Publications by authors named "Geraldine Jean"

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Partition Based Algorithms for Rearrangement Distances With Flexible Intergenic Regions.
Gabriel Siqueira, Alexsandro Oliveira Alexandrino, Andre Rodrigues Oliveira, Geraldine Jean, Guillaume Fertin

IEEE Trans Comput Biol Bioinform· August 2025

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Directly and Rapidly Aligns Mass Spectra on Whole Proteomes and Identifies Peptides That Are Not Necessarily Tryptic: Implications for Peptidomics.
Émile Benoist, Géraldine Jean, Hélène Rogniaux, Guillaume Fertin, Dominique Tessier

J Proteome Res· April 2025

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Fast alignment of mass spectra in large proteomics datasets, capturing dissimilarities arising from multiple complex modifications of peptides.
Grégoire Prunier, Mehdi Cherkaoui, Albane Lysiak, Olivier Langella, Mélisande Blein-Nicolas, Géraldine Jean

BMC Bioinformatics· November 2023

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Reversal and Transposition Distance on Unbalanced Genomes Using Intergenic Information.
Alexsandro Oliveira Alexandrino, Andre Rodrigues Oliveira, Géraldine Jean, Guillaume Fertin, Ulisses Dias

J Comput Biol· August 2023

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Sorting Signed Permutations by Intergenic Reversals.
Andre Rodrigues Oliveira, Geraldine Jean, Guillaume Fertin, Klairton Lima Brito, Laurent Bulteau

IEEE/ACM Trans Comput Biol Bioinform· January 2022

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Sorting Permutations by Intergenic Operations.
Andre Rodrigues Oliveira, Geraldine Jean, Guillaume Fertin, Klairton Lima Brito, Ulisses Dias

IEEE/ACM Trans Comput Biol Bioinform· January 2022

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Evaluation of open search methods based on theoretical mass spectra comparison.
Albane Lysiak, Guillaume Fertin, Géraldine Jean, Dominique Tessier

BMC Bioinformatics· April 2021

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Sorting by Genome Rearrangements on Both Gene Order and Intergenic Sizes.
Klairton Lima Brito, Géraldine Jean, Guillaume Fertin, Andre Rodrigues Oliveira, Ulisses Dias

J Comput Biol· February 2020

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Super short operations on both gene order and intergenic sizes.
Andre R Oliveira, Géraldine Jean, Guillaume Fertin, Ulisses Dias, Zanoni Dias

Algorithms Mol Biol· November 2019

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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, Géraldine Jean

Sci Rep· April 2018

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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

Algorithms Mol Biol· June 2017

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Hybrid de novo tandem repeat detection using short and long reads.
Guillaume Fertin, Géraldine Jean, Andreea Radulescu, Irena Rusu

BMC Med Genomics· July 2016

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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, Geraldine Jean

Elife· May 2015

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Oqtans: the RNA-seq workbench in the cloud for complete and reproducible quantitative transcriptome analysis.
Vipin T Sreedharan, Sebastian J Schultheiss, Géraldine Jean, André Kahles, Regina Bohnert

Bioinformatics· May 2014

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Cost analysis of prophylactic intraoperative cystoscopic ureteral stents in gynecologic surgery.
James Fanning, Bradford Fenton, Geraldine Marie Jean, Clara Chae

J Am Osteopath Assoc· December 2011

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Multiple reference genomes and transcriptomes for Arabidopsis thaliana.
Xiangchao Gan, Oliver Stegle, Jonas Behr, Joshua G Steffen, Philipp Drewe, Géraldine Jean

Nature· August 2011

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SyDiG: uncovering Synteny in Distant Genomes.
Geraldine Jean, Macha Nikolski

Int J Bioinform Res Appl· June 2011

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RNA-Seq read alignments with PALMapper.
Géraldine Jean, André Kahles, Vipin T Sreedharan, Fabio De Bona, Gunnar Rätsch

Curr Protoc Bioinformatics· December 2010

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Comparative genomics of protoploid Saccharomycetaceae.

Genome Res· October 2009

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Mining the semantics of genome super-blocks to infer ancestral architectures.
Géraldine Jean, David James Sherman, Macha Nikolski

J Comput Biol· September 2009

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