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2024Leptospira interrogans biofilm transcriptome highlights adaption to starvation and general stress while maintaining virulence, npj Biofilms and Microbiomes, 2024, 10 (1), pp.95. ⟨10.1038/s41522-024-00570-0⟩.
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2024The SaeRS two-component system regulates virulence gene expression in group B Streptococcus during invasive infection., mBio 2024 Sep; 15(9): e0197524.
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2024A regionally based precision medicine implementation initiative in North Africa:The PerMediNA consortium., Transl Oncol 2024 Jun; 44(): 101940.
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2024Comparative analysis of rabies pathogenic and vaccine strains detection by RIG-I-like receptors., Microbes Infect 2024 ; 26(4): 105321.
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2024Prosaposin maintains adult neural stem cells in a state associated with deep quiescence., Stem Cell Reports 2024 Apr; 19(4): 515-528.
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2023Transcriptome profiling of human col\onic cells exposed to the gut pathobiont Streptococcus gallolyticus subsp. gallolyticus., PLoS One 2023 ; 18(11): e0294868.
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2023Kicking sleepers out of bed: Macrophages promote reactivation of dormant Cryptococcus neoformans by extracellular vesicle release and non-lytic exocytosis., PLoS Pathog 2023 Nov; 19(11): e1011841.
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2023Depletion of slow-cycling PDGFRα+ADAM12+ mesenchymal cells promotes antitumor immunity by restricting macrophage efferocytosis., Nat Immunol 2023 Oct; (): .
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2023Rapid protection induced by a single-shot Lassa vaccine in male cynomolgus monkeys., Nat Commun 2023 Mar; 14(1): 1352.
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2023Phenotypes controlled by the Brucella abortus two component system BvrR/BvrS are differentially impacted by BvrR phosphorylation., Front Microbiol 2023 ; 14(): 1148233.
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2023Throughout in vitro first spermatogenic wave: Next-generation sequencing gene expression patterns of fresh and cryopreserved prepubertal mice testicular tissue explants., Front Endocrinol (Lausanne) 2023 ; 14(): 1112834.
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2023Multi-Modal SARS-CoV-2 Proteins Interactomics Unveil Spatial Patterns of Invasion Featuring 151 Contacts with Human Proteins Essential for Infection, 2023.
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2022Pathogenesis of recent Lassa virus isolates from lineages II and VII in cynomolgus monkeys., Virulence 2022 12; 13(1): 654-669.
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2022Complete Genome Sequence of Mesorhizobium ciceri Strain R30, a Rhizobium Used as a Commercial Inoculant for Chickpea in Argentina., Microbiol Resour Announc 2022 Nov; 11(11): e0077922.
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2022Complete Genome Sequence of Bradyrhizobium sp. Strain C-145, a Nitrogen-Fixing Rhizobacterium Used as a Peanut Inoculant in Argentina., Microbiol Resour Announc 2022 Aug; 11(8): e0050522.
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2022High prevalence of small intestine bacteria overgrowth and asymptomatic carriage of enteric pathogens in stunted children in Antananarivo, Madagascar., PLoS Negl Trop Dis 2022 May; 16(5): e0009849.
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2022The genetic architecture of language functional connectivity., Neuroimage 2022 Apr; 249(): 118795.
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2022Alterations of the axon initial segment in multiple sclerosis grey matter., Brain Commun 2022 ; 4(6): fcac284.
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2021Dichotomous metabolic networks govern human ILC2 proliferation and function., Nat Immunol 2021 Nov; 22(11): 1367-1374.
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2021Gene association networks from microarray data using a regularized estimation of partial correlation based on PLS regression., IEEE/ACM Trans Comput Biol Bioinform 2010 ; 7(2): 251-62.
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2021Multitrait GWAS to connect disease variants and biological mechanisms., PLoS Genet 2021 Aug; 17(8): e1009713.
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2021Immune response profiling of patients with spondyloarthritis reveals signalling networks mediating TNF-blocker function in vivo., Ann Rheum Dis 2021 Apr; 80(4): 475-486.
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2021Host genetic control of natural killer cell diversity revealed in the Collaborative Cross., Proc Natl Acad Sci U S A 2021 Mar; 118(10): .
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2020Genomic determinants for initiation and length of natural antisense transcripts in Entamoeba histolytica., Sci Rep 2020 11; 10(1): 20190.
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2020Influenza A virus co-opts ERI1 exonuclease bound to histone mRNA to promote viral transcription., Nucleic Acids Res. 2020 Sep; (): .
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2020Phenanthrolinic analogs of quinolones show antibacterial activity against M. tuberculosis., Eur J Med Chem 2020 Sep; 207(): 112821.
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2020JASS: command line and web interface for the joint analysis of GWAS results., NAR Genom Bioinform 2020 Mar; 2(1): lqaa003.
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2020Targeting Macrophage Histone H3 Modification as a Leishmania Strategy to Dampen the NF-κB/NLRP3-Mediated Inflammatory Response., Cell Rep 2020 Feb; 30(6): 1870-1882.e4.
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2019Trans-Atlantic Spill Over: Deconstructing the Ecological Adaptation of Leishmania infantum in the Americas., Genes (Basel) 2019 12; 11(1): .
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2019Adjusting for Principal Components of Molecular Phenotypes Induces Replicating False Positives., Genetics 2019 Apr; 211(4): 1179-1189.
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2019Non-Pathogenic Mopeia Virus Induces More Robust Activation of Plasmacytoid Dendritic Cells than Lassa Virus, Viruses 2019 03;11(3).
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2019The molecular logic of Nanog-induced self-renewal in mouse embryonic stem cells, Nat Commun 2019 03;10(1):1109.
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2019Immune parameters and outcomes during Ebola virus disease, JCI Insight 2019 Jan;4(1).
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2019A constrained singular value decomposition method that integrates sparsity and orthogonality., PLoS One 2019 ; 14(3): e0211463.
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2019Exploration Deficits Under Ecological Conditions as a Marker of Apathy in Frontotemporal Dementia., Front Neurol 2019 ; 10(): 941.
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2018A strategy for multimodal data integration: application to biomarkers identification in spinocerebellar ataxia., Brief Bioinform 2018 Nov; 19(6): 1356-1369.
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2018Leishmania Genome Dynamics during Environmental Adaptation Reveal Strain-Specific Differences in Gene Copy Number Variation, Karyotype Instability, and Telomeric Amplification., mBio 2018 11; 9(6): .
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2018Lassa virus activates myeloid dendritic cells but suppresses their ability to stimulate T cells., PLoS Pathog 2018 Nov; 14(11): e1007430.
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2018Non-coding RNA Expression, Function, and Variation during Drosophila Embryogenesis, Curr. Biol. 2018 11;28(22):3547-3561.e9.
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2018Continuation of Nesterov’s Smoothing for Regression With Structured Sparsity in High-Dimensional Neuroimaging., IEEE Trans Med Imaging 2018 Nov; 37(11): 2403-2413.
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2018Proteomics reveals scope of mycolactone-mediated Sec61 blockade and distinctive stress signature, Mol. Cell Proteomics 2018 Jun;.
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2018Optimized Protein-Protein Interaction Network Usage with Context Filtering, Methods Mol. Biol. 2018;1819:33-50.
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2017Comparison of multiple transcriptomes exposes unified and divergent features of quiescent and activated skeletal muscle stem cells., Skelet Muscle 2017 Dec; 7(1): 28.
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2017Covariate selection for association screening in multiphenotype genetic studies., Nat Genet 2017 Dec; 49(12): 1789-1795.
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2017Haplotype selection as an adaptive mechanism in the protozoan pathogen Leishmania donovani, Nat Ecol Evol 2017 Dec;1(12):1961-1969.
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2017Modeling a linkage between blood transcriptional expression and activity in brain regions to infer the phenotype of schizophrenia patients., NPJ Schizophr 2017 Sep; 3(1): 25.
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2017Psychrobacter pasteurii and Psychrobacter piechaudii sp. nov., two novel species within the genus Psychrobacter., Int J Syst Evol Microbiol 2017 Sep; 67(9): 3192-3197.
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2017Sec61 blockade by mycolactone inhibits antigen cross-presentation independently of endosome-to-cytosol export, Proc. Natl. Acad. Sci. U.S.A. 2017 07;114(29):E5910-E5919.
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2017Sec61 blockade by mycolactone inhibits antigen cross-presentation independently of endosome-to-cytosol export, Proc. Natl. Acad. Sci. U.S.A. 2017 Jul;114(29):E5910-E5919.
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2017Transposable Element Misregulation Is Linked to the Divergence between Parental piRNA Pathways in Drosophila Hybrids., Genome Biol Evol 2017 Jun; 9(6): 1450-1470.
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2017Modulation of Aneuploidy in during Adaptation to Different and Environments and Its Impact on Gene Expression, mBio 2017 05;8(3).
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2017Transposon-driven transcription is a conserved feature of vertebrate spermatogenesis and transcript evolution, EMBO Rep. 2017 07;18(7):1231-1247.
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2017Adaptive human immunity drives remyelination in a mouse model of demyelination., Brain 2017 Apr; 140(4): 967-980.
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2017TEtools facilitates big data expression analysis of transposable elements and reveals an antagonism between their activity and that of piRNA genes., Nucleic Acids Res 2017 Feb; 45(4): e17.
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2017Identification of misexpressed genetic elements in hybrids between Drosophila-related species., Sci Rep 2017 Jan; 7(): 40618.
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2017Playing hide and seek with repeats in local and global de novo transcriptome assembly of short RNA-seq reads., Algorithms Mol Biol 2017 ; 12(): 2.
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2016SNP calling from RNA-seq data without a reference genome: identification, quantification, differential analysis and impact on the protein sequence., Nucleic Acids Res 2016 Nov; 44(19): e148.
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2016Clinical-genetic model predicts incident impulse control disorders in Parkinson’s disease., J Neurol Neurosurg Psychiatry 2016 Oct; 87(10): 1106-11.
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2016Intron retention-dependent gene regulation in Cryptococcus neoformans, Sci Rep 2016 08;6:32252.
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2016DNA minicircles clarify the specific role of DNA structure on retroviral integration, Nucleic Acids Res. 2016 Jul;.
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2016Transcriptome Analysis of Peripheral Blood in Chronic Inflammatory Demyelinating Polyradiculoneuropathy Patients Identifies TNFR1 and TLR Pathways in the IVIg Response., Medicine (Baltimore) 2016 May; 95(19): e3370.
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2016Improved definition of the mouse transcriptome via targeted RNA sequencing, Genome Res. 2016 05;26(5):705-16.
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2015Hypomorphic variants of cationic amino acid transporter 3 in males with autism spectrum disorders., Amino Acids 2015 Dec; 47(12): 2647-58.
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2015Multiple sequence alignment modeling: methods and applications, Brief. Bioinformatics 2016 11;17(6):1009-1023.
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2015Single-voxel (1)H spectroscopy in the human hippocampus at 3 T using the LASER sequence: characterization of neurochemical profile and reproducibility., NMR Biomed 2015 Oct; 28(10): 1209-17.
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2015CARMEN, a human super enhancer-associated long noncoding RNA controlling cardiac specification, differentiation and homeostasis, J. Mol. Cell. Cardiol. 2015 Dec;89(Pt A):98-112.
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2015A 12-gene signature to distinguish colon cancer patients with better clinical outcome following treatment with 5-fluorouracil or FOLFIRI, J Pathol Clin Res 2015 Jul;1(3):160-72.
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2015Quantitative gene profiling of long noncoding RNAs with targeted RNA sequencing, Nat. Methods 2015 Apr;12(4):339-42.
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2015Enhanced transcriptome maps from multiple mouse tissues reveal evolutionary constraint in gene expression, Nat Commun 2015 Jan;6:5903.
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2014Principles of regulatory information conservation between mouse and human, Nature 2014 Nov;515(7527):371-375.
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2014A comparative encyclopedia of DNA elements in the mouse genome, Nature 2014 Nov;515(7527):355-64.
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2014Variable selection for generalized canonical correlation analysis., Biostatistics 2014 Jul; 15(3): 569-83.
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2014SARA-Coffee web server, a tool for the computation of RNA sequence and structure multiple alignments, Nucleic Acids Res. 2014 Jul;42(Web Server issue):W356-60.
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2013Iterative reconstruction of high-dimensional Gaussian Graphical Models based on a new method to estimate partial correlations under constraints., PLoS One 2013 ; 8(4): e60536.
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2012Significant correlation between a set of genetic polymorphisms and a functional brain network revealed by feature selection and sparse Partial Least Squares., Neuroimage 2012 Oct; 63(1): 11-24.
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2012An integrated encyclopedia of DNA elements in the human genome, Nature 2012 Sep;489(7414):57-74.
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2011Use of pretransformation to cope with extreme values in important candidate features., Biom J 2011 Jul; 53(4): 673-88.
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2011BlastR–fast and accurate database searches for non-coding RNAs, Nucleic Acids Res. 2011 Sep;39(16):6886-95.
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2011Graph constrained discriminant analysis: a new method for the integration of a graph into a classification process., PLoS One 2011 ; 6(10): e26146.
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2010Distance between homologous chromosomes results from chromosome positioning constraints., J Cell Sci 2010 Dec; 123(Pt 23): 4063-75.
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2010Long noncoding RNAs with enhancer-like function in human cells, Cell 2010 Oct;143(1):46-58.
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