The Maximum Colorful Arborescence problem: How (computationally) hard can it be?
Guillaume Fertin
,
Julien Fradin
,
Géraldine Jean
Journal articles
hal-03346859v1
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Prefix and suffix reversals on strings
Guillaume Fertin
,
Loïc Jankowiak
,
Géraldine Jean
Journal articles
hal-01911089v1
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Super Short Reversals on Both Gene Order and Intergenic Sizes
Andre Rodrigues Oliveira
,
Géraldine Jean
,
Guillaume Fertin
,
Ulisses Dias
,
Zanoni Dias
et al.
Advances in Bioinformatics and Computational Biology - 11th Brazilian Symposium on Bioinformatics -- BSB 2018 , Oct 2018, Niteroi, Brazil. pp.14--25
Conference papers
hal-02081164v1
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Systematic evaluation of spliced alignment programs for RNA-seq data.
Non Renseigné
,
Tyler Alioto
,
Jonas Behr
,
Regina Bohnert
,
Davide Campagna
et al.
Journal articles
hal-00909047v1
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Transposition Distance Considering Intergenic Regions for Unbalanced Genomes
Alexsandro Oliveira Alexandrino
,
Andre Rodrigues Oliveira
,
Géraldine Jean
,
Guillaume Fertin
,
Ulisses Dias
et al.
Bioinformatics Research and Applications 18th International Symposium, ISBRA 2022 , Nov 2022, Haifa, Israel. pp.100-113,
⟨10.1007/978-3-031-23198-8_10⟩
Conference papers
hal-03958480v1
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Sorting by Reversals, Transpositions, and Indels on Both Gene Order and Intergenic Sizes
Klairton Lima Brito
,
Géraldine Jean
,
Guillaume Fertin
,
Andre Rodrigues Oliveira
,
Ulisses Dias
et al.
International Symposium on Bioinformatics Research and Applications ISBRA 2019 , Jun 2019, Barcelona, Spain. pp.28-39,
⟨10.1007/978-3-030-20242-2_3⟩
Conference papers
hal-02304027v1
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Sorting Signed Permutations by Intergenic Reversals
Andre Rodrigues Oliveira
,
Géraldine Jean
,
Guillaume Fertin
,
Klairton Lima Brito
,
Laurent Bulteau
et al.
Journal articles
hal-02901617v1
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Reconstruction and visualization of genome rearrangements within the Kluyveromyces
Géraldine Jean
First German / French / European Meeting on Yeast and Filamentous Fungi , May 2008, Strasbourg, France
Conference papers
inria-00350613v1
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DExTaR: Detection of Exact Tandem Repeats based on the de Bruijn graph
Guillaume Fertin
,
Géraldine Jean
,
Andreea Radulescu
,
Irena Rusu
IEEE International Conference on Bioinformatics and Biomedicine (BIBM 2014) , Nov 2014, Belfast, Ireland. pp.90-93,
⟨10.1109/BIBM.2014.6999134⟩
Conference papers
hal-01117967v1
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Sorting by Multi-Cut Rearrangements
Laurent Bulteau
,
Guillaume Fertin
,
Géraldine Jean
,
Christian Komusiewicz
Journal articles
hal-03388451v1
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Assessment of transcript reconstruction methods for RNA-seq.
Tamara Steijger
,
Josep F Abril
,
Pär G Engström
,
Felix Kokocinski
,
Martin Akerman
et al.
Journal articles
hal-00909081v1
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Structure and co-occurrence patterns in microbial communities under acute environmental stress reveal ecological factors fostering resilience
Dinka Mandakovic
,
Claudia Rojas
,
Jonathan Maldonado
,
Mauricio Latorre
,
Dante Travisany
et al.
Journal articles
hal-01774624v1
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Multiple reference genomes and transcriptomes for Arabidopsis thaliana.
Xiangchao Gan
,
Oliver Stegle
,
Jonas Behr
,
Joshua G Steffen
,
Philipp Drewe
et al.
Journal articles
hal-00909088v1
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Sorting Genomes by Prefix Double-Cut-and-Joins
Guillaume Fertin
,
Géraldine Jean
,
Anthony Labarre
String Processing and Information Retrieval, 29th International Symposium, SPIRE 2022 , Nov 2022, Concepcion, Chile. pp.178-190,
⟨10.1007/978-3-031-20643-6_13⟩
Conference papers
hal-03958465v1
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Genome Rearrangements on both Gene Order and Intergenic Regions
Guillaume Fertin
,
Géraldine Jean
,
Eric Tannier
WABI 2016 , 2016, Aarhus, Denmark. pp.162-173
Conference papers
hal-01334942v1
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Algorithms for computing the double cut and join distance on both gene order and intergenic sizes
Guillaume Fertin
,
Géraldine Jean
,
Eric Tannier
Journal articles
hal-01533200v1
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Comparative genomics of protoploid Saccharomycetaceae
Jean-Luc Souciet
,
Bernard Dujon
,
Claude Gaillardin
,
Mark Johnston
,
Philippe V Baret
et al.
Journal articles
inria-00407511v1
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Genome rearrangements: a correct algorithm for optimal capping
Géraldine Jean
,
Macha Nikolski
Journal articles
istex
inria-00274291v1
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L'Inférence de Protéines à travers le Modèle Peptide Quantity Assignment
Emile Benoist
,
Guillaume Fertin
,
Géraldine Jean
23ème congrès annuel de la Société Française de Recherche Opérationnelle et d'Aide à la Décision , INSA Lyon, Feb 2022, Villeurbanne - Lyon, France
Conference papers
hal-03595308v1
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RNA-Seq read alignments with PALMapper.
Géraldine Jean
,
André Kahles
,
Vipin T Sreedharan
,
Fabio de Bona
,
Gunnar Rätsch
et al.
Journal articles
hal-00909100v1
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Reconstruction and visualization of genome rearrangements within the Kuyveromyces
Géraldine Jean
,
David James Sherman
,
Macha Nikolski
ESF-EMBO Symposium on Comparative Genomics of Eukaryotic Microorganisms , Oct 2007, San Feliu de Guixols, Spain. pp.44
Conference papers
inria-00350567v1
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Hybrid de novo tandem repeat detection using short and long reads
Guillaume Fertin
,
Géraldine Jean
,
Andreea Radulescu
,
Irena Rusu
Journal articles
hal-01214038v1
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DNA methylation in Arabidopsis has a genetic basis and shows evidence of local adaptation.
Manu J Dubin
,
Pei Zhang
,
Dazhe Meng
,
Marie-Stanislas Remigereau
,
Edward J Osborne
et al.
eLife , 2014, 4, pp.4:e05255
Journal articles
hal-01162697v1
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Sorting by Multi-cut Rearrangements
Laurent Bulteau
,
Guillaume Fertin
,
Géraldine Jean
,
Christian Komusiewicz
Book sections
hal-03346830v1
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SpecGlob: rapid and accurate alignment of mass spectra differing from their peptide models by several unknown modifications
Albane Lysiak
,
Guillaume Fertin
,
Géraldine Jean
,
Dominique Tessier
2022
Preprints, Working Papers, ...
hal-03959826v1
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Detection of multiple modifications in mass spectra without any a priori
Albane Lysiak
,
Guillaume Fertin
,
Géraldine Jean
,
Dominique Tessier
69th ASMS Conference on Mass Spectrometry and Allied Topics , Oct 2021, Philadelphia (PA), United States
Poster communications
hal-03959810v1
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The Contig Assembly Problem and Its Algorithmic Solutions
Géraldine Jean
,
Andreea Radulescu
,
Irena Rusu
Algorithms for Next-Generation Sequencing Data, pp. 267-298 , 2017
Book sections
hal-01819204v1
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A 3.5-Approximation Algorithm for Sorting by Intergenic Transpositions
Andre Rodrigues Oliveira
,
Géraldine Jean
,
Guillaume Fertin
,
Klairton Lima Brito
,
Ulisses Dias
et al.
7th International Conference, AlCoB 2020 (Algorithms for Computational Biology ) , Apr 2020, Missoula, United States. pp.16-28,
⟨10.1007/978-3-030-42266-0_2⟩
Conference papers
hal-02528304v1
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Super short operations on both gene order and intergenic sizes
Andre Oliveira
,
Géraldine Jean
,
Guillaume Fertin
,
Ulisses Dias
,
Zanoni Dias
et al.
Journal articles
hal-02481196v1
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Mining the semantics of genome super-blocks to infer ancestral architectures
Géraldine Jean
,
David James Sherman
,
Macha Nikolski
Journal articles
inria-00414692v1
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