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Tytuł :
An iteration model for identifying essential proteins by combining comprehensive PPI network with biological information.
Autorzy :
Li S; College of Computer Engineering and Applied Mathematics, Changsha University, Changsha, 410022, China.; Hunan Province Key Laboratory of Industrial Internet Technology and Security, Changsha University, Changsha, 410022, China.
Zhang Z; College of Electronic Information and Electrical Engineering, Changsha University, Changsha, 410022, China.
Li X; College of Computer Engineering and Applied Mathematics, Changsha University, Changsha, 410022, China.; Hunan Province Key Laboratory of Industrial Internet Technology and Security, Changsha University, Changsha, 410022, China.
Tan Y; College of Computer Engineering and Applied Mathematics, Changsha University, Changsha, 410022, China. .; Hunan Province Key Laboratory of Industrial Internet Technology and Security, Changsha University, Changsha, 410022, China. .
Wang L; College of Computer Engineering and Applied Mathematics, Changsha University, Changsha, 410022, China.; Hunan Province Key Laboratory of Industrial Internet Technology and Security, Changsha University, Changsha, 410022, China.
Chen Z; College of Computer Engineering and Applied Mathematics, Changsha University, Changsha, 410022, China. .; Hunan Province Key Laboratory of Industrial Internet Technology and Security, Changsha University, Changsha, 410022, China. .
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Źródło :
BMC bioinformatics [BMC Bioinformatics] 2021 Sep 08; Vol. 22 (1), pp. 430. Date of Electronic Publication: 2021 Sep 08.
Typ publikacji :
Journal Article
MeSH Terms :
Computational Biology*
Protein Interaction Maps*
Algorithms ; Protein Interaction Mapping ; Proteins/genetics ; Proteins/metabolism ; Saccharomyces cerevisiae/genetics ; Saccharomyces cerevisiae/metabolism
Czasopismo naukowe
Tytuł :
Mechnetor: a web server for exploring protein mechanism and the functional context of genetic variants.
Autorzy :
González-Sánchez JC; BioQuant, Heidelberg University, Heidelberg 69120, Germany.; Biochemistry Center (BZH), Heidelberg University, Heidelberg 69120, Germany.
Ibrahim MFR; BioQuant, Heidelberg University, Heidelberg 69120, Germany.; Biochemistry Center (BZH), Heidelberg University, Heidelberg 69120, Germany.
Leist IC; BioQuant, Heidelberg University, Heidelberg 69120, Germany.; Biochemistry Center (BZH), Heidelberg University, Heidelberg 69120, Germany.
Weise KR; BioQuant, Heidelberg University, Heidelberg 69120, Germany.; Biochemistry Center (BZH), Heidelberg University, Heidelberg 69120, Germany.
Russell RB; BioQuant, Heidelberg University, Heidelberg 69120, Germany.; Biochemistry Center (BZH), Heidelberg University, Heidelberg 69120, Germany.
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Źródło :
Nucleic acids research [Nucleic Acids Res] 2021 Jul 02; Vol. 49 (W1), pp. W366-W374.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Genetic Variation*
Protein Interaction Mapping*
Software*
Animals ; Genetic Diseases, Inborn/genetics ; Humans ; Internet ; Mice ; Neoplasms/genetics ; Protein Interaction Domains and Motifs ; Protein Processing, Post-Translational ; Proteins/genetics
Czasopismo naukowe
Tytuł :
A novel essential protein identification method based on PPI networks and gene expression data.
Autorzy :
Zhong J; School of Information Science and Engineering, Hunan Normal University, Changsha, 410081, China.; Hunan Provincial Key Lab on Bioinformatics, School of Computer Science and Engineering, Hunan Provincial Key Laboratory of Intelligent Computing and Language Information Processing, Changsha, 410083, China.
Tang C; School of Information Science and Engineering, Hunan Normal University, Changsha, 410081, China.
Peng W; College of Information Engineering and Automation, Kunming University of Science and Technology, Kunming, 650500, Yunnan, China.
Xie M; School of Information Science and Engineering, Hunan Normal University, Changsha, 410081, China.
Sun Y; School of Information Science and Engineering, Hunan Normal University, Changsha, 410081, China.
Tang Q; College of Engineering and Design, Hunan Normal University, Changsha, 410081, China.
Xiao Q; School of Information Science and Engineering, Hunan Normal University, Changsha, 410081, China. .
Yang J; School of Information Science and Engineering, Hunan Normal University, Changsha, 410081, China. .
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Źródło :
BMC bioinformatics [BMC Bioinformatics] 2021 May 13; Vol. 22 (1), pp. 248. Date of Electronic Publication: 2021 May 13.
Typ publikacji :
Journal Article
MeSH Terms :
Protein Interaction Maps*
Saccharomyces cerevisiae Proteins*/metabolism
Algorithms ; Computational Biology ; Protein Interaction Mapping ; ROC Curve ; Transcriptome
Czasopismo naukowe
Tytuł :
Compartmentalization-aided interaction screening reveals extensive high-order complexes within the SARS-CoV-2 proteome.
Autorzy :
Xu W; Beijing Advanced Innovation Center for Structural Biology & Frontier Research Center for Biological Structure, Beijing, China; Tsinghua-Peking Center for Life Sciences, Beijing, China; School of Life Sciences, Tsinghua University, Beijing, China.
Pei G; Beijing Advanced Innovation Center for Structural Biology & Frontier Research Center for Biological Structure, Beijing, China; Tsinghua-Peking Center for Life Sciences, Beijing, China; School of Life Sciences, Tsinghua University, Beijing, China.
Liu H; School of Life Sciences, Tsinghua University, Beijing, China.
Ju X; Beijing Advanced Innovation Center for Structural Biology & Frontier Research Center for Biological Structure, Beijing, China; School of Medicine, Tsinghua University, Beijing, China.
Wang J; Beijing Advanced Innovation Center for Structural Biology & Frontier Research Center for Biological Structure, Beijing, China; Tsinghua-Peking Center for Life Sciences, Beijing, China; School of Life Sciences, Tsinghua University, Beijing, China.
Ding Q; Beijing Advanced Innovation Center for Structural Biology & Frontier Research Center for Biological Structure, Beijing, China; School of Medicine, Tsinghua University, Beijing, China.
Li P; Beijing Advanced Innovation Center for Structural Biology & Frontier Research Center for Biological Structure, Beijing, China; Tsinghua-Peking Center for Life Sciences, Beijing, China; School of Life Sciences, Tsinghua University, Beijing, China. Electronic address: .
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Źródło :
Cell reports [Cell Rep] 2021 Aug 03; Vol. 36 (5), pp. 109482. Date of Electronic Publication: 2021 Jul 17.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Proteome*
COVID-19/*virology
Protein Interaction Mapping/*methods
SARS-CoV-2/*pathogenicity
Viral Nonstructural Proteins/*physiology
Animals ; Caco-2 Cells ; Cell Compartmentation ; Cell Line ; Chlorocebus aethiops ; HEK293 Cells ; Humans ; Protein Interaction Maps ; Vero Cells ; Virus Replication
Czasopismo naukowe
Tytuł :
Human Histone Interaction Networks: An Old Concept, New Trends.
Autorzy :
Peng Y; National Center for Biotechnology Information, National Institutes of Health, Bethesda, MD 20894, USA.
Markov Y; National Center for Biotechnology Information, National Institutes of Health, Bethesda, MD 20894, USA; Computational Biology and Bioinformatics, Combined Program in the Biological and Biomedical Sciences, Yale University, New Haven, CT 06520, USA.
Goncearenco A; National Center for Biotechnology Information, National Institutes of Health, Bethesda, MD 20894, USA; VantAI, New York, NY 10003, USA.
Landsman D; National Center for Biotechnology Information, National Institutes of Health, Bethesda, MD 20894, USA. Electronic address: .
Panchenko AR; Department of Pathology and Molecular Medicine, School of Medicine, Queen's University, ON K7L 3N6, Canada. Electronic address: .
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Źródło :
Journal of molecular biology [J Mol Biol] 2021 Mar 19; Vol. 433 (6), pp. 166684. Date of Electronic Publication: 2020 Oct 22.
Typ publikacji :
Journal Article; Research Support, N.I.H., Intramural; Research Support, Non-U.S. Gov't
MeSH Terms :
Protein Interaction Maps*
Chromosomal Proteins, Non-Histone/*chemistry
DNA/*chemistry
Histones/*chemistry
Nucleosomes/*ultrastructure
Binding Sites ; Chromosomal Proteins, Non-Histone/genetics ; Chromosomal Proteins, Non-Histone/metabolism ; DNA/genetics ; DNA/metabolism ; Databases, Protein ; Histones/genetics ; Histones/metabolism ; Humans ; Internet ; Nucleic Acid Conformation ; Nucleosomes/chemistry ; Nucleosomes/metabolism ; Protein Binding ; Protein Conformation, alpha-Helical ; Protein Conformation, beta-Strand ; Protein Interaction Domains and Motifs ; Software
Czasopismo naukowe
Tytuł :
Protein-Protein Interaction Prediction Based on Spectral Radius and General Regression Neural Network.
Autorzy :
Xu H; School of Mathematics and Statistics, Shandong University, Weihai 264209, China.
Xu D; School of Mathematics and Statistics, Shandong University, Weihai 264209, China.
Zhang N; School of Mathematics and Statistics, Shandong University, Weihai 264209, China.
Zhang Y; School of Mathematics and Statistics, Shandong University, Weihai 264209, China.
Gao R; School of Control Science and Engineering, Shandong University, Jinan 250061, China.
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Źródło :
Journal of proteome research [J Proteome Res] 2021 Mar 05; Vol. 20 (3), pp. 1657-1665. Date of Electronic Publication: 2021 Feb 08.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Helicobacter pylori*/genetics
Protein Interaction Mapping*
Algorithms ; Computational Biology ; Humans ; Neural Networks, Computer ; Protein Interaction Maps ; Radius
Czasopismo naukowe
Tytuł :
Constitutive G protein coupling profiles of understudied orphan GPCRs.
Autorzy :
Lu S; Department of Pharmacology and Toxicology, Medical College of Georgia, Augusta University, Augusta, Georgia, United States of America.
Jang W; Department of Pharmacology and Toxicology, Medical College of Georgia, Augusta University, Augusta, Georgia, United States of America.
Inoue A; Graduate School of Pharmaceutical Sciences, Tohoku University, Sendai, Japan.
Lambert NA; Department of Pharmacology and Toxicology, Medical College of Georgia, Augusta University, Augusta, Georgia, United States of America.
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Źródło :
PloS one [PLoS One] 2021 Apr 22; Vol. 16 (4), pp. e0247743. Date of Electronic Publication: 2021 Apr 22 (Print Publication: 2021).
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
MeSH Terms :
Protein Interaction Maps*
Receptors, G-Protein-Coupled/*metabolism
Arrestin/metabolism ; GTP-Binding Proteins/metabolism ; HEK293 Cells ; Humans ; Luminescent Measurements ; Protein Interaction Mapping
Czasopismo naukowe
Tytuł :
Protein context shapes the specificity of SH3 domain-mediated interactions in vivo.
Autorzy :
Dionne U; Centre de Recherche du Centre Hospitalier Universitaire (CHU) de Québec-Université Laval, Québec, QC, Canada.; Centre de Recherche sur le Cancer de l'Université Laval, Québec, QC, Canada.; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada.; Centre de Recherche en Données Massives de l'Université Laval, Université Laval, Québec, QC, Canada.; Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, QC, Canada.
Bourgault É; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada.; Centre de Recherche en Données Massives de l'Université Laval, Université Laval, Québec, QC, Canada.; Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, QC, Canada.; Département de Biochimie, de Microbiologie et de Bio-Informatique, Université Laval, Québec, QC, Canada.
Dubé AK; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada.; Centre de Recherche en Données Massives de l'Université Laval, Université Laval, Québec, QC, Canada.; Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, QC, Canada.; Département de Biochimie, de Microbiologie et de Bio-Informatique, Université Laval, Québec, QC, Canada.; Département de Biologie, Université Laval, Québec, QC, Canada.
Bradley D; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada.; Centre de Recherche en Données Massives de l'Université Laval, Université Laval, Québec, QC, Canada.; Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, QC, Canada.; Département de Biochimie, de Microbiologie et de Bio-Informatique, Université Laval, Québec, QC, Canada.; Département de Biologie, Université Laval, Québec, QC, Canada.
Chartier FJM; Centre de Recherche du Centre Hospitalier Universitaire (CHU) de Québec-Université Laval, Québec, QC, Canada.; Centre de Recherche sur le Cancer de l'Université Laval, Québec, QC, Canada.; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada.
Dandage R; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada.; Centre de Recherche en Données Massives de l'Université Laval, Université Laval, Québec, QC, Canada.; Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, QC, Canada.; Département de Biochimie, de Microbiologie et de Bio-Informatique, Université Laval, Québec, QC, Canada.; Département de Biologie, Université Laval, Québec, QC, Canada.
Dibyachintan S; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada.; Centre de Recherche en Données Massives de l'Université Laval, Université Laval, Québec, QC, Canada.; Département de Biochimie, de Microbiologie et de Bio-Informatique, Université Laval, Québec, QC, Canada.; Département de Biologie, Université Laval, Québec, QC, Canada.; Department of Chemical Engineering, Indian Institute of Technology Bombay (IIT), Powai, Mumbai, Maharashtra, India.
Després PC; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada.; Centre de Recherche en Données Massives de l'Université Laval, Université Laval, Québec, QC, Canada.; Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, QC, Canada.; Département de Biochimie, de Microbiologie et de Bio-Informatique, Université Laval, Québec, QC, Canada.
Gish GD; Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Joseph and Wolf Lebovic Health Complex, Toronto, ON, Canada.
Pham NTH; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada.; Centre Armand-Frappier Santé Biotechnologie, Institut national de la recherche scientifique (INRS), Université du Québec, Laval, QC, Canada.
Létourneau M; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada.; Centre Armand-Frappier Santé Biotechnologie, Institut national de la recherche scientifique (INRS), Université du Québec, Laval, QC, Canada.
Lambert JP; Centre de Recherche du Centre Hospitalier Universitaire (CHU) de Québec-Université Laval, Québec, QC, Canada.; Centre de Recherche sur le Cancer de l'Université Laval, Québec, QC, Canada.; Département de Médecine Moléculaire, Université Laval, Québec, QC, Canada.
Doucet N; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada.; Centre Armand-Frappier Santé Biotechnologie, Institut national de la recherche scientifique (INRS), Université du Québec, Laval, QC, Canada.
Bisson N; Centre de Recherche du Centre Hospitalier Universitaire (CHU) de Québec-Université Laval, Québec, QC, Canada. .; Centre de Recherche sur le Cancer de l'Université Laval, Québec, QC, Canada. .; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada. .; Département de Biologie Moléculaire, Biochimie Médicale et Pathologie, Université Laval, Québec, QC, Canada. .
Landry CR; PROTEO-Regroupement Québécois de Recherche sur la Fonction, l'Ingénierie et les Applications des Protéines, Québec, QC, Canada. .; Centre de Recherche en Données Massives de l'Université Laval, Université Laval, Québec, QC, Canada. .; Institut de Biologie Intégrative et des Systèmes (IBIS), Université Laval, Québec, QC, Canada. .; Département de Biochimie, de Microbiologie et de Bio-Informatique, Université Laval, Québec, QC, Canada. .; Département de Biologie, Université Laval, Québec, QC, Canada. .
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Źródło :
Nature communications [Nat Commun] 2021 Mar 12; Vol. 12 (1), pp. 1597. Date of Electronic Publication: 2021 Mar 12.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't
MeSH Terms :
Protein Interaction Maps*
src Homology Domains*/genetics
Proteins/*chemistry
HEK293 Cells ; Humans ; Protein Interaction Domains and Motifs ; Proteins/metabolism ; Saccharomyces cerevisiae/metabolism
Czasopismo naukowe
Tytuł :
J-domain proteins interaction with neurodegenerative disease-related proteins.
Autorzy :
Ayala Mariscal SM; Leibniz Research Institute for Molecular Pharmacology Im Forschungsverbund Berlin e.V., R.-Roessle-Strasse 10, 13125, Berlin, Germany.
Kirstein J; Leibniz Research Institute for Molecular Pharmacology Im Forschungsverbund Berlin e.V., R.-Roessle-Strasse 10, 13125, Berlin, Germany; University of Bremen, Faculty 2, Cell Biology, Leobener Strasse, 28359, Bremen, Germany. Electronic address: .
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Źródło :
Experimental cell research [Exp Cell Res] 2021 Feb 15; Vol. 399 (2), pp. 112491. Date of Electronic Publication: 2021 Jan 16.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't; Review
MeSH Terms :
Protein Interaction Domains and Motifs*/physiology
Carrier Proteins/*metabolism
Neurodegenerative Diseases/*metabolism
Animals ; Carrier Proteins/chemistry ; HSP70 Heat-Shock Proteins/metabolism ; Humans ; Molecular Chaperones/chemistry ; Molecular Chaperones/metabolism ; Neurodegenerative Diseases/pathology ; Protein Binding ; Protein Folding ; Protein Interaction Maps/physiology
Czasopismo naukowe
Tytuł :
Hub Genes and Key Pathways of Intervertebral Disc Degeneration: Bioinformatics Analysis and Validation.
Autorzy :
Zhang Z; College of Acupuncture and Orthopedics, Hubei University of Chinese Medicine, Wuhan 430061, China.
Wang Q; Hubei Provincial Hospital of Traditional Chinese Medicine, No. 4, Garden Hill, Wuchang, Wuhan, Hubei 430061, China.
Li Y; College of Acupuncture and Orthopedics, Hubei University of Chinese Medicine, Wuhan 430061, China.
Li B; College of Acupuncture and Orthopedics, Hubei University of Chinese Medicine, Wuhan 430061, China.
Zheng L; College of Acupuncture and Orthopedics, Hubei University of Chinese Medicine, Wuhan 430061, China.
He C; College of Acupuncture and Orthopedics, Hubei University of Chinese Medicine, Wuhan 430061, China.
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Źródło :
BioMed research international [Biomed Res Int] 2021 Sep 10; Vol. 2021, pp. 5340449. Date of Electronic Publication: 2021 Sep 10 (Print Publication: 2021).
Typ publikacji :
Journal Article
MeSH Terms :
Gene Regulatory Networks/*genetics
Intervertebral Disc Degeneration/*genetics
Protein Interaction Maps/*genetics
Biomarkers/metabolism ; Carrier Proteins/genetics ; Cell Cycle ; Cell Cycle Proteins/genetics ; Checkpoint Kinase 1/genetics ; China ; Chromosomal Proteins, Non-Histone/genetics ; Computational Biology/methods ; Databases, Genetic ; Gene Expression/genetics ; Gene Expression Profiling/methods ; Gene Ontology ; Humans ; Intervertebral Disc Degeneration/metabolism ; Kinesin/genetics ; Microtubule-Associated Proteins/genetics ; Microtubule-Associated Proteins/metabolism ; Nuclear Proteins/genetics ; Protein Interaction Mapping/methods ; Protein-Serine-Threonine Kinases/genetics ; Signal Transduction/genetics ; Transcriptome/genetics
Czasopismo naukowe
Tytuł :
Interaction interface in the C-terminal parts of centriole proteins Sas6 and Ana2.
Autorzy :
Fatalska A; Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK.; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA.; Institute of Biochemistry and Biophysics, Polish Academy of Sciences, 02-106 Warsaw, Poland.
Dzhindzhev NS; Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK.
Dadlez M; Institute of Biochemistry and Biophysics, Polish Academy of Sciences, 02-106 Warsaw, Poland.
Glover DM; Department of Genetics, University of Cambridge, Cambridge CB2 3EH, UK.; Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA 91125, USA.
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Źródło :
Open biology [Open Biol] 2020 Nov; Vol. 10 (11), pp. 200221. Date of Electronic Publication: 2020 Nov 11.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Protein Interaction Domains and Motifs*
Cell Cycle Proteins/*chemistry
Cell Cycle Proteins/*metabolism
Drosophila Proteins/*chemistry
Drosophila Proteins/*metabolism
Amino Acid Sequence ; Mass Spectrometry ; Protein Binding ; Protein Interaction Mapping ; Protein Interaction Maps
Czasopismo naukowe
Tytuł :
Signalling through cerebral cavernous malformation protein networks.
Autorzy :
Su VL; Department of Pharmacology, Yale University School of Medicine, PO Box 208066, 333 Cedar Street, New Haven, CT 06520, USA.
Calderwood DA; Department of Pharmacology, Yale University School of Medicine, PO Box 208066, 333 Cedar Street, New Haven, CT 06520, USA.; Department of Cell Biology, Yale University School of Medicine, PO Box 208066, 333 Cedar Street, New Haven, CT 06520, USA.
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Źródło :
Open biology [Open Biol] 2020 Nov; Vol. 10 (11), pp. 200263. Date of Electronic Publication: 2020 Nov 25.
Typ publikacji :
Journal Article; Research Support, N.I.H., Extramural; Review
MeSH Terms :
Protein Interaction Maps*
Signal Transduction*
Carrier Proteins/*metabolism
Hemangioma, Cavernous, Central Nervous System/*metabolism
Animals ; Biomarkers ; Carrier Proteins/genetics ; Disease Management ; Disease Susceptibility ; Genetic Predisposition to Disease ; Hemangioma, Cavernous, Central Nervous System/diagnosis ; Hemangioma, Cavernous, Central Nervous System/etiology ; Hemangioma, Cavernous, Central Nervous System/therapy ; Humans ; Intracellular Space ; Mutation ; Protein Binding ; Protein Interaction Domains and Motifs ; Protein Interaction Mapping ; Protein Transport
Czasopismo naukowe
Tytuł :
Proteo3Dnet: a web server for the integration of structural information with interactomics data.
Autorzy :
Postic G; Université de Paris, CNRS UMR 8251, INSERM U1133, RPBS, Paris 75205, France.; Institut Français de Bioinformatique (IFB), UMS 3601-CNRS, Université Paris-Saclay, Orsay, France.
Andreani J; Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France.
Marcoux J; Institut de Pharmacologie et de Biologie Structurale (IPBS), Université de Toulouse, CNRS, UPS, Toulouse, France.
Reys V; Centre de Biochimie Structurale (CBS), CNRS, INSERM, Univ Montpellier, Montpellier, France.
Guerois R; Université Paris-Saclay, CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), 91198 Gif-sur-Yvette, France.
Rey J; Université de Paris, CNRS UMR 8251, INSERM U1133, RPBS, Paris 75205, France.
Mouton-Barbosa E; Institut de Pharmacologie et de Biologie Structurale (IPBS), Université de Toulouse, CNRS, UPS, Toulouse, France.
Vandenbrouck Y; Univ. Grenoble Alpes, INSERM, CEA, UMR BioSanté U1292, CNRS, CEA, FR2048, 38000 Grenoble, France.
Cianferani S; Laboratoire de Spectrométrie de Masse BioOrganique, Université de Strasbourg, CNRS, IPHC UMR 7178, 67000 Strasbourg, France.
Burlet-Schiltz O; Institut de Pharmacologie et de Biologie Structurale (IPBS), Université de Toulouse, CNRS, UPS, Toulouse, France.
Labesse G; Centre de Biochimie Structurale (CBS), CNRS, INSERM, Univ Montpellier, Montpellier, France.
Tufféry P; Université de Paris, CNRS UMR 8251, INSERM U1133, RPBS, Paris 75205, France.
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Źródło :
Nucleic acids research [Nucleic Acids Res] 2021 Jul 02; Vol. 49 (W1), pp. W567-W572.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Protein Conformation*
Software*
Protein Interaction Mapping/*methods
14-3-3 Proteins/metabolism ; Internet ; Mass Spectrometry ; Protein Interaction Domains and Motifs ; Protein Interaction Maps ; Proteomics ; Ribosome Subunits, Small, Eukaryotic/metabolism
Czasopismo naukowe
Tytuł :
Assessment of protein-protein interfaces in cryo-EM derived assemblies.
Autorzy :
Malhotra S; Institute of Structural and Molecular Biology, Department of Biological Sciences, Birkbeck College, University of London, London, UK. .; Scientific Computing Department, Science and Technology Facilities Council, Didcot, UK. .
Joseph AP; Scientific Computing Department, Science and Technology Facilities Council, Didcot, UK.
Thiyagalingam J; Scientific Computing Department, Science and Technology Facilities Council, Didcot, UK.
Topf M; Institute of Structural and Molecular Biology, Department of Biological Sciences, Birkbeck College, University of London, London, UK. .; Centre for Structural Systems Biology, Leibniz-Institut für Experimentelle Virologie and Universitätsklinikum Hamburg-Eppendorf (UKE), Hamburg, Germany. .
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Źródło :
Nature communications [Nat Commun] 2021 Jun 07; Vol. 12 (1), pp. 3399. Date of Electronic Publication: 2021 Jun 07.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Protein Interaction Domains and Motifs*
Protein Interaction Maps*
Cryoelectron Microscopy/*methods
Macromolecular Substances/*chemistry
Protein Interaction Mapping/*methods
Proteins/*chemistry
Humans ; Machine Learning ; Macromolecular Substances/metabolism ; Macromolecular Substances/ultrastructure ; Models, Molecular ; Neural Networks, Computer ; Protein Conformation ; Protein Multimerization ; Proteins/metabolism ; Proteins/ultrastructure ; Support Vector Machine ; Viral Nonstructural Proteins/chemistry ; Viral Nonstructural Proteins/metabolism ; Viral Nonstructural Proteins/ultrastructure
Czasopismo naukowe
Tytuł :
Mapping the SARS-CoV-2-Host Protein-Protein Interactome by Affinity Purification Mass Spectrometry and Proximity-Dependent Biotin Labeling: A Rational and Straightforward Route to Discover Host-Directed Anti-SARS-CoV-2 Therapeutics.
Autorzy :
Terracciano R; Department of Experimental and Clinical Medicine, University 'Magna Græcia', 88100 Catanzaro, Italy.
Preianò M; Department of Health Sciences, University 'Magna Græcia', 88100 Catanzaro, Italy.
Fregola A; Department of Health Sciences, University 'Magna Græcia', 88100 Catanzaro, Italy.
Pelaia C; Respiratory Medicine Unit, University 'Magna Græcia', 88100 Catanzaro, Italy.
Montalcini T; Department of Experimental and Clinical Medicine, University 'Magna Græcia', 88100 Catanzaro, Italy.
Savino R; Department of Medical and Surgical Sciences, University 'Magna Græcia', 88100 Catanzaro, Italy.
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Źródło :
International journal of molecular sciences [Int J Mol Sci] 2021 Jan 07; Vol. 22 (2). Date of Electronic Publication: 2021 Jan 07.
Typ publikacji :
Journal Article; Review
MeSH Terms :
Protein Interaction Maps*
Antiviral Agents/*therapeutic use
COVID-19/*drug therapy
SARS-CoV-2/*metabolism
Virus Internalization/*drug effects
A549 Cells ; Angiotensin-Converting Enzyme 2/metabolism ; COVID-19/pathology ; Cell Line ; Drug Repositioning ; HEK293 Cells ; Humans ; Mass Spectrometry ; Protein Interaction Mapping ; SARS-CoV-2/drug effects ; Serine Endopeptidases/metabolism ; Spike Glycoprotein, Coronavirus/metabolism ; Virus Replication/drug effects
Czasopismo naukowe
Tytuł :
An Integrative Computational Approach for the Prediction of Human- Plasmodium Protein-Protein Interactions.
Autorzy :
Ghedira K; Laboratory of Bioinformatics, Biomathematics and Biostatistics (LR16IPT09), Pasteur Institute of Tunisia, 1002, University of Tunis El Manar, Tunis, Tunisia.
Hamdi Y; Laboratory of Biomedical Genomics and Oncogenetics, LR16IPT05, Pasteur Institute of Tunis, University of Tunis El Manar, Tunis, Tunisia.
El Béji A; Laboratory of Bioinformatics, Biomathematics and Biostatistics (LR16IPT09), Pasteur Institute of Tunisia, 1002, University of Tunis El Manar, Tunis, Tunisia.; Institut National des Sciences Appliquees et de Technologie, Université Carthage, Tunis, Tunisia.
Othman H; Sydney Brenner Institute for Molecular Bioscience, Faculty of Health Sciences, University of the Witwatersrand, Johannesburg, South Africa.
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Źródło :
BioMed research international [Biomed Res Int] 2020 Dec 19; Vol. 2020, pp. 2082540. Date of Electronic Publication: 2020 Dec 19 (Print Publication: 2020).
Typ publikacji :
Journal Article
MeSH Terms :
Host-Parasite Interactions*/genetics
Host-Parasite Interactions*/physiology
Plasmodium falciparum*/chemistry
Plasmodium falciparum*/genetics
Plasmodium falciparum*/pathogenicity
Protein Interaction Maps*/genetics
Protein Interaction Maps*/physiology
Protozoan Proteins*/chemistry
Protozoan Proteins*/genetics
Protozoan Proteins*/metabolism
Proteomics/*methods
Humans ; Machine Learning ; Malaria, Falciparum/metabolism ; Malaria, Falciparum/parasitology ; Protein Interaction Mapping ; Proteome/chemistry ; Proteome/genetics ; Proteome/metabolism
Czasopismo naukowe
Tytuł :
A tri-functional amino acid enables mapping of binding sites for posttranslational-modification-mediated protein-protein interactions.
Autorzy :
Lin J; Department of Chemistry, The University of Hong Kong, Pokfulam, Hong Kong, China.
Bao X; Department of Chemistry, The University of Hong Kong, Pokfulam, Hong Kong, China. Electronic address: .
Li XD; Department of Chemistry, The University of Hong Kong, Pokfulam, Hong Kong, China. Electronic address: .
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Źródło :
Molecular cell [Mol Cell] 2021 Jun 17; Vol. 81 (12), pp. 2669-2681.e9. Date of Electronic Publication: 2021 Apr 23.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Amino Acids/*chemistry
Amino Acids/*metabolism
Protein Interaction Mapping/*methods
Amino Acids/genetics ; Binding Sites ; Click Chemistry/methods ; Cross-Linking Reagents ; Cysteine/analogs & derivatives ; Cysteine/chemical synthesis ; Cysteine/chemistry ; Histones/metabolism ; Humans ; Mass Spectrometry/methods ; Protein Interaction Maps/genetics ; Protein Interaction Maps/physiology ; Protein Processing, Post-Translational/genetics ; Protein Processing, Post-Translational/physiology ; Proteome/metabolism ; Proteomics/methods
Czasopismo naukowe
Tytuł :
Reliable identification of protein-protein interactions by crosslinking mass spectrometry.
Autorzy :
Lenz S; Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, Berlin, Germany.
Sinn LR; Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, Berlin, Germany.
O'Reilly FJ; Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, Berlin, Germany.
Fischer L; Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, Berlin, Germany.
Wegner F; Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, Berlin, Germany.
Rappsilber J; Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, Berlin, Germany. .; Wellcome Centre for Cell Biology, University of Edinburgh, Edinburgh, UK. .
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Źródło :
Nature communications [Nat Commun] 2021 Jun 11; Vol. 12 (1), pp. 3564. Date of Electronic Publication: 2021 Jun 11.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Protein Interaction Maps*/genetics
Mass Spectrometry/*methods
Protein Interaction Mapping/*methods
Escherichia coli/genetics ; Escherichia coli Proteins/chemistry ; Escherichia coli Proteins/metabolism ; Proteome
Czasopismo naukowe
Tytuł :
The N-terminus region of Drp1, a Rint1 family protein is essential for cell survival and its interaction with Rad50 protein in fission yeast S.pombe.
Autorzy :
Gaurav S; Molecular and Structural Biology Division, CSIR- Central Drug Research Institute, Sector 10, Jankipuram Extension, Sitapur Road, Lucknow 226031, India.
Ranjan R; Molecular and Structural Biology Division, CSIR- Central Drug Research Institute, Sector 10, Jankipuram Extension, Sitapur Road, Lucknow 226031, India.
Kuldeep J; Molecular and Structural Biology Division, CSIR- Central Drug Research Institute, Sector 10, Jankipuram Extension, Sitapur Road, Lucknow 226031, India.
Dhiman K; Molecular and Structural Biology Division, CSIR- Central Drug Research Institute, Sector 10, Jankipuram Extension, Sitapur Road, Lucknow 226031, India.
Mahapatra PP; Molecular and Structural Biology Division, CSIR- Central Drug Research Institute, Sector 10, Jankipuram Extension, Sitapur Road, Lucknow 226031, India.
Ashish; Molecular and Structural Biology Division, CSIR- Central Drug Research Institute, Sector 10, Jankipuram Extension, Sitapur Road, Lucknow 226031, India.
Siddiqi MI; Molecular and Structural Biology Division, CSIR- Central Drug Research Institute, Sector 10, Jankipuram Extension, Sitapur Road, Lucknow 226031, India.
Ahmed S; Molecular and Structural Biology Division, CSIR- Central Drug Research Institute, Sector 10, Jankipuram Extension, Sitapur Road, Lucknow 226031, India. Electronic address: .
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Źródło :
Biochimica et biophysica acta. General subjects [Biochim Biophys Acta Gen Subj] 2021 Jan; Vol. 1865 (1), pp. 129739. Date of Electronic Publication: 2020 Sep 19.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Protein Interaction Maps*
Schizosaccharomyces/*metabolism
Schizosaccharomyces pombe Proteins/*metabolism
DNA Damage ; DNA Repair ; Models, Molecular ; Protein Interaction Domains and Motifs ; Scattering, Small Angle ; Schizosaccharomyces/chemistry ; Schizosaccharomyces/genetics ; Schizosaccharomyces pombe Proteins/chemistry ; X-Ray Diffraction
Czasopismo naukowe
Tytuł :
A novel scheme for essential protein discovery based on multi-source biological information.
Autorzy :
Liu W; College of Information Engineering of Yangzhou University, Yangzhou 225127, China; The Laboratory for Internet of Things and Mobile Internet Technology of Jiangsu Province, Huaiyin Institute of Technology, Huaiyin 223002, China; School of Electronic and Electrical Engineering, Sungkyunkwan University, Suwon, South Korea. Electronic address: .
Ma L; College of Information Engineering of Yangzhou University, Yangzhou 225127, China.
Chen L; College of Information Engineering of Yangzhou University, Yangzhou 225127, China.
Chen B; The Laboratory for Internet of Things and Mobile Internet Technology of Jiangsu Province, Huaiyin Institute of Technology, Huaiyin 223002, China.
Jeon B; School of Electronic and Electrical Engineering, Sungkyunkwan University, Suwon, South Korea.
Qiang J; College of Information Engineering of Yangzhou University, Yangzhou 225127, China.
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Źródło :
Journal of theoretical biology [J Theor Biol] 2020 Nov 07; Vol. 504, pp. 110414. Date of Electronic Publication: 2020 Jul 23.
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
MeSH Terms :
Protein Interaction Mapping*
Proteins*/metabolism
Algorithms ; Computational Biology ; Protein Interaction Maps ; Saccharomyces cerevisiae/genetics ; Saccharomyces cerevisiae/metabolism ; Transcriptome
Czasopismo naukowe

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