overton Prize: Christophe Dessimoz". iscb.org. International Society for Computational Biology.
  2. ^ a b c Christophe Dessimoz publications indexed by Google Scholar Edit this at Wikidata
  3. ^ a b Christophe Dessimoz at the Mathematics Genealogy Project Edit this at Wikidata
  4. ^ a b Altenhoff, Adrian M; Glover, Natasha M; Train, Clément-Marie; Kaleb, Klara; Warwick Vesztrocy, Alex; Dylus, David; de Farias, Tarcisio M; Zile, Karina; Stevenson, Charles; Long, Jiao; Redestig, Henning; Gonnet, Gaston H; Dessimoz, Christophe (2018). "The OMA orthology database in 2018: retrieving evolutionary relationships among all domains of life through richer web and programmatic interfaces". Nucleic Acids Research. 46 (D1): D477–D485. doi:10.1093/nar/gkx1019. ISSN 0305-1048. PMC 5753216. PMID 29106550. {{cite journal}}: no-break space character in |last5= at position 8 (help); no-break space character in |last7= at position 3 (help)
  5. ^ a b c d Dessimoz, Christophe (2019). "Dessimoz Lab". lab.dessimoz.org.
  6. ^ Christophe Dessimoz publications from Europe PubMed Central
  7. ^ Christophe Dessimoz publications indexed by the Scopus bibliographic database. (subscription required)
  8. ^ Christophe Dessimoz on Twitter Edit this at Wikidata
  9. ^ a b Dessimoz, Christophe (2009). Comparative Genomics Using Pairwise Evolutionary Distances. ethz.ch (PhD thesis). ETH Zurich. doi:10.3929/ethz-a-005762050. OCLC 935351416. Open access icon
  10. ^ Goldman, Nick; Bertone, Paul; Chen, Siyuan; Dessimoz, Christophe; LeProust, Emily M.; Sipos, Botond; Birney, Ewan (2013). "Towards practical, high-capacity, low-maintenance information storage in synthesized DNA". Nature. 494 (7435): 77–80. doi:10.1038/nature11875. ISSN 0028-0836. PMC 3672958. PMID 23354052.
  11. ^ https://www.ucl.ac.uk/biosciences/departments/gee/staff/tabs/academic-iris-link/dessimoz
  12. ^ Wodak, Shoshana; Sunnåker, Mikael; Busetto, Alberto Giovanni; Numminen, Elina; Corander, Jukka; Foll, Matthieu; Dessimoz, Christophe (2013). "Approximate Bayesian Computation". PLoS Computational Biology. 9 (1): e1002803. doi:10.1371/journal.pcbi.1002803. ISSN 1553-7358. PMC 3547661. PMID 23341757.{{cite journal}}: CS1 maint: unflagged free DOI (link)
  13. ^ Anisimova, Maria; Gil, Manuel; Dufayard, Jean-François; Dessimoz, Christophe; Gascuel, Olivier (2011). "Survey of Branch Support Methods Demonstrates Accuracy, Power, and Robustness of Fast Likelihood-based Approximation Schemes". Systematic Biology. 60 (5): 685–699. doi:10.1093/sysbio/syr041. ISSN 1076-836X. PMC 3158332. PMID 21540409.
  14. ^ Eisen, Jonathan A.; Altenhoff, Adrian M.; Dessimoz, Christophe (2009). "Phylogenetic and Functional Assessment of Orthologs Inference Projects and Methods". PLoS Computational Biology. 5 (1): e1000262. doi:10.1371/journal.pcbi.1000262. ISSN 1553-7358. PMC 2612752. PMID 19148271.{{cite journal}}: CS1 maint: unflagged free DOI (link)
  15. ^ Abbosh, Christopher; Birkbak, Nicolai J.; Wilson, Gareth A.; Jamal-Hanjani, Mariam; Constantin, Tudor; Salari, Raheleh; Le Quesne, John; Moore, David A.; Veeriah, Selvaraju; Rosenthal, Rachel; Marafioti, Teresa; et al. (2017). "Phylogenetic ctDNA analysis depicts early-stage lung cancer evolution". Nature. 545 (7655): 446–451. doi:10.1038/nature22364. ISSN 0028-0836. PMC 5812436. PMID 28445469.
  16. ^ Dessimoz, Christophe; Škunca, Nives, eds. (2017). The Gene Ontology Handbook. Vol. 1446. doi:10.1007/978-1-4939-3743-1. ISBN 9781493937431. ISSN 1064-3745. Open access icon
  17. ^ Gaudet, Pascale; Škunca, Nives; Hu, James C.; Dessimoz, Christophe (2017). "Primer on the Gene Ontology". 1446: 25–37. doi:10.1007/978-1-4939-3743-1_3. ISSN 1064-3745. {{cite journal}}: Cite journal requires |journal= (help)