Publications
Guillaume Gautreau et al.
PPanGGOLiN: Depicting microbial diversity via a partitioned pangenome graph
PLOS Computational Biology 2020, vol. 16, issue 3
doi: 10.1371/journal.pcbi.1007732
Estelle Talouarn et al.
Genome wide association analysis on semen volume and milk yield using different strategies of imputation to whole genome sequence in French dairy goats
BMC Genetics 2020, vol. 21, issue 1
doi: 10.1186/s12863-020-0826-9
Clément Cuello et al.
A systems biology approach uncovers a gene co-expression network associated with cell wall degradability in maize
PLOS ONE 2019, vol. 14, issue 12
doi: 10.1371/journal.pone.0227011
Maïté Courel et al.
GC content shapes mRNA storage and decay in human cells
eLife 2019, vol. 8
doi: 10.7554/elife.49708
Xue-Gong Li et al.
Genome analysis of Crassaminicella sp. SY095, an anaerobic mesophilic marine bacterium isolated from a deep-sea hydrothermal vent on the Southwest Indian Ridge
Marine Genomics 2019, vol. 52
doi: 10.1016/j.margen.2019.100733
Marina Pinskaya et al.
Reference-free transcriptome exploration reveals novel RNAs for prostate cancer diagnosis
Life Science Alliance 2019, vol. 2, issue 6
doi: 10.26508/lsa.201900449
Patricia Geesink et al.
Genome‐inferred spatio‐temporal resolution of an uncultivated Roizmanbacterium reveals its ecological preferences in groundwater
Environmental Microbiology 2019, vol. 22, issue 2
doi: 10.1111/1462-2920.14865
PingHsun Hsieh et al.
Adaptive archaic introgression of copy number variants and the discovery of previously unknown human genes
Science 2019, vol. 366, issue 6463
doi: 10.1126/science.aax2083
David Vallenet et al.
MicroScope: an integrated platform for the annotation and exploration of microbial gene functions through genomic, pangenomic and metabolic comparative analysis
Nucleic Acids Research 2019
doi: 10.1093/nar/gkz926
Andrea R. Waksmunski et al.
Pathway Analysis Integrating Genome-Wide and Functional Data Identifies PLCG2 as a Candidate Gene for Age-Related Macular Degeneration
Investigative Opthalmology & Visual Science 2019, vol. 60, issue 12
doi: 10.1167/iovs.19-27827
Catherine Branger et al.
Specialization of small non-conjugative plasmids in Escherichia coli according to their family types
Microbial Genomics 2019, vol. 5, issue 9
doi: 10.1099/mgen.0.000281
Lorenzo Tattini et al.
Accurate Tracking of the Mutational Landscape of Diploid Hybrid Genomes
Molecular Biology and Evolution 2019, vol. 36, issue 12
doi: 10.1093/molbev/msz177
Christelle Reynès et al.
ISoLDE: a data-driven statistical method for the inference of allelic imbalance in datasets with reciprocal crosses
Bioinformatics 2019
doi: 10.1093/bioinformatics/btz564
Jonathan P Bradfield et al.
A trans-ancestral meta-analysis of genome-wide association studies reveals loci associated with childhood obesity
Human Molecular Genetics 2019, vol. 28, issue 19
doi: 10.1093/hmg/ddz161
Thibault Leroy et al.
Massive postglacial gene flow between European white oaks uncovered genes underlying species barriers
New Phytologist 2019
doi: 10.1111/nph.16039
Yiyi Ma et al.
Analysis of Whole-Exome Sequencing Data for Alzheimer Disease Stratified by APOE Genotype
JAMA Neurology 2019, vol. 76, issue 9
doi: 10.1001/jamaneurol.2019.1456
Meng A et al.
A de novo approach to disentangle partner identity and function in holobiont systems
Microbiome 2018 6(1)
doi: 10.1186/s40168-018-0481-9
Opatovsky I et al.
Modeling trophic dependencies and exchanges among insects’ bacterial symbionts in a host-simulated environment
BMC Genomics 2018 19(1)
doi: 10.1186/s12864-018-4786-7
Villar E et al.
The Ocean Gene Atlas: exploring the biogeography of plankton genes online
Nucleic Acids Research 2018 46(W1)
doi: 10.1093/nar/gky376
Marchet C et al.
De novo clustering of long reads by gene from transcriptomics data
Nucleic Acids Research 2018 47(1)
doi: 10.1093/nar/gky834
Melloni GEM et al.
Precision Trial Drawer, a Computational Tool to Assist Planning of Genomics-Driven Trials in Oncology
JCO Precision Oncology 2018 2
doi: 10.1200/PO.18.00015
Baudrin LG et al.
Molecular and Computational Methods for the Detection of Microsatellite Instability in Cancer
Frontiers in Oncology 2018 8
doi: 10.3389/fonc.2018.00621
Deveau P et al.
QuantumClone: clonal assessment of functional mutations in cancer based on a genotype-aware method for clonal reconstruction
Bioinformatics 2018 34(11)
doi: 10.1093/bioinformatics/bty016
Khan W et al.
MACARON: a python framework to identify and re-annotate multi-base affected codons in whole genome/exome sequence data
Bioinformatics 2018 34(19)
doi: 10.1093/bioinformatics/bty382
Perron G et al.
A General Framework for Interrogation of mRNA Stability Programs Identifies RNA-Binding Proteins that Govern Cancer Transcriptomes
Cell Reports 2018 23(6)
doi: 10.1016/j.celrep.2018.04.031
Singh V et al.
Computational Systems Biology Approach for the Study of Rheumatoid Arthritis: From a Molecular Map to a Dynamical Model
Genomics and Computational Biology 2017 4(1)
doi: 10.18547/gcb.2018.vol4.iss1.e100050
Grüning B et al.
Bioconda: sustainable and comprehensive software distribution for the life sciences
Nature Methods 2018 15(7)
doi: 10.1038/s41592-018-0046-7
Dembélé D et al.
Analysis of high-throughput biological data using their rank values
Statistical Methods in Medical Research 2018
doi: 10.1177/0962280218764187
Varet H et al.
checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes
Bioinformatics 2018 35(5)
doi: 10.1093/bioinformatics/bty706
Claverie JM et al.
Mimiviridae: An Expanding Family of Highly Diverse Large dsDNA Viruses Infecting a Wide Phylogenetic Range of Aquatic Eukaryotes
Viruses 2018 10(9)
doi: 10.3390/v10090506