GECO Evolutionary and Computational Genomics

Bioinformatics, Phylogeny and Evolutionary Genomics Group

Baobab Group

Publications

Display of 31 to 60 publications on 1248 in total

Deciphering evolutionary trajectories of lactate dehydrogenases provides new insights into allostery.

Adeline Robin, Céline Brochier-Armanet, Quentin Bertrand, Caroline Barette, Eric Girard, Dominique Madern

Molecular Biology and Evolution . msad223

DOI: 10.1093/molbev/msad223

Journal article

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The porphyran degradation system of the human gut microbiota is complete, phylogenetically diverse and geographically structured across Asian populations

Sophie Mathieu, Mélanie Touvrey, Laurent Poulet, Sophie Drouillard, Thirumalai Selvi Ulaganathan, Laure Ségurel...

DOI: 10.1101/2023.03.30.534863

Preprint

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Proposed mechanism for the selection of lactase persistence in childhood

Alexandre Fabre, Anne Fabre, Céline Bon, Paul Guerry, Laure Ségurel

BioEssays . 45 ( 7 )

DOI: 10.1002/bies.202200243

Journal article

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Bradyrhizobium commune sp. nov., isolated from nodules of a wide range of native legumes across the Australian continent

Bénédicte Lafay, Elina Coquery, Philippe M Oger

International Journal of Systematic and Evolutionary Microbiology . 73 ( 7 ) : 005971

DOI: 10.1099/ijsem.0.005971

Journal article

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Cophylogeny Reconstruction Allowing for Multiple Associations Through Approximate Bayesian Computation

Blerina Sinaimeri, Laura Urbini, Marie-France Sagot, Catherine Matias

Systematic Biology . : syad058

DOI: 10.1093/sysbio/syad058

Journal article

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Hybrid modelling to Solve Optimal Concentrations of Metabolites and Enzymes in Constraint-based modelling

Sabine Peres

BIOSTEC 2023 .

Conference paper

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Population designations in biomedical research: limitations and perspectives

Caroline Gombault, Guillaume Grenet, Laure Ségurel, Laurent Duret, François Gueyffier, Pascal Cathébras...

HLA: Immune Response Genetics . 101 ( 1 ) : 3-15

DOI: 10.1111/tan.14852

Journal article

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Modelling the spatiotemporal spread of beneficial alleles using ancient genomes

Rasa Muktupavela, Martin Petr, Laure L. Segurel, Thorfinn Korneliussen, John Novembre, Fernando Racimo

DOI: 10.1101/2021.07.21.453231

Preprint

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Interpreting mismatches between linguistic and genetic patterns among speakers of Tanimuka (Eastern Tukanoan) and Yukuna (Arawakan)

Leonardo Arias, Nicholas Q Emlen, Sietze Norder, Nora Julmi, Magdalena Lemus Serrano, Thiago Chacon...

Interface Focus . 13

DOI: 10.1098/rsfs.2022.0056

Journal article

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Ethical challenges in genetic research among Philippine Indigenous Peoples: Insights from fieldwork in Zamboanga and the Sulu Archipelago

Jae Joseph Russell B Rodriguez, John Meldwin D Cuales, Michael James B Herrera, Louward Allen M Zubiri, Richard N. Muallil, Altan I. Ishmael...

Frontiers in Genetics . 13 : 901515

DOI: 10.3389/fgene.2022.901515

Journal article

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The transmission of human mitochondrial DNA in four‐generation pedigrees

Qi Liu, Muhammad Faaras Iqbal, Tahir Yaqub, Sehrish Firyal, Yiqiang Zhao, Mark Stoneking...

Human Mutation . 43 : 1259-1267

DOI: 10.1002/humu.24390

Journal article

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The social lives of isolates (and small language families): the case of the Northwest Amazon

Rik van Gijn, Sietze Norder, Leonardo Arias, Nicholas Q Emlen, Matheus C B C Azevedo, Allison Caine...

Interface Focus . 13 ( 1 ) : 20220054

DOI: 10.1098/rsfs.2022.0054

Journal article

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Assessing Human Genome-wide Variation in the Massim Region of Papua New Guinea and Implications for the Kula Trading Tradition

Dang Liu, Benjamin M Peter, Wulf Schiefenhövel, Manfred Kayser, Mark Stoneking

Molecular Biology and Evolution . 39

DOI: 10.1093/molbev/msac165

Journal article

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Ancient genomes from the last three millennia support multiple human dispersals into Wallacea

Sandra Oliveira, Kathrin Nägele, Selina Carlhoff, Irina Pugach, Toetik Koesbardiati, Alexander Hübner...

Nature Ecology & Evolution . 6 : 1024 - 1034

DOI: 10.1038/s41559-022-01775-2

Journal article

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A Nearly Neutral Model of Molecular Signatures of Natural Selection after Change in Population Size

Rebekka Müller, Ingemar Kaj, Carina Mugal

Genome Biology and Evolution . 14 ( 5 )

DOI: 10.1093/gbe/evac058

Journal article

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Hydrogen isotope measurements of bone and dental tissues from archaeological human and animal samples and their use as climatic and diet proxies

Thibault Clauzel, Pascale Richardin, Jannick Ricard, Yves Le Béchennec, Romain Amiot, François Fourel...

Journal of Archaeological Science . 147 : 105676

DOI: 10.1016/j.jas.2022.105676

Journal article

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Climate conditions and dietary practices during the Second Iron Age studied through the multi-isotope analysis of bones and teeth from individuals of Thézy-Glimont, Picardie, France

Thibault Clauzel, Pascale Richardin, Jannick Ricard, Yves Le Béchennec, Romain Amiot, François Fourel...

Archaeological and Anthropological Sciences . 14 ( 4 ) : 61

DOI: 10.1007/s12520-022-01534-1

Journal article

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Modeling the spatiotemporal spread of beneficial alleles using ancient genomes

Rasa Muktupavela, Martin Petr, Laure Ségurel, Thorfinn Korneliussen, John Novembre, Fernando Racimo

eLife . 11

DOI: 10.7554/eLife.73767

Journal article

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Polynomial Delay Algorithm for Minimal Chordal Completions

Caroline Brosse, Vincent Limouzy, Arnaud Mary

49th International Colloquium on Automata, Languages, and Programming (ICALP) .

DOI: 10.4230/LIPIcs.ICALP.2022.33

Conference paper

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Mutations in the non-coding RNU4ATAC gene affect the homeostasis and function of the Integrator complex

Fatimat Almentina Ramos Shidi, Audric Cologne, Marion Delous, Alicia Besson, Audrey Putoux, Anne-Louise Leutenegger...

Nucleic Acids Research .

DOI: 10.1093/nar/gkac1182

Journal article

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Geometric programming to Solve Optimal Concentrations of Metabolites and Enzymes in Constraint-based modelling

Sabine Peres, Marc Dinh, Vincent Fromion

International Conference on System Biology .

Conference paper

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Special Issue on “Frontiers in Connecting Steady-State and Dynamic Approaches for Modelling Cell Metabolic Behavior”

Sabine Peres, Mario Jolicoeur

Processes . 10 ( 8 ) : 1612

DOI: 10.3390/pr10081612

Journal article

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Hybrid metabolic modeling to identify new control strategies of living organisms

Sabine Peres

Hybrid models and methods in systems medicine .

Conference paper

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Mod ́elisation m ́etabolique pour identifier de nouvelles strat ́egies de contrˆole des organismes vivants

Sabine Peres

Meetochondrie .

Conference paper

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Genes and sites under adaptation at the phylogenetic scale also exhibit adaptation at the population-genetic scale

T. Latrille, N. Rodrigue, Nicolas Lartillot

DOI: 10.1101/2022.09.23.509132

Preprint

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BrumiR: A toolkit for de novo discovery of microRNAs from sRNA-seq data

Carol Moraga, Evelyn Sanchez, Mariana Galvão Ferrarini, Rodrigo A Gutierrez, Elena A Vidal, Marie-France Sagot

GigaScience . 11

DOI: 10.1093/gigascience/giac093

Journal article

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Codiversification of gut microbiota with humans

Taichi Suzuki, J. Liam Fitzstevens, Victor Schmidt, Hagay Enav, Kelsey Huus, Mirabeau Mbong Ngwese...

Science . 377 ( 6612 ) : 1328-1332

DOI: 10.1126/science.abm7759

Journal article

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Protein conformational space at the edge of allostery: turning a nonallosteric malate dehydrogenase into an “allosterized” enzyme using evolution-guided punctual mutations

Antonio Iorio, Céline Brochier-Armanet, Caroline Mas, Fabio Sterpone, Dominique Madern

Molecular Biology and Evolution . 39 ( 9 ) : msac186

DOI: 10.1093/molbev/msac186

Journal article

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GOntact: using chromatin contacts to infer Gene Ontology enrichments for cis -regulatory elements

Alexandre Laverré, Eric Tannier, Philippe Veber, Anamaria Necsulea

DOI: 10.1101/2022.06.13.495495

Preprint

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