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Gilles Fischer - Publications

Affiliations: 
Laboratory of Computational and Quantitative Biology (LCQB) Université Pierre et Marie Curie, Paris, Île-de-France, France 
Area:
yeast, genomics
Website:
http://www.lcqb.upmc.fr/BIG
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52 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2023 Villarreal P, O'Donnell S, Agier N, Muñoz-Guzman F, Benavides-Parra J, Urbina K, Peña TA, Solomon M, Nespolo RF, Fischer G, Varela C, Cubillos FA. Domestication signatures in the non-conventional yeast . Msystems. e0105823. PMID 38085042 DOI: 10.1128/msystems.01058-23  0.328
2023 Chaux F, Agier N, Garrido C, Fischer G, Eberhard S, Xu Z. Telomerase-independent survival leads to a mosaic of complex subtelomere rearrangements in . Genome Research. PMID 37580131 DOI: 10.1101/gr.278043.123  0.593
2023 O'Donnell S, Yue JX, Saada OA, Agier N, Caradec C, Cokelaer T, De Chiara M, Delmas S, Dutreux F, Fournier T, Friedrich A, Kornobis E, Li J, Miao Z, Tattini L, ... ... Fischer G, et al. Telomere-to-telomere assemblies of 142 strains characterize the genome structural landscape in Saccharomyces cerevisiae. Nature Genetics. PMID 37524789 DOI: 10.1038/s41588-023-01459-y  0.765
2021 Droghetti R, Agier N, Fischer G, Gherardi M, Cosentino Lagomarsino M. An evolutionary model identifies the main evolutionary biases for the evolution of genome-replication profiles. Elife. 10. PMID 34013887 DOI: 10.7554/eLife.63542  0.37
2021 Agier N, Fleiss A, Delmas S, Fischer G. A Versatile Protocol to Generate Translocations in Yeast Genomes Using CRISPR/Cas9. Methods in Molecular Biology (Clifton, N.J.). 2196: 181-198. PMID 32889721 DOI: 10.1007/978-1-0716-0868-5_14  0.593
2020 Fischer G, Liti G, Llorente B. The Budding Yeast Life Cycle: more complex than anticipated? Yeast (Chichester, England). PMID 33197073 DOI: 10.1002/yea.3533  0.332
2020 O'Donnell S, Chaux F, Fischer G. Highly Contiguous Nanopore Genome Assembly of Chlamydomonas reinhardtii CC-1690. Microbiology Resource Announcements. 9. PMID 32912911 DOI: 10.1128/MRA.00726-20  0.49
2020 Drillon G, Champeimont R, Oteri F, Fischer G, Carbone A. Phylogenetic reconstruction based on synteny block and gene adjacencies. Molecular Biology and Evolution. PMID 32384156 DOI: 10.1093/Molbev/Msaa114  0.582
2020 Mardones W, Villarroel CA, Krogerus K, Tapia SM, Urbina K, Oporto CI, O'Donnell S, Minebois R, Nespolo R, Fischer G, Querol A, Gibson B, Cubillos FA. Molecular profiling of beer wort fermentation diversity across natural Saccharomyces eubayanus isolates. Microbial Biotechnology. PMID 32096913 DOI: 10.1111/1751-7915.13545  0.366
2020 O'Donnell S, Fischer G. MUM&Co: Accurate detection of all SV types through whole genome alignment. Bioinformatics (Oxford, England). PMID 32096823 DOI: 10.1093/Bioinformatics/Btaa115  0.548
2019 Fleiss A, O'Donnell S, Fournier T, Lu W, Agier N, Delmas S, Schacherer J, Fischer G. Reshuffling yeast chromosomes with CRISPR/Cas9. Plos Genetics. 15: e1008332. PMID 31465441 DOI: 10.1371/Journal.Pgen.1008332  0.716
2019 Fairhead C, Fischer G, Liti G, Neuvéglise C, Schacherer J. André Goffeau's imprinting on second generation yeast "genomologists*".* André enjoyed neologisms and used this one frequently. Yeast (Chichester, England). PMID 30645763 DOI: 10.1002/Yea.3377  0.737
2018 Muller H, Scolari VF, Agier N, Piazza A, Thierry A, Mercy G, Descorps-Declere S, Lazar-Stefanita L, Espeli O, Llorente B, Fischer G, Mozziconacci J, Koszul R. Characterizing meiotic chromosomes' structure and pairing using a designer sequence optimized for Hi-C. Molecular Systems Biology. 14: e8293. PMID 30012718 DOI: 10.15252/Msb.20188293  0.532
2018 Agier N, Delmas S, Zhang Q, Fleiss A, Jaszczyszyn Y, van Dijk E, Thermes C, Weigt M, Cosentino-Lagomarsino M, Fischer G. The evolution of the temporal program of genome replication. Nature Communications. 9: 2199. PMID 29875360 DOI: 10.1038/S41467-018-04628-4  0.531
2017 Vakirlis NN, Hebert AS, Opulente DA, Achaz G, Hittinger CT, Fischer G, Coon JJ, Lafontaine I. A molecular portrait of de novo genes in yeasts. Molecular Biology and Evolution. PMID 29220506 DOI: 10.1093/Molbev/Msx315  0.437
2017 Yue JX, Li J, Aigrain L, Hallin J, Persson K, Oliver K, Bergström A, Coupland P, Warringer J, Lagomarsino MC, Fischer G, Durbin R, Liti G. Contrasting evolutionary genome dynamics between domesticated and wild yeasts. Nature Genetics. PMID 28416820 DOI: 10.1038/Ng.3847  0.65
2016 Sigwalt A, Caradec C, Brion C, Hou J, de Montigny J, Jung P, Fischer G, Llorente B, Friedrich A, Schacherer J. Dissection of quantitative traits by bulk segregant mapping in a protoploid yeast species. Fems Yeast Research. PMID 27371856 DOI: 10.1093/Femsyr/Fow056  0.631
2016 Fischer G. Forty years of yeast genome exploration by Bernard Dujon. Yeast (Chichester, England). 33: 205-7. PMID 27250574 DOI: 10.1002/Yea.3174  0.532
2016 Vakirlis N, Sarilar V, Drillon G, Fleiss A, Agier N, Meyniel JP, Blanpain L, Carbone A, Devillers H, Dubois K, Gillet-Markowska A, Graziani S, Huu-Vang N, Poirel M, Reisser C, ... ... Fischer G, et al. Reconstruction of ancestral chromosome architecture and gene repertoire reveals principles of genome evolution in a model yeast genus. Genome Research. PMID 27247244 DOI: 10.1101/Gr.204420.116  0.754
2016 Agier N, Fischer G. A Versatile Procedure to Generate Genome-Wide Spatiotemporal Program of Replication in Yeast Species. Methods in Molecular Biology (Clifton, N.J.). 1361: 247-64. PMID 26483026 DOI: 10.1007/978-1-4939-3079-1_14  0.507
2015 Gillet-Markowska A, Richard H, Fischer G, Lafontaine I. Ulysses: accurate detection of low-frequency structural variations in large insert-size sequencing libraries. Bioinformatics (Oxford, England). 31: 801-8. PMID 25380961 DOI: 10.1093/Bioinformatics/Btu730  0.45
2015 Friedrich A, Jung P, Reisser C, Fischer G, Schacherer J. Population genomics reveals chromosome-scale heterogeneous evolution in a protoploid yeast. Molecular Biology and Evolution. 32: 184-92. PMID 25349286 DOI: 10.1093/Molbev/Msu295  0.774
2014 Marie-Nelly H, Marbouty M, Cournac A, Liti G, Fischer G, Zimmer C, Koszul R. Filling annotation gaps in yeast genomes using genome-wide contact maps. Bioinformatics (Oxford, England). 30: 2105-13. PMID 24711652 DOI: 10.1093/Bioinformatics/Btu162  0.611
2014 Annaluru N, Muller H, Mitchell LA, Ramalingam S, Stracquadanio G, Richardson SM, Dymond JS, Kuang Z, Scheifele LZ, Cooper EM, Cai Y, Zeller K, Agmon N, Han JS, Hadjithomas M, ... ... Fischer G, et al. Total synthesis of a functional designer eukaryotic chromosome. Science (New York, N.Y.). 344: 55-8. PMID 24674868 DOI: 10.1126/Science.1249252  0.572
2014 Drillon G, Carbone A, Fischer G. SynChro: a fast and easy tool to reconstruct and visualize synteny blocks along eukaryotic chromosomes. Plos One. 9: e92621. PMID 24651407 DOI: 10.1371/Journal.Pone.0092621  0.565
2014 Louvel H, Gillet-Markowska A, Liti G, Fischer G. A set of genetically diverged Saccharomyces cerevisiae strains with markerless deletions of multiple auxotrophic genes. Yeast (Chichester, England). 31: 91-101. PMID 24288298 DOI: 10.1002/Yea.2991  0.448
2014 Annaluru N, Muller H, Mitchell LA, Ramalingam S, Stracquadanio G, Richardson SM, Dymond JS, Kuang Z, Scheifele LZ, Cooper EM, Cai Y, Zeller K, Agmon N, Han JS, Hadjithomas M, ... ... Fischer G, et al. Total synthesis of a functional designer eukaryotic chromosome (Science (2014) 344, 6179 (55-58)) Science. 344. DOI: 10.1126/Science.1254596  0.376
2013 Agier N, Romano OM, Touzain F, Cosentino Lagomarsino M, Fischer G. The spatiotemporal program of replication in the genome of Lachancea kluyveri. Genome Biology and Evolution. 5: 370-88. PMID 23355306 DOI: 10.1093/Gbe/Evt014  0.602
2012 Agier N, Fischer G. The mutational profile of the yeast genome is shaped by replication. Molecular Biology and Evolution. 29: 905-13. PMID 22114361 DOI: 10.1093/Molbev/Msr280  0.466
2011 Drillon G, Fischer G. Comparative study on synteny between yeasts and vertebrates. Comptes Rendus Biologies. 334: 629-38. PMID 21819944 DOI: 10.1016/J.Crvi.2011.05.011  0.568
2011 Drillon G, Carbone A, Fischer G. Combinatorics of chromosomal rearrangements based on synteny blocks and synteny packs Journal of Logic and Computation. 23: 815-838. DOI: 10.1093/Logcom/Exr047  0.452
2009 Fischer G, Thompson D, Wortman JR, Fairhead C. Unraveling the genomic diversity of small eukaryotes. Genome Biology. 10: 318. PMID 20003475 DOI: 10.1186/Gb-2009-10-12-318  0.585
2009 Payen C, Fischer G, Marck C, Proux C, Sherman DJ, Coppée JY, Johnston M, Dujon B, Neuvéglise C. Unusual composition of a yeast chromosome arm is associated with its delayed replication. Genome Research. 19: 1710-21. PMID 19592681 DOI: 10.1101/Gr.090605.108  0.701
2009 Souciet JL, Dujon B, Gaillardin C, Johnston M, Baret PV, Cliften P, Sherman DJ, Weissenbach J, Westhof E, Wincker P, Jubin C, Poulain J, Barbe V, Ségurens B, ... ... Fischer G, et al. Comparative genomics of protoploid Saccharomycetaceae. Genome Research. 19: 1696-709. PMID 19525356 DOI: 10.1101/Gr.091546.109  0.748
2009 Koszul R, Fischer G. A prominent role for segmental duplications in modeling eukaryotic genomes. Comptes Rendus Biologies. 332: 254-66. PMID 19281956 DOI: 10.1016/J.Crvi.2008.07.005  0.62
2008 Payen C, Koszul R, Dujon B, Fischer G. Segmental duplications arise from Pol32-dependent repair of broken forks through two alternative replication-based mechanisms. Plos Genetics. 4: e1000175. PMID 18773114 DOI: 10.1371/Journal.Pgen.1000175  0.675
2006 Fischer G, Rocha EP, Brunet F, Vergassola M, Dujon B. Highly variable rates of genome rearrangements between hemiascomycetous yeast lineages. Plos Genetics. 2: e32. PMID 16532063 DOI: 10.1371/Journal.Pgen.0020032  0.754
2006 Koszul R, Dujon B, Fischer G. Stability of large segmental duplications in the yeast genome. Genetics. 172: 2211-22. PMID 16489235 DOI: 10.1534/Genetics.105.048058  0.7
2004 Boyer J, Badis G, Fairhead C, Talla E, Hantraye F, Fabre E, Fischer G, Hennequin C, Koszul R, Lafontaine I, Ozier-Kalogeropoulos O, Ricchetti M, Richard GF, Thierry A, Dujon B. Large-scale exploration of growth inhibition caused by overexpression of genomic fragments in Saccharomyces cerevisiae. Genome Biology. 5: R72. PMID 15345056 DOI: 10.1186/Gb-2004-5-9-R72  0.692
2004 Dujon B, Sherman D, Fischer G, Durrens P, Casaregola S, Lafontaine I, De Montigny J, Marck C, Neuvéglise C, Talla E, Goffard N, Frangeul L, Aigle M, Anthouard V, Babour A, et al. Genome evolution in yeasts. Nature. 430: 35-44. PMID 15229592 DOI: 10.1038/Nature02579  0.76
2004 Lafontaine I, Fischer G, Talla E, Dujon B. Gene relics in the genome of the yeast Saccharomyces cerevisiae. Gene. 335: 1-17. PMID 15194185 DOI: 10.1016/J.Gene.2004.03.028  0.736
2004 Koszul R, Caburet S, Dujon B, Fischer G. Eucaryotic genome evolution through the spontaneous duplication of large chromosomal segments. The Embo Journal. 23: 234-43. PMID 14685272 DOI: 10.1038/Sj.Emboj.7600024  0.734
2003 Wenner T, Roth V, Fischer G, Fourrier C, Aigle B, Decaris B, Leblond P. End-to-end fusion of linear deleted chromosomes initiates a cycle of genome instability in Streptomyces ambofaciens. Molecular Microbiology. 50: 411-25. PMID 14617168 DOI: 10.1046/J.1365-2958.2003.03698.X  0.502
2001 Fischer G, Neuvéglise C, Durrens P, Gaillardin C, Dujon B. Evolution of gene order in the genomes of two related yeast species. Genome Research. 11: 2009-19. PMID 11731490 DOI: 10.1101/Gr.212701  0.723
2000 Fischer G, James SA, Roberts IN, Oliver SG, Louis EJ. Chromosomal evolution in Saccharomyces Nature. 405: 451-454. PMID 10839539 DOI: 10.1038/35013058  0.594
1999 Martin P, Dary A, André A, Fischer G, Leblond P, Decaris B. Intraclonal polymorphism in the bacterium Streptomyces ambofaciens ATCC23877: evidence for a high degree of heterogeneity of the wild type clones. Mutation Research. 430: 75-85. PMID 10592319 DOI: 10.1016/S0027-5107(99)00149-9  0.388
1998 Fischer G, Wenner T, Decaris B, Leblond P. Chromosomal arm replacement generates a high level of intraspecific polymorphism in the terminal inverted repeats of the linear chromosomal DNA of Streptomyces ambofaciens. Proceedings of the National Academy of Sciences of the United States of America. 95: 14296-301. PMID 9826694 DOI: 10.1073/Pnas.95.24.14296  0.544
1998 Fischer G, Holl AC, Volff JN, Vandewiele D, Decaris B, Leblond P. Replication of the linear chromosomal DNA from the centrally located oriC of Streptomyces ambofaciens revealed by PFGE gene dosage analysis. Research in Microbiology. 149: 203-10. PMID 9766222 DOI: 10.1016/S0923-2508(98)80080-6  0.473
1998 Fischer G, Kyriacou A, Decaris B, Leblond P. Genetic instability and its possible evolutionary implications on the chromosomal structure of Streptomyces. Biochimie. 79: 555-8. PMID 9466692 DOI: 10.1016/S0300-9084(97)82003-2  0.498
1997 Fischer G, Decaris B, Leblond P. Occurrence of deletions, associated with genetic instability in Streptomyces ambofaciens, is independent of the linearity of the chromosomal DNA. Journal of Bacteriology. 179: 4553-8. PMID 9226265 DOI: 10.1128/Jb.179.14.4553-4558.1997  0.511
1996 Berger F, Fischer G, Kyriacou A, Decaris B, Leblond P. Mapping of the ribosomal operons on the linear chromosomal DNA of Streptomyces ambofaciens DSM40697. Fems Microbiology Letters. 143: 167-73. PMID 8837469 DOI: 10.1111/J.1574-6968.1996.Tb08476.X  0.425
1996 Leblond P, Fischer G, Francou FX, Berger F, Guérineau M, Decaris B. The unstable region of Streptomyces ambofaciens includes 210 kb terminal inverted repeats flanking the extremities of the linear chromosomal DNA. Molecular Microbiology. 19: 261-71. PMID 8825772 DOI: 10.1046/J.1365-2958.1996.366894.X  0.471
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