Search Results - "MESH: Gene Regulatory Networks"

1

Additional insights into the organization of transcriptional regulatory modules based on a 3D model of the Saccharomyces cerevisiae genome

Authors: Thibault Poinsignon, Mélina Gallopin, Jean-Michel Camadro, Pierre Poulain, Gaëlle Lelandais

Contributors: Institut Jacques Monod (IJM (UMR_7592)), Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Institut de Biologie Intégrative de la Cellule (I2BC), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS)

Source: BMC Research Notes
BMC Research Notes, 2022, 15 (1), pp.67. ⟨10.1186/s13104-022-05940-5⟩

Subject Terms: General Biochemistry, Genetics and Molecular Biology, General Medicine, 3D-Scere, Chromosome conformation capture, Transcriptional regulations, Yeast, MESH: Gene Expression Regulation, Fungal, MESH: Gene Regulatory Networks, MESH: Saccharomyces cerevisiae, MESH: Saccharomyces cerevisiae Proteins, MESH: Transcription Factors, [SDV]Life Sciences [q-bio]

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::717e89f865edb9c8cb4cd35396853658
https://doi.org/10.1186/s13104-022-05940-5

2

Dissection of the Fgf8 regulatory landscape by in vivo CRISPR-editing reveals extensive intra- and inter-enhancer redundancy

Authors: Katja Langenfeld, François Spitz, Francina Langa, S. Bastide, Andreas Hörnblad

Contributors: European Molecular Biology Laboratory [Hamburg] (EMBL), Umeå University, Génomique et Epigénomique du Développement des Vertébrés - Genomics and Epigenomics of Vertebrate Development, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Sorbonne Université - Institut de Formation Doctorale (IFD ), Sorbonne Université (SU), Centre d'Ingénierie génétique murine - Mouse Genetics Engineering Center (CIGM), Institut Pasteur [Paris], A.H. was supported by an EMBL Interdisciplinary Postdoctoral fellowship (EIPOD) under Marie Curie Actions COFUND from the E.U. This work was supported by a grant from the Deutsche Forschungsgemeinschaft (SP 1331/3-1, to F.S) and by the Institut Pasteur.

Source: Nature Communications, Vol 12, Iss 1, Pp 1-12 (2021)
Nature Communications
Nature Communications, Nature Publishing Group, 2021, 12 (1), pp.439. ⟨10.1038/s41467-020-20714-y⟩

Subject Terms: Science, animal structures, embryonic structures, Chromatin structure, Developmental biology, Gene regulation, Genetic engineering, Transcriptional regulatory elements, MESH: Animals, MESH: CRISPR-Cas Systems, MESH: Male, MESH: Mesencephalon, MESH: Mice, MESH: Mice, Transgenic, MESH: Rhombencephalon, MESH: Embryo, Mammalian, MESH: Embryonic Development, MESH: Enhancer Elements, Genetic, MESH: Extremities, MESH: Feasibility Studies, MESH: Fibroblast Growth Factor 8, MESH: Gene Regulatory Networks, MESH: Genetic Engineering, [SDV.BDD]Life Sciences [q-bio]/Development Biology, [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], Developmental Biology, Utvecklingsbiologi, Article, General Physics and Astronomy, General Biochemistry, Genetics and Molecular Biology, General Chemistry, Computational biology, Lineage (genetic), Cas9, CRISPR, Genome engineering, Biology, Apical ectodermal ridge, Enhancer, Gene regulatory network, Regulation of gene expression

File Description: application/pdf

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6be04ce5d4825aa6c9f9fb2a54ad000b
https://doaj.org/article/05751165f85045b09795c881fcd806d5

HTML Full Text PDF Full Text

3

Inferring and analyzing gene regulatory networks from multi-factorial expression data: a complete and interactive suite

Authors: Océane Cassan, Sophie Lèbre, Antoine Martin

Contributors: Biochimie et Physiologie Moléculaire des Plantes (BPMP), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Institut Montpelliérain Alexander Grothendieck (IMAG), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)

Source: BMC Genomics
BMC Genomics, BioMed Central, 2021, 22 (1), pp.387. ⟨10.1186/s12864-021-07659-2⟩
BMC Genomics, Vol 22, Iss 1, Pp 1-15 (2021)

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e8fdcaf550c523b3077b7a3ac37389c7
https://hal.inrae.fr/hal-03246141

4

In vivo commensal control of Clostridioides difficile virulence

Authors: Nitin S. Baliga, Christopher K Cummins, Brintha P. Girinathan, Marc W. Allard, Mary L. Delaney, Narjol Gonzalez-Escalona, Selva Rupa Christinal Immanuel, Abraham L. Sonenshein, Mario L. Arrieta-Ortiz, Yan Luo, Maria Hoffman, Richard Lavin, Nicholas DiBenedetto, Jay N. Worley, Georg K. Gerber, Bruno Dupuy, Johann Peltier, Andrew B. Onderdonk, Lynn Bry

Contributors: Brigham & Women’s Hospital [Boston] (BWH), Harvard Medical School [Boston] (HMS), National Center for Biotechnology Information (NCBI), Pathogénèse des Bactéries Anaérobies / Pathogenesis of Bacterial Anaerobes (PBA (U-Pasteur_6)), Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS)-Université Paris Cité (UPCité), Institut de Biologie Intégrative de la Cellule (I2BC), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Université Paris-Saclay-Centre National de la Recherche Scientifique (CNRS), Institute for Systems Biology [Seattle] (ISB), U.S. Food and Drug Administration (FDA), Harvard-MIT Division of Health Sciences and Technology [Cambridge], Massachusetts Institute of Technology (MIT), Tufts University School of Medicine [Boston], This work was supported by the BWH Precision Medicine Institute, R01AI153605 from the National Institute of Allergy and Infectious Diseases (NIAID) and P30DK034854 from the National Institute of Diabetes, Digestive and Kidney Diseases to L.B., R01AI128215, R01AI141953, and U19AI135976 from NIAID and IIBR-2042948 from the National Science Foundation to N.S.B., B.P.G. was supported by T32 HL007627, the work of J.N.W. was supported by the Intramural Research Program of the National Library of Medicine, National Institutes of Health. J.P. received support from the Institut Pasteur (Bourse ROUX). This work was conducted by authors from the FDA working as official U.S. Government employees and for which no additional external funding was utilized.

Source: Cell Host & Microbe
Cell Host & Microbe, 2021, 29 (11), pp.1693-1708.e7. ⟨10.1016/j.chom.2021.09.007⟩
Cell Host Microbe

Subject Terms: Clostridioides difficile, Clostridium sardiniense, Paraclostridium bifermentans, anaerobe metabolism, carbon source enrichment analysis, colitis, conventional mouse, gnotobiotic mouse, metabolomics, metatranscriptomics, MESH: Amino Acids, MESH: Animals, MESH: Gene Expression Profiling, MESH: Gene Expression Regulation, Bacterial, MESH: Gene Regulatory Networks, MESH: Germ-Free Life, MESH: Mice, MESH: Severity of Illness Index, MESH: Symbiosis, MESH: Systems Biology, MESH: Virulence, MESH: Arginine, MESH: Butyrates, MESH: Cecum, MESH: Clostridiales, MESH: Clostridioides difficile, MESH: Clostridium, MESH: Clostridium Infections, MESH: Fermentation, [SDV]Life Sciences [q-bio], [SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology, [SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology, Virology, Microbiology, Parasitology, Colitis, medicine.disease, medicine, In vivo, Biology, Host (biology), Pathogen, Clostridia, biology.organism_classification, Virulence, Systems biology, Toxin, medicine.disease_cause, Article

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1871658156407951a3541aa082d6ad62
https://hal-pasteur.archives-ouvertes.fr/pasteur-03580039

5

Comparative genomics of white and opaque cell states supports an epigenetic mechanism of phenotypic switching in Candida albicans

Authors: Chapman N. Beekman, Iuliana V. Ene, Richard J. Bennett, Christina A. Cuomo

Contributors: Brown University, Broad Institute [Cambridge], Harvard University [Cambridge]-Massachusetts Institute of Technology (MIT), This work was supported by NIH NIAID R21AI139592 and NIH NIGMS IDeA award (P20GM109035) to I.V.E., and by NIH NIAID R01 AI081704 and R01 AI141893 to R.J.B. C.A.C. was supported by NIH NIAID award U19AI110818 to the Broad Institute., Ene, Iuliana

Source: G3
G3, Genetics Society of America, 2021, 11 (2), pp.jkab001. ⟨10.1093/g3journal/jkab001⟩
G3: Genes|Genomes|Genetics

File Description: application/pdf

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::100287d7929bc109c632e45ab4a002f9
https://hal-pasteur.archives-ouvertes.fr/pasteur-03289805

6

WWP2 regulates pathological cardiac fibrosis by modulating SMAD2 signaling

Contributors: Cardiovascular and Metabolic Disorders [Singapor] (cvmd), Duke-NUS Medical School [Singapore], Università degli studi di Bari Aldo Moro = University of Bari Aldo Moro (UNIBA), Ospedale San Giovanni di Dio, Firenze, National Heart and Lung Institute [London] (NHLI), Imperial College London-Royal Brompton and Harefield NHS Foundation Trust, Génétique Evolutive Humaine - Human Evolutionary Genetics, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Faculty of Medicine [London, UK], Imperial College London, Agency for science, technology and research [Singapore] (A*STAR), Institute of Molecular and Cell Biology, National University of Singapore (NUS)-Agency for science, technology and research [Singapore] (A*STAR), MRC London Institute of Medical Sciences (LMC), National Heart Centre Singapore (NHCS), Royal Brompton and Harefield NHS Foundation Trust, Cardiovascular Research Centre [London], Centro Nacional de Investigaciones Cardiovasculares Carlos III [Madrid, Spain] (CNIC), Instituto de Salud Carlos III [Madrid] (ISC), University of Bristol [Bristol], Institute of Physiology [Prague], Czech Academy of Sciences [Prague] (CAS), University of Cambridge [UK] (CAM), The Alan Turing Institute, MRC Biostatistics Unit [Cambridge, UK], Max Delbrück Center for Molecular Medicine [Berlin] (MDC), Helmholtz-Gemeinschaft = Helmholtz Association, German Center for Cardiovascular Research (DZHK), Berlin Institute of Health (BIH), Charité - UniversitätsMedizin = Charité - University Hospital [Berlin], The research was primarily supported by National Medical Research Council (NMRC) Singapore grant NMRC/CBRG/0106/2016 (to E.P.) and the British Heart Foundation (BHF) Ph.D. Studentship grant FS/11/25/28740 (to E.P). We acknowledge additional funding support from European Union FP7 CardioNeT-ITN-289600 (to E.L.-P., S.A.C., and P.J.R.B.), Heart Research UK (to P.J.R.B.), NIHR CV BRU of Royal Brompton and Harefield, NHS Foundation Trust (to S.A.C. and P.J.R.B.), BHF (to S.A.C.), Leducq Foundation (to S.A.C.), MRC UK (to S.A.C.), BHF Program Grant no. RG/15/5/31446 (to C.E. and E.P.). M.P. was supported by Praemium Academiae award of the Czech Academy of Sciences and grant 14-36804G from the Czech Science Foundation., We wish to thank Dr. Jacques Behmoaras for contributing critical and constructive comments to the manuscript., European Project: 289600,EC:FP7:PEOPLE,FP7-PEOPLE-2011-ITN,CARDIONET(2012), National Medical Research Council (Singapur), British Heart Foundation, Unión Europea. Comisión Europea, National Institutes of Health (Estados Unidos), Czech Science Foundation, Fondation Leducq, NHS Foundation Trusth, Leducq Foundation for Cardiovascular Research, Commission of the European Communities, Heart Research UK, Medical Research Council (MRC), University of Bari Aldo Moro (UNIBA)

Source: Nature Communications, Vol 10, Iss 1, Pp 1-19 (2019)
Nature Communications
Nature Communications, Nature Publishing Group, 2019, 10 (1), pp.3616. ⟨10.1038/s41467-019-11551-9⟩
Repisalud
Instituto de Salud Carlos III (ISCIII)
Chen, H, Moreno-Moral, A, Pesce, F, Devapragash, N, Mancini, M, Heng, E L, Rotival, M, Srivastava, P K, Harmston, N, Shkura, K, Rackham, O J L, Yu, W P, Sun, X M, Tee, N G Z, Tan, E L S, Barton, P J R, Felkin, L E, Lara-Pezzi, E, Angelini, G, Beltrami, C, Pravenec, M, Schafer, S, Bottolo, L, Hubner, N, Emanueli, C, Cook, S A & Petretto, E 2019, ' WWP2 regulates pathological cardiac fibrosis by modulating SMAD2 signalling ', Nature Communications, vol. 10, 3616 . https://doi.org/10.1038/s41467-019-11551-9

Subject Terms: Science, Ubiquitin ligases, Cardiomyopathies, MESH: Adolescent, MESH: Adult, MESH: Fibrosis / genetics, MESH: Fibrosis / metabolism, MESH: Mice, Transgenic, MESH: Gene Regulatory Networks, MESH: Genetic Predisposition to Disease* / genetics, MESH: Heart Diseases / genetics, MESH: Heart Diseases / metabolism, MESH: Humans, MESH: Male, MESH: Mice, MESH: Ubiquitin-Protein Ligases / metabolism, MESH: Middle Aged, MESH: Aged, MESH: Protein Isoforms, MESH: Smad2 Protein / genetics, MESH: Smad2 Protein / metabolism, MESH: Transforming Growth Factor beta / metabolism, MESH: Ubiquitin-Protein Ligases / genetics, MESH: Young Adult, MESH: Gene Expression Regulation, MESH: Animals, MESH: Cardiomyopathies / genetics, MESH: Cardiomyopathies / metabolism, MESH: Extracellular Matrix Proteins / metabolism, MESH: Female, [SDV.GEN.GH]Life Sciences [q-bio]/Genetics/Human genetics, [SDV.GEN.GPO]Life Sciences [q-bio]/Genetics/Populations and Evolution [q-bio.PE], Article, 631/45/474/2073, 692/4019/592/75/74, 38/39, 13/51, 13/89, 42/44, 14/32, 14/35, 45/43, 64/60, 82/80, General Physics and Astronomy, General Biochemistry, Genetics and Molecular Biology, General Chemistry, Cardiac fibrosis, medicine.disease, medicine, Pressure overload, Cardiac function curve, Cell biology, Fibrosis, Ubiquitin ligase, biology.protein, biology, business.industry, business, Regulation of gene expression, Heart failure, Myocardial fibrosis, Cardiovascular and Metabolic Diseases, lcsh:Science, lcsh:Q, Science & Technology, Multidisciplinary Sciences, Science & Technology - Other Topics, E3 UBIQUITIN LIGASE, TGF-BETA, GENE-EXPRESSION, HEART-FAILURE, BLOOD-PRESSURE, FIBROBLAST, REVEALS, RAT, IDENTIFICATION, DETERMINANT, Adolescent, Adult, Aged, Animals, Extracellular Matrix Proteins, Female, Gene Expression Regulation, Gene Regulatory Networks, Genetic Predisposition to Disease, Heart Diseases, Humans, Male, Mice, Mice, Transgenic, Middle Aged, Protein Isoforms, Smad2 Protein, Transforming Growth Factor beta, Ubiquitin-Protein Ligases, Young Adult, Centre for Surgical Research

File Description: application/pdf; text; Electronic

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9b9a8eae768aaa77cac0482318b75243
https://doaj.org/article/cfb1b8ece2684ea692a537c58f79dad3

HTML Full Text PDF Full Text

7

An Integrative Gene Expression Microarray Meta-analysis Identifies Host Factors and Key Signatures Involved in Hepatitis B Virus Infection

Authors: Marc P. Windisch, Mohcine Elmessaoudi-Idrissi, Sayeh Ezzikouri, Soumaya Benjelloun, Anass Kettani, Pascal Pineau, Haya Altawalah

Contributors: Institut Pasteur du Maroc, Réseau International des Instituts Pasteur (RIIP), Institut Pasteur Korea - Institut Pasteur de Corée, University Hassan II [Casablanca], Kuwait University, Organisation Nucléaire et Oncogenèse / Nuclear Organization and Oncogenesis, Institut Pasteur [Paris]-Institut National de la Santé et de la Recherche Médicale (INSERM), Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut Pasteur [Paris]

Source: Infectious Disorders-Drug Targets
Infectious Disorders-Drug Targets, Bentham Science Publishers, 2020, 20 (5), pp.698-707. ⟨10.2174/1871526519666190807153901⟩

Subject Terms: HBV, expression, gene, gene network, host factors, meta-analysis, MESH: Case-Control Studies, MESH: Datasets as Topic, MESH: Humans, MESH: Hypoxia-Inducible Factor 1, alpha Subunit, MESH: NEDD8 Protein, MESH: Oligonucleotide Array Sequence Analysis, MESH: Proto-Oncogene Proteins c-jun, MESH: S-Phase Kinase-Associated Proteins, MESH: Gene Expression Profiling, MESH: Gene Expression Regulation, MESH: Gene Regulatory Networks, MESH: Hepatitis B, MESH: Hepatitis B virus, [SDV]Life Sciences [q-bio], Microbiology (medical), Pharmacology, Molecular Medicine, General Medicine, Microarray, Signal transduction, SKP2, Gene expression, Gene, Biology, Hepatitis B virus, medicine.disease_cause, medicine, Gene regulatory network, Disease, Computational biology

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::361246edadb092a99c40f70d7c9f422f
https://hal-pasteur.archives-ouvertes.fr/pasteur-03244815

8

A complex network of additive and epistatic quantitative trait loci underlies natural variation of Arabidopsis thaliana quantitative disease resistance to Ralstonia solanacearum under heat stress

Authors: Nathalie Aoun, Maxime Bonhomme, Léa Boyrie, Fabrice Roux, Laurent Deslandes, Henri Desaint, Richard Berthomé

Contributors: Laboratoire des Interactions Plantes Microbes Environnement (LIPME), Centre National de la Recherche Scientifique (CNRS)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Syngenta France, Laboratoire de Recherche en Sciences Végétales (LRSV), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS), Evolution des Interactions Plantes-Microorganismes, Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Occitanie Regional Council, INRA Plant Health and Environment division, French National Research Agency (ANR) : DeCoD, Syngenta seeds, ANR-16-CE20-0017,DeCoD,Détection de réseaux de gènes Coadaptés par analyse de la Diversité génétique à l'échelle du génome: application à la légumineuse modèle Medicago truncatula(2016), ANR-10-LABX-0041,TULIP,Towards a Unified theory of biotic Interactions: the roLe of environmental(2010)

Source: Molecular Plant Pathology
Molecular Plant Pathology, Wiley, In press, 21 (11), pp.1405-1420. ⟨10.1111/mpp.12964⟩

Subject Terms: epistasis, GWA mapping, heat stress, local score, natural accessions, Ralstonia, MESH: Arabidopsis / genetics, MESH: Arabidopsis / microbiology, MESH: Phenotype, MESH: Plant Diseases / microbiology, MESH: Quantitative Trait Loci / genetics, MESH: Ralstonia solanacearum / physiology, MESH: Arabidopsis / physiology, MESH: Chromosome Mapping, MESH: Disease Resistance / genetics, MESH: Epistasis, Genetic, MESH: Gene Regulatory Networks, MESH: Genetic Variation, MESH: Genome-Wide Association Study, MESH: Heat-Shock Response, [SDV]Life Sciences [q-bio], Original Article, Original Articles, Ralstonia solanacearum, SOLO DANCER, Plant Science, Soil Science, Agronomy and Crop Science, Molecular Biology, Genetic architecture, Genetic variation, Genetics, biology.organism_classification, biology, Association mapping, Population, education.field_of_study, education, Quantitative trait locus, Epistasis, Candidate gene

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::dbd307232ef67c1fa46ee629737fe21b
https://hal.inrae.fr/hal-02948127

9

Demethylation by low-dose 5-aza-2′-deoxycytidine impairs 3D melanoma invasion partially through miR-199a-3p expression revealing the role of this miR in melanoma

Authors: Arnaud Pillon, Gilles Favre, Florence Busato, Arnaud Carrier, Antoine Daunay, Paola B. Arimondo, Joëlle Riond, Cécile Desjobert, Audrey Delmas, Diego M. Marzese, Jörg Tost, Chantal Etievant

Contributors: Pharmacochimie de la Régulation Epigénétique du Cancer (ETaC), PIERRE FABRE-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Centre de biologie du développement (CBD), Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre de Biologie Intégrative (CBI), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Centre de Recherches en Cancérologie de Toulouse (CRCT), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), John Wayne Cancer Institute [Santa Monica, CA, USA], Centre d'Etude du Polymorphisme Humain (CEPH), Fondation Jean Dausset-Institut Universitaire d'Hématologie (IUH), Université Paris Diderot - Paris 7 (UPD7)-Université Paris Diderot - Paris 7 (UPD7), Laboratoire d'Epigénétique et d'Environnement [Evry] (CNG - CEA), Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Centre National de Genotypage-Institut de Génomique [Evry], Laboratoires Pierre Fabre, Chimie biologique épigénétique - Epigenetic Chemical Biology (EpiCBio), Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), This work was supported to P.B.A. by Centre National de la Recherche Scientifique (CNRS) [ATIP], Région Midi Pyrenées [Equipe d’Excellence and FEDER CNRS/Région Midi Pyrenées], Fondation InNaBioSanté, and PlanCancer2014 (N°EPIG201401)., PIERRE FABRE-Centre National de la Recherche Scientifique (CNRS), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, Université Paris Diderot - Paris 7 (UPD7)-Institut Universitaire d'Hématologie (IUH), Université Paris Diderot - Paris 7 (UPD7)-Fondation Jean Dausset, Centre National de Génotypage (CNG), Commissariat à l'énergie atomique et aux énergies alternatives (CEA), Centre National de la Recherche Scientifique (CNRS), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Centre de Biologie Intégrative (CBI)

Source: Clinical Epigenetics, Vol 11, Iss 1, Pp 1-14 (2019)
Clinical Epigenetics
Clinical Epigenetics, BioMed Central, 2019, 11 (1), pp.9. ⟨10.1186/s13148-018-0600-2⟩
Clinical Epigenetics, 2019, 11 (1), pp.9. ⟨10.1186/s13148-018-0600-2⟩

Subject Terms: DNA methylation, microRNA, Melanoma aggressiveness, Epigenetics, lcsh:Medicine, lcsh:R, lcsh:Genetics, lcsh:QH426-470, MESH: Animals, MESH: Cell Line, Tumor, MESH: Spheroids, Cellular, MESH: Up-Regulation, MESH: Cell Survival, MESH: DNA Methylation, MESH: Decitabine, MESH: Female, MESH: Gene Expression Profiling, MESH: Gene Expression Regulation, Neoplastic, MESH: Gene Regulatory Networks, MESH: Humans, MESH: Lung Neoplasms, MESH: Melanoma, MESH: Mice, MESH: MicroRNAs, MESH: Neoplasm Invasiveness, MESH: Neoplasm Transplantation, MESH: Promoter Regions, Genetic, MESH: Sequence Analysis, RNA, [SDV]Life Sciences [q-bio], neoplasms, education, Genetics (clinical), Developmental Biology, Genetics, Molecular Biology, Demethylating agent, chemistry.chemical_compound, chemistry, Deoxycytidine, Cancer research, Transcriptome, In vivo, Melanoma, medicine.disease, medicine, Biology, Research

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6d2d0bd1fdcfffb79fe1386702dbb4b7
http://link.springer.com/article/10.1186/s13148-018-0600-2

HTML Full Text PDF Full Text

10

Tetanus Toxin Synthesis is Under the Control of A Complex Network of Regulatory Genes in Clostridium tetani

Authors: Dominique Garnier, Holger Brüggemann, Diana Chapeton-Montes, Catherine Thouvenot, Georges Michel Haustant, Fabien Barbirato, Michel R. Popoff, Cecile Deneve, Lucile Plourde, Vincent Colombié, Olivier Gorgette, Sandy Demay, Christine Schmitt

Contributors: Bactéries anaérobies et Toxines, Institut Pasteur [Paris], Sanofi Pasteur [Marcy-l'Étoile, France], Plateforme BioImagerie Ultrastructurale – Ultrastructural BioImaging Platform (UTechS UBI), Aarhus University [Aarhus], This research was funded by grant from Sanofi-Pasteur, Marcy l’Etoile and by Institut Pasteur, Paris.

Source: Toxins
Toxins, MDPI, 2020, 12 (5), pp.328. ⟨10.3390/toxins12050328⟩
Toxins, Vol 12, Iss 328, p 328 (2020)
Chapeton-Montes, D, Plourde, L, Deneve, C, Garnier, D, Barbirato, F, Colombié, V, Demay, S, Haustant, G, Gorgette, O, Schmitt, C, Thouvenot, C, Brüggemann, H & Popoff, M R 2020, ' Tetanus Toxin Synthesis is Under the Control of A Complex Network of Regulatory Genes in Clostridium tetani ', Toxins, vol. 12, no. 5, 328 . https://doi.org/10.3390/toxins12050328
Volume 12
Issue 5

Subject Terms: Clostridium botulinum, Clostridium tetani, gene transcription, tetanus toxin, two-component system, MESH: Bacterial Proteins, MESH: Carbonates, MESH: Clostridium tetani, MESH: Gene Expression Regulation, Bacterial, MESH: Gene Regulatory Networks, MESH: Phosphates, MESH: Promoter Regions, Genetic, MESH: Tetanus Toxin, MESH: Trans-Activators, MESH: Transcription, Genetic, [SDV.BC]Life Sciences [q-bio]/Cellular Biology, body regions, Health, Toxicology and Mutagenesis, Toxicology, Gene, TetR, chemistry.chemical_compound, chemistry, Sigma factor, Promoter, Operon, medicine.disease_cause, medicine, Regulator gene, Biology, Microbiology, lcsh:Medicine, lcsh:R, Article, Gene transcription, Tetanus toxin, Two-component system, POSITIVE REGULATOR, INORGANIC-PHOSPHATE, VIRULENCE, FACTOR SPO0A, NEUROTOXIN, CLOSTRIDIUM-BOTULINUM, GENOME SEQUENCE, PROTEIN GENES, CARBON-DIOXIDE, EXPRESSION

File Description: application/pdf

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::94c9add8fb7e6507c1f40d5a792d247f
https://hal-pasteur.archives-ouvertes.fr/pasteur-03229431

11

A comprehensive study of metabolite genetics reveals strong pleiotropy and heterogeneity across time and context

Authors: Noah Zaitlen, Päivi Pajukanta, Hanna Julienne, Apolline Gallois, Arthur Ko, Markku Laakso, Joel Mefford, Mika Ala-Korpela, Amaury Vaysse, Hugues Aschard

Contributors: Département de Biologie Computationnelle - Department of Computational Biology, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), University of California, Baker Heart and Diabetes Institute (AUSTRALIA), University of Oulu, University of Eastern Finland, University of Bristol [Bristol], Monash University [Melbourne], Department of Medicine, University of Kuopio, Harvard T.H. Chan School of Public Health, This study was funded by National Institutes of Health (NIH) grants R03DE025665, R21HG007687, HL-095056, HL-28481, and U01 DK105561., University of California (UC), Institut de Génétique et Développement de Rennes (IGDR), Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-IFR140-Centre National de la Recherche Scientifique (CNRS), Département de Biologie Computationnelle - Department Computational Biology

Source: Nature communications, vol 10, iss 1
Nature Communications
Nature Communications, Nature Publishing Group, 2019, 10 (1), pp.4788. ⟨10.1038/s41467-019-12703-7⟩
Nature Communications, 2019, 10 (1), pp.4788. ⟨10.1038/s41467-019-12703-7⟩
Nature Communications, Nature Publishing Group, 2019, 10 (1), ⟨10.1038/s41467-019-12703-7⟩
Nature Communications, Vol 10, Iss 1, Pp 1-13 (2019)
Gallois, A, Mefford, J, Ko, A, Vaysse, A, Julienne, H, Ala-Korpela, M, Laakso, M, Zaitlen, N, Pajukanta, P & Aschard, H 2019, ' A comprehensive study of metabolite genetics reveals strong pleiotropy and heterogeneity across time and context ', Nature Communications, vol. 10, 4788 . https://doi.org/10.1038/s41467-019-12703-7

Subject Terms: Humans, Fatty Acids, Lipoproteins, HDL, LDL, VLDL, Amino Acids, Magnetic Resonance Spectroscopy, Cohort Studies, Polymorphism, Single Nucleotide, Aged, Middle Aged, Male, IDL, Gene Regulatory Networks, Genome-Wide Association Study, Metabolome, Genetic Pleiotropy, Metabolic Syndrome, Human Genome, Genetics, Aetiology, 2.1 Biological and endogenous factors, MESH: Aged, MESH: Amino Acids, MESH: Cohort Studies, MESH: Fatty Acids, MESH: Gene Regulatory Networks, MESH: Genetic Pleiotropy, MESH: Genome-Wide Association Study, MESH: Humans, MESH: Lipoproteins, HDL, MESH: Lipoproteins, IDL, MESH: Lipoproteins, LDL, MESH: Lipoproteins, VLDL, MESH: Magnetic Resonance Spectroscopy, MESH: Male, MESH: Metabolic Syndrome, MESH: Metabolome, MESH: Middle Aged, MESH: Polymorphism, Single Nucleotide, [SDV.GEN]Life Sciences [q-bio]/Genetics, [STAT]Statistics [stat], [SDV.GEN.GH]Life Sciences [q-bio]/Genetics/Human genetics, [STAT.ME]Statistics [stat]/Methodology [stat.ME], [STAT.AP]Statistics [stat]/Applications [stat.AP], [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM], ComputingMilieux_MISCELLANEOUS, lcsh:Science, lcsh:Q, General Physics and Astronomy, General Biochemistry, Genetics and Molecular Biology, General Chemistry, Pleiotropy, Genome-wide association study, Metabolomics, Biology, Genetic association, Metabolite, chemistry.chemical_compound, chemistry, Computational biology, Context (language use), Multivariate statistics, Science, Article, Computational biology and bioinformatics, Genome-wide association studies, Cardiovascular genetics, cardiovascular genetics, computational biology and bioinformatics, genome-wide association studies, metabolomics

File Description: application/pdf

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d41bd8ebe465f823f78ad49095d4282c
https://escholarship.org/uc/item/08z8j5qs

12

Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks

Authors: J. Rodney Brister, Ho Bin Jang, Simon Roux, Dann Turner, Mart Krupovic, Benjamin Bolduc, Matthew B. Sullivan, Andrew M. Kropinski, Olivier Zablocki, Rob Lavigne, Jens H. Kuhn, Evelien M. Adriaenssens

Contributors: Ohio State University [Columbus] (OSU), Integrated Research Facility at Fort Detrick (IRF-Frederick), National Institute of Allergy and Infectious Diseases [Bethesda] (NIAID-NIH), National Institutes of Health [Bethesda] (NIH)-National Institutes of Health [Bethesda] (NIH), DOE Joint Genome Institute [Walnut Creek], U.S. Department of Energy [Washington] (DOE), Institute of Integrative Biology [Liverpool, UK], University of Liverpool, Quadram Institute, National Center for Biotechnology Information (NCBI), National Institutes of Health [Bethesda] (NIH), Ontario Veterinary College [Univ. Guelph, Canada], University of Guelph, Biologie Moléculaire du Gène chez les Extrêmophiles (BMGE), Institut Pasteur [Paris], Faculty of BioScience Engineering [KU Leuven, Belgium], Catholic University of Leuven - Katholieke Universiteit Leuven (KU Leuven), University of the West of England [Bristol] (UWE Bristol), High-performance computational support was provided as an award from the Ohio Supercomputer Center to M.B.S. Funding was provided in part by the Department of Energy’s Genome Sciences Program Soil Microbiome Scientific Focus Area award (no. SCW1632) to Lawrence Livermore National Laboratory, NSF Biological Oceanography awards (OCE no. 1536989 and OCE no. 1756314), and a Gordon and Betty Moore Foundation Investigator Award (no. 3790) to M.B.S. Funding was provided to J.R.B. by the Intramural Research Program of the National Institutes of Health (NIH) National Library of Medicine. The work conducted by the US Department of Energy Joint Genome Institute is supported by the Office of Science of the US Department of Energy under Contract DE-AC02-05CH11231 to S.R. This work was funded in part through Battelle Memorial Institute’s prime contract with the US National Institute of Allergy and Infectious Diseases (NIAID) under Contract no. HHSN272200700016I to J.H.K. The content of this publication does not necessarily reflect the views or policies of the US Department of Health and Human Services or of the institutions and companies affiliated with the authors., We thank L. Bollinger, G. Trubl and I. Tolstoy for their comments on improving the manuscript, as well as Z.-Q. You for helping push the network analytics., Biotechnology and Biological Sciences Research Council (BBSRC)

Source: Nature Biotechnology
Nature Biotechnology, Nature Publishing Group, 2019, 37 (6), pp.632-639. ⟨10.1038/s41587-019-0100-8⟩
Nature biotechnology, vol 37, iss 6
Bin Jang, Ho; Bolduc, Benjamin; Zablocki, Olivier; Kuhn, Jens H; Roux, Simon; Adriaenssens, Evelien M; et al.(2019). Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks.. Nature biotechnology, 37(6), 632-639. doi: 10.1038/s41587-019-0100-8. Lawrence Berkeley National Laboratory: Retrieved from: http://www.escholarship.org/uc/item/18v6h17b

Subject Terms: Classification and taxonomy, Computational biology and bioinformatics, Software, MESH: Bacteriophages/genetics, MESH: Classification, MESH: Gene Regulatory Networks/genetics, MESH: Genome, Viral/genetics, MESH: Metagenome/genetics, MESH: Metagenomics, MESH: Phylogeny, MESH: Prokaryotic Cells/virology, MESH: Viruses/classification, MESH: Viruses/genetics, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, Prokaryotic Cells, Viruses, Bacteriophages, Phylogeny, Genome, Viral, Classification, Gene Regulatory Networks, Metagenome, Metagenomics, MD Multidisciplinary, Biomedical Engineering, Molecular Medicine, Applied Microbiology and Biotechnology, Bioengineering, Biotechnology, Hierarchical clustering, Biology, RefSeq, Virus classification, Bacterial virus, Computational biology, Human virome, Taxonomy (biology), Science & Technology, Life Sciences & Biomedicine, Biotechnology & Applied Microbiology, ARCHAEAL VIRUSES, ICTV BACTERIAL, PHAGE, GENERATION, EVOLUTIONARY, POPULATIONS, ECOGENOMICS, UPDATE, TOOL

File Description: application/pdf; Print-Electronic

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f733a70bd65264fae04bbe1a424e9d43
https://hal-pasteur.archives-ouvertes.fr/pasteur-02557180

13

The pleiotropic Legionella transcription factor LvbR links the Lqs and c-di-GMP regulatory networks to control biofilm architecture and virulence

Authors: Hubert Hilbi, Tobias Sahr, Carmen Buchrieser, Laura Gomez-Valero, Ramon Hochstrasser, Aline Kessler, Sylvia Simon, Ursula Schell

Contributors: Institute of Medical Microbiology [Zurich], Universität Zürich [Zürich] = University of Zurich (UZH), Max Von Pettenkofer Institute (MVP), Ludwig-Maximilians-Universität München (LMU), Biologie des Bactéries intracellulaires - Biology of Intracellular Bacteria, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), The work in the group of H.H. was supported by the Swiss National Science Foundation (SNF, 31003A_153200, 31003A_175557) and a research grant from the University of Zürich awarded to R.H. The work in the group of C.B. was supported by the Institut Pasteur, the grant ANR‐10‐LABX‐62‐IBEID and the Fondation pour la Recherche Médicale (FRM)., ANR-10-LABX-0062,IBEID,Integrative Biology of Emerging Infectious Diseases(2010), University of Zurich, Hilbi, Hubert

Source: Environmental Microbiology
Environmental Microbiology, 2019, Special Issue on Pathogen and drug resistance ecology, 21 (3), pp.1035-1053. ⟨10.1111/1462-2920.14523⟩
Environmental Microbiology, Society for Applied Microbiology and Wiley-Blackwell, 2019, Special Issue on Pathogen and drug resistance ecology, 21 (3), pp.1035-1053. ⟨10.1111/1462-2920.14523⟩

Subject Terms: MESH: 4-Butyrolactone / analogs & derivatives, MESH: Bacterial Proteins / genetics, MESH: Bacterial Proteins / metabolism, MESH: Biofilms, MESH: Cyclic GMP / analogs & derivatives, MESH: Cyclic GMP / metabolism, MESH: Gene Expression Regulation, Bacterial, MESH: Gene Regulatory Networks, MESH: Legionella pneumophila / genetics, MESH: Legionella pneumophila / pathogenicity, MESH: Legionnaires' Disease / microbiology, MESH: Quorum Sensing, MESH: Transcription Factors / metabolism, MESH: Virulence, [SDE]Environmental Sciences, [SDV]Life Sciences [q-bio], [SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology, Ecology, Evolution, Behavior and Systematics, Microbiology, Biofilm, Legionella pneumophila, biology.organism_classification, biology, Natural competence, Virulence, Transcription factor, Genomic island, Quorum sensing, Diguanylate cyclase, biology.protein, 570 Life sciences, 610 Medicine & health, 10179 Institute of Medical Microbiology, 2404 Microbiology, 1105 Ecology, Evolution, Behavior and Systematics

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::60b3f81d592669d8a487826cb4f2fe86
https://hal-pasteur.archives-ouvertes.fr/pasteur-02871095

14

Optimal decoding of cellular identities in a genetic network

Authors: Eric Wieschaus, Thomas Gregor, Mariela D. Petkova, Gašper Tkačik, William Bialek

Contributors: Harvard University [Cambridge], Department of Physics, Princeton University (DPPU), Princeton University, Institute of Science and Technology [Austria] (IST Austria), Physique des fonctions biologiques / Physics of Biological Functions, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), This work was supported, in part, by U.S. NIH grants (P50GM071508, R01GM077599, and R01GM097275), U.S. NSF grants (PHY-1607612, CCF-0939370, Center for the Science of Information, PHY–1734030, Center for the Physics of Biological Function), an Austrian Science Fund grant (FWF P28844 to G.T.), and an Howard Hughes Medical Institute International Student Research Fellowship (to M.D.P.)., Institute of Science and Technology [Austria] - IST Austria (IST Austria)

Source: Cell
Cell, Elsevier, 2019, 176 (4), pp.844-855.e15. ⟨10.1016/j.cell.2019.01.007⟩

Subject Terms: Article, Drosophila, cell fate, cell specification, developmental precision, embryonic patterning, genetic networks, optimality, quantitative imaging, MESH: Animals, MESH: Body Patterning, MESH: Embryonic Development, MESH: GTPase-Activating Proteins, MESH: Gene Expression Regulation, Developmental, MESH: Gene Regulatory Networks, MESH: Models, Genetic, MESH: Transcription Factors, MESH: Cell Differentiation, MESH: Drosophila Proteins, MESH: Drosophila melanogaster, MESH: Embryo, Nonmammalian, [SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM], [PHYS.PHYS.PHYS-BIO-PH]Physics [physics]/Physics [physics]/Biological Physics [physics.bio-ph], [SDV.BDD]Life Sciences [q-bio]/Development Biology, fungi, General Biochemistry, Genetics and Molecular Biology, Algorithm, Free parameter, Biology, Expression (mathematics), Enhancer, Gap gene, Cell fate determination, Genetic network, Position (vector), Decoding methods

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::92b38600a2d62410a231ff4b4514f92c
https://europepmc.org/articles/PMC6526179/

15

The deployment of cell lineages that form the mammalian heart

Authors: Margaret Buckingham, Sigolène M. Meilhac

Contributors: Coordination des Cellules et Morphogenèse / Heart Morphogenesis (Imagine - Institut Pasteur U1163), Institut Pasteur [Paris]-Université Paris Descartes - Paris 5 (UPD5)-Institut National de la Santé et de la Recherche Médicale (INSERM), Département de Biologie du Développement et Cellules souches - Department of Developmental and Stem Cell Biology, Institut Pasteur [Paris], Work in the group of S.M.M. is supported by the Institut Imagine, the Institut Pasteur, INSERM and the Université Paris Descartes. M.E.B. acknowledges support from the Institut Pasteur and the Centre National de la Recherche Scientifique (CNRS, UMR 3738).

Source: Nature Reviews Cardiology
Nature Reviews Cardiology, 2018, 15 (11), pp.705-724. ⟨10.1038/s41569-018-0086-9⟩

Subject Terms: MESH: Animals, MESH: Cell Differentiation, MESH: Humans, MESH: Myocytes, Cardiac, MESH: Myocytes, Smooth Muscle, MESH: Organogenesis, MESH: Phenotype, MESH: Regeneration, MESH: Regenerative Medicine, MESH: Signal Transduction, MESH: Cell Lineage, MESH: Cell Proliferation, MESH: Endothelial Cells, MESH: Fetal Heart, MESH: Fibroblasts, MESH: Gene Expression Regulation, Developmental, MESH: Gene Regulatory Networks, MESH: Heart Defects, Congenital, [SDV.BDD.MOR]Life Sciences [q-bio]/Development Biology/Morphogenesis, Cardiology and Cardiovascular Medicine, Evolutionary biology, Cell type, Medicine, business.industry, business, Progenitor cell, Heart malformation, Cell fate determination, Lineage (genetic), Transcriptome, Regenerative medicine, Gene regulatory network

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5201a5bac3eef64fc0870d95afc2a71e
https://hal-pasteur.archives-ouvertes.fr/pasteur-03851104

16

A common molecular signature of patients with sickle cell disease revealed by microarray meta-analysis and a genome-wide association study

Authors: Cherif Ben Hamda, Liberata Mwita, Julie Makani, Alia Benkahla, Sumir Panji, Raphael Z. Sangeda, Siana Nkya, Ayton Meintjes, Lamia Guizani-Tabbane, Nicola Mulder, Kais Ghedira

Contributors: Faculté des Sciences de Bizerte [Université de Carthage], Université de Carthage - University of Carthage, Laboratoire de Bioinformatique, biomathématiques, biostatistiques (BIMS) (LR11IPT09), Institut Pasteur de Tunis, Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP)-Université de Tunis El Manar (UTM), Université de Tunis El Manar (UTM), Muhimbili University of Health and Allied Sciences, University of Cape Town, Laboratoire de Parasitologie Médicale, Biotechnologies et Biomolécules (LR11IPT06), Réseau International des Instituts Pasteur (RIIP)-Réseau International des Instituts Pasteur (RIIP), Research reported in this publication was supported by the National Institutes of Health Common Fund under grant number U41HG006941 (NM)., The authors would like to thank Pr. Faisal Fadlelmola and Dr. Amel Ghouila the chair and co-chair of the H3ABioNet Research and Tool Development Working Group for the follow up of the present project.

Source: PLoS ONE
PLoS ONE, Public Library of Science, 2018, 13 (7), pp.e0199461. ⟨10.1371/journal.pone.0199461⟩
PLoS ONE, Vol 13, Iss 7, p e0199461 (2018)

Subject Terms: MESH: Alleles, MESH: Anemia, Sickle Cell/genetics, MESH: Gene Regulatory Networks, MESH: Genome-Wide Association Study, MESH: Genotype, MESH: Humans, MESH: Polymorphism, Single Nucleotide, MESH: Transcriptome, MESH: Computational Biology/methods, MESH: Data Mining, MESH: Databases, Genetic, MESH: Gene Expression Profiling, MESH: Gene Ontology, [SDV]Life Sciences [q-bio], lcsh:Medicine, lcsh:R, lcsh:Science, lcsh:Q, Research Article, Research and Analysis Methods, Mathematical and Statistical Techniques, Statistical Methods, Meta-Analysis, Physical Sciences, Mathematics, Statistics (Mathematics), Biology and Life Sciences, Genetics, Gene Expression, Bioassays and Physiological Analysis, Microarrays, Computational Biology, Genome Analysis, Genome-Wide Association Studies, Genomics, Human Genetics, Gene Regulation, Biochemistry, Proteins, Post-Translational Modification, Heme, DNA-binding proteins, Transcription Factors, Regulatory Proteins, Anatomy, Body Fluids, Blood, Medicine and Health Sciences, Physiology, Multidisciplinary, Computational biology, Biology, Microarray, Regulation of gene expression, Candidate gene, Gene regulatory network, DNA microarray, Gene expression profiling, SNP, Genome-wide association study

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8f9c4bed394da9f0ff5a67ac94d7f98a
https://hal-riip.archives-ouvertes.fr/pasteur-02009067

17

Therapeutic Benefit and Gene Network Regulation by Combined Gene Transfer of Apelin, FGF2, and SERCA2a into Ischemic Heart

Authors: Barbara Garmy-Susini, Françoise Pujol, Jerome Roncalli, Oksana Kunduzova, Pierre Sicard, Xavier Chaufour, Bernard Masri, Philippe Valet, Angelo Parini, Fransky Hantelys, Florence Tatin, Anne-Catherine Prats, Benoit Lebas, Edith Renaud-Gabardos, Denis Calise

Contributors: Institut des Maladies Métaboliques et Cardiovasculaires (I2MC), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Institut National de la Santé et de la Recherche Médicale (INSERM), Centre Hospitalier Universitaire de Toulouse, ANEXPLO / CREFRE, Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-SANOFI Recherche-Institut National de la Santé et de la Recherche Médicale (INSERM)-Aventis, Laboratoire de Physiopathologie et de Pharmacologie Cardiovasculaire Expérimentale (LPPCE), Université de Bourgogne (UB), Institut de médecine moléculaire de Rangueil (I2MR), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-IFR150-Institut National de la Santé et de la Recherche Médicale (INSERM), Hormones, facteurs de croissance et physiopathologie vasculaire, IFR 31 Louis Bugnard (IFR 31), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-CHU Toulouse [Toulouse]-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-CHU Toulouse [Toulouse]-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM), Analytic and Computational Research, Inc. - Earth Sciences (ACRI-ST), Service de cardiologie [Toulouse], Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées- Institut Fédératif de Recherche Bio-médicale Institution (IFR150)-Institut National de la Santé et de la Recherche Médicale (INSERM), Institut National de la Santé et de la Recherche Médicale (INSERM), Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-CHU Toulouse [Toulouse]-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-CHU Toulouse [Toulouse]-Université Toulouse III - Paul Sabatier (UT3), Hôpital de Rangueil, CHU Toulouse [Toulouse]-CHU Toulouse [Toulouse]

Source: Molecular Therapy
Molecular Therapy, Nature Publishing Group, 2018, 26 (3), pp.902-916. ⟨10.1016/j.ymthe.2017.11.007⟩
Molecular Therapy, Cell Press, 2018, 26 (3), pp.902-916. ⟨10.1016/j.ymthe.2017.11.007⟩

Subject Terms: FGF2, IRES, SERCA2, angiogenesis, apelin, combined therapy, fibrosis, gene transfer, ischemic heart disease, lentivector, MESH: Animals, MESH: Apelin, MESH: Transcriptome, MESH: Transduction, Genetic, MESH: Cardiomegaly, MESH: Disease Models, Animal, MESH: Endothelial Cells, MESH: Fibroblast Growth Factor 2, MESH: Fibrosis, MESH: Gene Expression, MESH: Gene Order, MESH: Gene Regulatory Networks, MESH: Gene Transfer Techniques, MESH: Genetic Therapy, MESH: Genetic Vectors, MESH: Lentivirus, MESH: Mice, MESH: Myocardial Ischemia, MESH: Neovascularization, Pathologic, MESH: Sarcoplasmic Reticulum Calcium-Transporting ATPases, [SDV.BIO]Life Sciences [q-bio]/Biotechnology, [SDV.BBM]Life Sciences [q-bio]/Biochemistry, Molecular Biology, cardiovascular system, [SDV]Life Sciences [q-bio], [SDV.BBM.BM]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology, [SDV.BC]Life Sciences [q-bio]/Cellular Biology, ComputingMilieux_MISCELLANEOUS, Drug Discovery, Pharmacology, Genetics, Molecular Biology, Molecular Medicine, Immunology, Genetic enhancement, Angiogenesis, Bioinformatics, Context (language use), Apelin, Biology, Heart failure, medicine.disease, medicine, Cardioprotection, Myocardial infarction, Cardiac function curve, Original Article

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::eff05544b5df3c872bf90d9754a0bbb3
https://hal-univ-evry.archives-ouvertes.fr/hal-02177627

18

Bipartite Network Analysis of the Archaeal Virosphere: Evolutionary Connections between Viruses and Capsidless Mobile Elements

Authors: Jaime Iranzo, David Prangishvili, Mart Krupovic, Eugene V. Koonin

Contributors: National Center for Biotechnology Information (NCBI), Biologie Moléculaire du Gène chez les Extrêmophiles (BMGE), Institut Pasteur [Paris], National Center for Biotechnology Information ( NCBI ), Biologie Moléculaire du Gène chez les Extrêmophiles ( BMGE )

Source: Journal of Virology
Journal of Virology, American Society for Microbiology, 2016, 90 (24), pp.11043-11055. ⟨10.1128/JVI.01622-16⟩
Journal of Virology, American Society for Microbiology, 2016, 90 (24), pp.11043-11055. 〈10.1128/JVI.01622-16〉

Subject Terms: Genetic Diversity and Evolution, viruses, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, MESH : Archaea, MESH : Archaeal Viruses, MESH : Genome, Viral, MESH : Phylogeny, MESH : Plasmids, MESH : Virion, MESH : Bacteria, MESH : Bacteriophages, MESH : Biological Evolution, MESH : Computational Biology, MESH : DNA Transposable Elements, MESH : Gene Regulatory Networks, [ SDV ] Life Sciences [q-bio], [ SDV.MP.VIR ] Life Sciences [q-bio]/Microbiology and Parasitology/Virology, Virology, Insect Science, Immunology, Microbiology, Archaeal Viruses, Phylogenetic tree, Bacterial virus, Caudovirales, biology.organism_classification, biology, Human virome, Turriviridae, royalty.royal_line, royalty, Genetics, Evolutionary biology, Genome, Phylogenetics

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e5c3a91231c2e78a13a2011b0c8078eb
https://europepmc.org/articles/PMC5126363/

19

Identification of Links Between Cellular Pathways by Genetic Interaction Mapping (GIM)

Authors: Christophe Malabat, Cosmin Saveanu

Contributors: Génétique des Interactions macromoléculaires, Centre National de la Recherche Scientifique (CNRS)-Institut Pasteur [Paris], Frederic Devaux, ANR-08-JCJC-0019,GENO-GIM,Obtention d'une carte d'interactions génétiques à l'échelle génomique chez la levure(2008), Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS)

Source: Methods in Molecular Biology (1064-3745)
Frederic Devaux. Methods in Molecular Biology (1064-3745), 1361, Humana Press, pp.325-43, 2016, Yeast Functional Genomics: Methods and Protocols, 978-1-4939-3078-4. ⟨10.1007/978-1-4939-3079-1_18⟩
Methods in Molecular Biology ISBN: 9781493930784

Subject Terms: Growth rate, Barcode microarray, Data analysis, Gene deletion, Genetic screen, MESH: Chromosome Mapping, MESH: DNA Barcoding, Taxonomic, MESH: Epistasis, Genetic, MESH: Gene Regulatory Networks, MESH: Oligonucleotide Array Sequence Analysis, MESH: Protein Interaction Mapping, MESH: Saccharomyces cerevisiae, MESH: Sequence Deletion, MESH: Signal Transduction, [SDV.BBM.BC]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Biochemistry [q-bio.BM], [SDV.BBM.BM]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Molecular biology, [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN], Allele, Gene regulatory network, DNA microarray, Locus (genetics), Epistasis, Biology, Barcode, law.invention, law, Genetics, Mutant

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::157098e544642ed47ec883689e5cd087
https://hal-pasteur.archives-ouvertes.fr/pasteur-01427613

20

Contact genomics: scaffolding and phasing (meta)genomes using chromosome 3D physical signatures

Authors: Jean-François Flot, Hervé Marie-Nelly, Romain Koszul

Contributors: Dept of Genetics, Evolution and Environment [London] (UCL-GEE), University College of London [London] (UCL), Régulation spatiale des Génomes - Spatial Regulation of Genomes, Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), This research was supported by funding to R.K. from the European Research Council under the 7th Framework Program (FP7/2007-2013)/ERC grant agreement 260822. J.F.F. is supported by the European Research Council (ERC-2012-AdG 322790)., European Project: 260822,EC:FP7:ERC,ERC-2010-StG_20091118,DICIG(2011), European Project: 322790,EC:FP7:ERC,ERC-2012-ADG_20120314,XENOTURBELLA(2013)

Source: FEBS Letters
FEBS Letters, Wiley, 2015, 589 (20 PartA), pp.2966-74. ⟨10.1016/j.febslet.2015.04.034⟩
FEBS letters, 589 (20PartA

Subject Terms: Hi-C, Genome assembly, Haplotype phasing, 3C, Contact genomics, Metagenomics, Scaffolding, MESH: Animals, MESH: Chromosomes/physiology, MESH: Sequence Analysis, DNA, MESH: Chromosomes/ultrastructure, MESH: Cluster Analysis, MESH: Epistasis, Genetic, MESH: Gene Regulatory Networks, MESH: Genomics, MESH: Haplotypes, MESH: Humans, MESH: Metagenome, [SDV.GEN]Life Sciences [q-bio]/Genetics, Cell Biology, Genetics, Molecular Biology, Biochemistry, Structural Biology, Biophysics, Computational biology, Hybrid genome assembly, Genomics, Base pair, Comparative genomics, DNA sequencing, Genome, Biology, Sequence assembly, Evolution des espèces, Biologie moléculaire, Océanographie biologique, Systématique des espèces [zoologie], Génétique, cytogénétique

File Description: 1 full-text file(s): application/pdf

Access URL: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::942264b66fe809b7835c06181b57a43f
https://hal-pasteur.archives-ouvertes.fr/pasteur-01419996

Refine Results