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mmannot

 Matthias Zytnicki
2017, ⟨swh:1:dir:f805c1be7558944b0b385b6aa135368be9d971fd;origin=https://hal.archives-ouvertes.fr/hal-04205595;visit=swh:1:snp:ecd2d01c12e16ab398ba75538a8ddf5b44a6abd0;anchor=swh:1:rel:8fd10d35098aecbe9c41361f687dcd1cfd12d76a;path=/⟩
Logiciel hal-04205595v1

A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome

 . International Wheat Genome Sequencing Consortium (iwgsc) , Michael M. Alaux , Françoise F. Alfama-Depauw , Frédéric Choulet , Loïc Couderc , et al.
Science, 2014, 345 (6194), pp.1251788. ⟨10.1126/science.1251788⟩
Article dans une revue hal-02640843v1

Development of genomic resources to study the structure, function and evolution of the oak genome

 Christophe Plomion , Joelle J. Amselem , Jean-Marc Aury , Catherine Bodenes , Emilie Chancerel , et al.
IUFRO working group "Genetics of Quercus and Nothofagus", Institut National de Recherche Agronomique (INRA). UMR Biodiversité, Gènes et Communautés (1202)., Oct 2012, Bordeaux, France. 1 p
Communication dans un congrès hal-01019850v1

Multi-level conservation of chromosome conformation across livestock species reveals evolutionary links between genome structure and function

 Sylvain Foissac , Sarah Djebali Quelen , Nathalie Vialaneix , Matthias Zytnicki , Andrea Rau , et al.
Conference of the International Society for Animal Genetics (ISAG 2019), Jul 2019, Lleida, Spain
Communication dans un congrès hal-02788476v1
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Recent algorithmic advances for combinatorial optimization in graphical models

 David Allouche , Simon de Givry , Georgios Katsirelos , Thomas Schiex , Matthias Zytnicki , et al.
23rd International Symposium on Mathematical Programming (ISMP-18), Jul 2018, Bordeaux, France. 80 p
Communication dans un congrès hal-02785380v1
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Major contribution to the bovine pangenome: whole genome sequences, SNPs, and structural variants of 154 bulls from 14 breeds

 Amandine Suin , Camille Marcuzzo , Camille Eché , Andreea Dréau , Clément Birbes , et al.
Plant and Genome San Diego 2024, Jan 2024, San Diego, United States
Poster de conférence hal-04432840v1
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Whole metagenome analysis with metagWGS

 Joanna Fourquet , Adeline Chaubet , Hélène Chiapello , Christine Gaspin , Marisa Haenni , et al.
JOBIM 2019, Jul 2019, Nantes, France. , 2019
Poster de conférence hal-02788137v1
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The Arabidopsis hnRNP-Q Protein LIF2 and the PRC1 subunit LHP1 function in concert to regulate the transcription of stress-responsive genes

 Anne M. Molitor , David Latrasse , Matthias Zytnicki , Philippe P. Andrey , Nicole Houba Hérin , et al.
The Plant cell, 2016, 28 (9), ⟨10.1105/tpc.16.00244⟩
Article dans une revue hal-02633928v1
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De quelle épigénétique parle-t-on ?

 Matthias Zytnicki
Journées bioinformatiques de l'INRA, Mar 2016, Toulouse, France. 23 p
Communication dans un congrès hal-01603922v1
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HiC DOC: detecting and comparing genomic compartments

 Cyril Kurylo , Sylvain Foissac , Matthias Zytnicki
JOBIM, Jun 2020, Paris, France. 2020
Poster de conférence hal-04199161v1
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Profiling the landscape of transcription, chromatin accessibility and chromosome conformation of cattle, pig, chicken and goat genomes [FAANG pilot project]

 Sylvain Foissac , Sarah Djebali Quelen , Hervé Acloque , Philippe Bardou , Fany Blanc , et al.
36th International Society for Animal Genetics Conference, Jul 2017, Dublin, Ireland. 2017, ISAG 2017 - Genomes to Phenomes - Abstract Book
Poster de conférence hal-01608449v1
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Multi-species annotation of transcriptome and chromatin structure in domesticated animals

 Sylvain Foissac , Sarah Djebali , Kylie Munyard , Nathalie Vialaneix , Andrea Rau , et al.
BMC Biology, 2019, 17 (1), 25 p. ⟨10.1186/s12915-019-0726-5⟩
Article dans une revue hal-02437599v1
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mmannot: How to improve small–RNA annotation?

 Matthias Zytnicki , Christine Gaspin
PLoS ONE, 2020, 15 (5), ⟨10.1371/journal.pone.0231738⟩
Article dans une revue hal-03182914v1
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mmquant: how to count multi-mapping reads?

 Matthias Zytnicki
BMC Bioinformatics, 2017, 18 (1), pp.411. ⟨10.1186/s12859-017-1816-4⟩
Article dans une revue hal-01608562v1

Integrative and differential analysis of transcriptomes and chromatin accessibility regions reveals regulatory mechanisms involved in pig immune and metabolic functions

 Sarah Djebali Quelen , Kylie Munyard , Nathalie Villa-Vialaneix , Cédric Cabau , Andrea Rau , et al.
36th International Society for Animal Genetics Conference, Jul 2017, Dublin, Ireland. 2017, ISAG 2017 - Genomes to Phenomes - Abstract Book
Poster de conférence hal-01603033v1
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Characterization of 3D genomic interactions in fetal pig muscle

 Maria Marti-Marimon , Hervé Acloque , Matthias Zytnicki , Sarah Djebali Quelen , Nathalie Villa-Vialaneix , et al.
36th International Society for Animal Genetics Conference, Jul 2017, Dublin, Ireland. 2017, ISAG 2017 - Genomes to Phenomes - Abstract Book
Poster de conférence hal-01608046v1

Anytime hybrid best-first search with tree decomposition for weighted CSP

 David Allouche , Simon de Givry , George Katsirelos , Thomas Schiex , Matthias Zytnicki
CP 2015 - 21st International Conference on Principles and Practice of Constraint Programming, Aug 2015, Cork, Ireland. 17 p., ⟨10.1007/978-3-319-23219-5_2⟩
Communication dans un congrès hal-01198361v1
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Mapping reads on a genomic sequence: an algorithmic overview and a practical comparative analysis

 Sophie S. Schbath , Veronique V. Martin , Matthias Zytnicki , Julien Fayolle , Valentin Loux , et al.
Journal of Computational Biology, 2012, 19 (6), pp.796-813. ⟨10.1089/cmb.2012.0022⟩
Article dans une revue hal-02645697v1
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De novo assembling 19 maize inbred lines of the European germplasm

 Carole Iampietro , Camille Eché , Clement Birbes , Andreea Dreau , Erwan Denis , et al.
63rd Annual Maize Genetics Meeting, Mar 2021, virtuel, United States
Poster de conférence hal-03539396v1
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Livestock genome annotation: transcriptome and chromatin structure profiling in cattle, goat, chicken and pig

 Sylvain Foissac , Sarah Djebali , Kylie Munyard , Nathalie Vialaneix , Andrea Rau , et al.
2018
Pré-publication, Document de travail hal-02791029v1
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Endogenous florendoviruses are major components of plant genomes and hallmarks of virus evolution

 Andrew D W Geering , Florian Maumus , Dario Copetti , Nathalie Choisne , Derrick J Zwickl , et al.
Nature Communications, 2014, 5, ⟨10.1038/ncomms6269⟩
Article dans une revue hal-02631214v1

Can Probabilistic Model Checking Explore Ribo-Nucleic Acid Folding Space?

 Stefan Janssen , Loïc Paulevé , Yann Ponty , Balaji Raman , Matthias Zytnicki
IWBDA - 4th International Workshop on Bio-Design Automation - 2012, Jun 2012, San Francisco, United States
Communication dans un congrès hal-00712557v1
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Cohérence d'arc virtuelle pour les CSP pondérés

 Martin Cooper , Simon de Givry , Marti Sanchez , Thomas Schiex , Matthias Zytnicki
JFPC 2008- Quatrièmes Journées Francophones de Programmation par Contraintes, LINA - Université de Nantes - Ecole des Mines de Nantes, Jun 2008, Nantes, France. pp.237-246
Communication dans un congrès inria-00292640v1
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Cohérence d'arc existencielle : un pas de plus vers la cohérence d'arc complète

 Matthias Zytnicki , Federico Heras , Simon de Givry , Javier Larrosa
Premières Journées Francophones de Programmation par Contraintes, CRIL - CNRS FRE 2499, Jun 2005, Lens, pp.139-148
Communication dans un congrès inria-00000061v1

Influenza vaccination induces autoimmunity against orexinergic neurons in a mouse model for narcolepsy

 Raphaël Bernard-Valnet , David Frieser , Xuan-Hung Nguyen , Leila Khajavi , Clémence Quériault , et al.
Brain - A Journal of Neurology , 2022, 145 (6), pp.2018-2030. ⟨10.1093/brain/awab455⟩
Article dans une revue hal-03669984v1

srnaMapper : a mapping tool for short RNA reads

 Matthias Zytnicki
JOBIM, Jul 2019, Nantes, France. 2019
Poster de conférence hal-04199257v1
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srnaMapper: an optimal mapping tool for sRNA-Seq reads

 Matthias Zytnicki , Christine Gaspin
BMC Bioinformatics, 2022, 23 (1), pp.495. ⟨10.1186/s12859-022-05048-4⟩
Article dans une revue hal-04089717v1

Combining exact WCSP techniques and VNS search for solving MPE

 David Allouche , Aurélie Favier , Mathieu Fontaine , Simon de Givry , Jean-Philippe Metivier , et al.
Conference on Uncertainty in Artificial Intelligence (UAI'12), Aug 2012, Catalina Island, United States
Communication dans un congrès hal-01022649v1

srnamapper

 Matthias Zytnicki
2022, ⟨swh:1:dir:37d691c506f4e542102f3a9e9e94cf94d0c33d74;origin=https://hal.archives-ouvertes.fr/hal-04203130;visit=swh:1:snp:db19f4867bb04c4d3109da42a6e32ebab45cec70;anchor=swh:1:rel:7db728118302c24c918b27a0c63304ad8c56e3fd;path=/⟩
Logiciel hal-04203130v1
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Benchmarking read mapping on pangenomic variation graphs

 Hajar Bouhamout , Benjamin Linard , Matthias Zytnicki
jobim 2023, Jun 2023, Nice, France
Poster de conférence hal-04150552v1
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