Found: 30

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  • IntAct Database for Accessing IMEx's Contextual Metadata of Molecular Interactions.

    Published in:
    Current Protocols, 2024, v. 4, n. 10, p. 1, doi. 10.1002/cpz1.70018
    By:
    • Panneerselvam, Kalpana;
    • Porras, Pablo;
    • del‐Toro, Noemí;
    • Perfetto, Livia;
    • Shrivastava, Anjali;
    • Ragueneau, Eliot;
    • Reyes, Juan Jose Medina;
    • Orchard, Sandra;
    • Hermjakob, Henning
    Publication type:
    Article

  • Integrating Patient-Specific Information into Logic Models of Complex Diseases: Application to Acute Myeloid Leukemia.

    Published in:
    Journal of Personalized Medicine, 2021, v. 11, n. 2, p. 117, doi. 10.3390/jpm11020117
    By:
    • Palma, Alessandro;
    • Iannuccelli, Marta;
    • Rozzo, Ilaria;
    • Licata, Luana;
    • Perfetto, Livia;
    • Massacci, Giorgia;
    • Castagnoli, Luisa;
    • Cesareni, Gianni;
    • Sacco, Francesca;
    • Salehzadeh-Yazdi, Ali
    Publication type:
    Article

  • Assembling Disease Networks From Causal Interaction Resources.

    Published in:
    Frontiers in Genetics, 2021, v. 11, p. 1, doi. 10.3389/fgene.2021.694468
    By:
    • Cesareni, Gianni;
    • Sacco, Francesca;
    • Perfetto, Livia
    Publication type:
    Article

  • Complex Portal 2018: extended content and enhanced visualization tools for macromolecular complexes.

    Published in:
    Nucleic Acids Research, 2019, v. 47, n. D1, p. D550, doi. 10.1093/nar/gky1001
    By:
    • Meldal, Birgit H M;
    • Bye-A-Jee, Hema;
    • Gajdoš, Lukáš;
    • Hammerová, Zuzana;
    • Horáčková, Aneta;
    • Melicher, Filip;
    • Perfetto, Livia;
    • Pokorný, Daniel;
    • Lopez, Milagros Rodriguez;
    • Türková, Alžběta;
    • Wong, Edith D;
    • Xie, Zengyan;
    • Casanova, Elisabeth Barrera;
    • del-Toro, Noemi;
    • Koch, Maximilian;
    • Porras, Pablo;
    • Hermjakob, Henning;
    • Orchard, Sandra
    Publication type:
    Article

  • DISNOR: a disease network open resource.

    Published in:
    Nucleic Acids Research, 2018, v. 46, n. D1, p. D527, doi. 10.1093/nar/gkx876
    By:
    • Lo Surdo, Prisca;
    • Calderone, Alberto;
    • Iannuccelli, Marta;
    • Licata, Luana;
    • Peluso, Daniele;
    • Castagnoli, Luisa;
    • Cesareni, Gianni;
    • Perfetto, Livia
    Publication type:
    Article

  • SIGNOR: a database of causal relationships between biological entities.

    Published in:
    Nucleic Acids Research, 2016, v. 44, p. D548, doi. 10.1093/nar/gkv1048
    By:
    • Perfetto, Livia;
    • Briganti, Leonardo;
    • Calderone, Alberto;
    • Perpetuini, Andrea Cerquone;
    • Iannuccelli, Marta;
    • Langone, Francesca;
    • Licata, Luana;
    • Marinkovic, Milica;
    • Mattioni, Anna;
    • Pavlidou, Theodora;
    • Peluso, Daniele;
    • Petrilli, Lucia Lisa;
    • Pirrò, Stefano;
    • Posca, Daniela;
    • Santonico, Elena;
    • Silvestri, Alessandra;
    • Spada, Filomena;
    • Castagnoli, Luisa;
    • Cesareni, Gianni
    Publication type:
    Article

  • MINT, the molecular interaction database: 2012 update.

    Published in:
    Nucleic Acids Research, 2012, p. D857, doi. 10.1093/nar/gkr930
    By:
    • Licata, Luana;
    • Briganti, Leonardo;
    • Peluso, Daniele;
    • Perfetto, Livia;
    • Iannuccelli, Marta;
    • Galeota, Eugenia;
    • Sacco, Francesca;
    • Palma, Anita;
    • Nardozza, Aurelio Pio;
    • Santonico, Elena;
    • Castagnoli, Luisa;
    • Cesareni, Gianni
    Publication type:
    Article

  • MINT, the molecular interaction database: 2009 update.

    Published in:
    Nucleic Acids Research, 2010, v. 38, p. D532, doi. 10.1093/nar/gkp983
    By:
    • Ceol, Arnaud;
    • Aryamontri, Andrew Chatr;
    • Licata, Luana;
    • Peluso, Daniele;
    • Briganti, Leonardo;
    • Perfetto, Livia;
    • Castagnoli, Luisa;
    • Cesareni, Gianni
    Publication type:
    Article

  • SIGNORApp: a Cytoscape 3 application to access SIGNOR data.

    Published in:
    Bioinformatics, 2022, v. 38, n. 6, p. 1764, doi. 10.1093/bioinformatics/btab865
    By:
    • Marinis, Ilaria De;
    • Surdo, Prisca Lo;
    • Cesareni, Gianni;
    • Perfetto, Livia
    Publication type:
    Article

  • The Minimum Information about a Molecular Interaction CAusal STatement (MI2CAST).

    Published in:
    Bioinformatics, 2020, v. 36, n. 24, p. 5712, doi. 10.1093/bioinformatics/btaa622
    By:
    • Touré, Vasundra;
    • Vercruysse, Steven;
    • Acencio, Marcio Luis;
    • Lovering, Ruth C;
    • Orchard, Sandra;
    • Bradley, Glyn;
    • Casals-Casas, Cristina;
    • Chaouiya, Claudine;
    • del-Toro, Noemi;
    • Flobak, Åsmund;
    • Gaudet, Pascale;
    • Hermjakob, Henning;
    • Hoyt, Charles Tapley;
    • Licata, Luana;
    • Lægreid, Astrid;
    • Mungall, Christopher J;
    • Niknejad, Anne;
    • Panni, Simona;
    • Perfetto, Livia;
    • Porras, Pablo
    Publication type:
    Article

  • Integration of macromolecular complex data into the Saccharomyces Genome Database.

    Published in:
    Database: The Journal of Biological Databases & Curation, 2019, v. 2019, p. N.PAG, doi. 10.1093/database/baz008
    By:
    • Wong, Edith D;
    • Skrzypek, Marek S;
    • Weng, Shuai;
    • Binkley, Gail;
    • Meldal, Birgit H M;
    • Perfetto, Livia;
    • Orchard, Sandra E;
    • Engel, Stacia R;
    • Cherry, J Michael;
    • Project, the SGD
    Publication type:
    Article

  • Benchmarking of the 2010 BioCreative Challenge III text-mining competition by the BioGRID and MINT interaction databases.

    Published in:
    BMC Bioinformatics, 2011, v. 12, n. Suppl 8, p. 1, doi. 10.1186/1471-2105-12-S8-S8
    By:
    • Chatr-aryamontri, Andrew;
    • Winter, Andrew;
    • Perfetto, Livia;
    • Briganti, Leonardo;
    • Licata, Luana;
    • Iannuccelli, Marta;
    • Castagnoli, Luisa;
    • Cesareni, Gianni;
    • Tyers, Mike
    Publication type:
    Article

  • The Protein-Protein Interaction tasks of BioCreative III: classification/ranking of articles and linking bio-ontology concepts to full text.

    Published in:
    BMC Bioinformatics, 2011, v. 12, n. Suppl 8, p. 1, doi. 10.1186/1471-2105-12-S8-S3
    By:
    • Krallinger, Martin;
    • Vazquez, Miguel;
    • Leitner, Florian;
    • Salgado, David;
    • Chatr-aryamontri, Andrew;
    • Winter, Andrew;
    • Perfetto, Livia;
    • Briganti, Leonardo;
    • Licata, Luana;
    • Iannuccelli, Marta;
    • Castagnoli, Luisa;
    • Cesareni, Gianni;
    • Tyers, Mike;
    • Schneider, Gerold;
    • Rinaldi, Fabio;
    • Leaman, Robert;
    • Gonzalez, Graciela;
    • Matos, Sergio;
    • Kim, Sun;
    • Wilbur, W John
    Publication type:
    Article

  • BioCreative III interactive task: an overview.

    Published in:
    BMC Bioinformatics, 2011, v. 12, n. Suppl 8, p. 1, doi. 10.1186/1471-2105-12-S8-S4
    By:
    • Arighi, Cecilia N;
    • Roberts, Phoebe M;
    • Agarwal, Shashank;
    • Bhattacharya, Sanmitra;
    • Cesareni, Gianni;
    • Chatr-aryamontri, Andrew;
    • Clematide, Simon;
    • Gaudet, Pascale;
    • Giglio, Michelle Gwinn;
    • Harrow, Ian;
    • Huala, Eva;
    • Krallinger, Martin;
    • Leser, Ulf;
    • Li, Donghui;
    • Liu, Feifan;
    • Lu, Zhiyong;
    • Maltais, Lois J;
    • Okazaki, Naoaki;
    • Perfetto, Livia;
    • Rinaldi, Fabio
    Publication type:
    Article

  • Unveiling the signaling network of FLT3-ITD AML improves drug sensitivity prediction.

    Published in:
    eLife, 2024, p. 1, doi. 10.7554/eLife.90532
    By:
    • Latini, Sara;
    • Venafra, Veronica;
    • Massacci, Giorgia;
    • Bica, Valeria;
    • Graziosi, Simone;
    • Pugliese, Giusj Monia;
    • Iannuccelli, Marta;
    • Frioni, Filippo;
    • Minnella, Gessica;
    • Marra, John Donald;
    • Chiusolo, Patrizia;
    • Pepe, Gerardo;
    • Citterich, Manuela Helmer;
    • Mougiakakos, Dimitros;
    • Böttcher, Martin;
    • Fischer, Thomas;
    • Perfetto, Livia;
    • Sacco, Francesca
    Publication type:
    Article

  • HuPho: the human phosphatase portal.

    Published in:
    FEBS Journal, 2013, v. 280, n. 2, p. 379, doi. 10.1111/j.1742-4658.2012.08712.x
    By:
    • Liberti, Susanna;
    • Sacco, Francesca;
    • Calderone, Alberto;
    • Perfetto, Livia;
    • Iannuccelli, Marta;
    • Panni, Simona;
    • Santonico, Elena;
    • Palma, Anita;
    • Nardozza, Aurelio P.;
    • Castagnoli, Luisa;
    • Cesareni, Gianni
    Publication type:
    Article

  • Combining Phosphoproteomics Datasets and Literature Information to Reveal the Functional Connections in a Cell Phosphorylation Network.

    Published in:
    Proteomics, 2018, v. 18, n. 5/6, p. 1, doi. 10.1002/pmic.201700311
    By:
    • Sacco, Francesca;
    • Perfetto, Livia;
    • Cesareni, Gianni
    Publication type:
    Article

  • Combining Mass Spectrometry-Based Phosphoproteomics with a Network-Based Approach to Reveal FLT3-Dependent Mechanisms of Chemoresistance.

    Published in:
    Proteomes, 2021, v. 9, n. 2, p. 19, doi. 10.3390/proteomes9020019
    By:
    • Pugliese, Giusj Monia;
    • Latini, Sara;
    • Massacci, Giorgia;
    • Perfetto, Livia;
    • Sacco, Francesca
    Publication type:
    Article

  • The Cyclin-dependent kinase 1: more than a cell cycle regulator.

    Published in:
    British Journal of Cancer, 2023, v. 129, n. 11, p. 1707, doi. 10.1038/s41416-023-02468-8
    By:
    • Massacci, Giorgia;
    • Perfetto, Livia;
    • Sacco, Francesca
    Publication type:
    Article

  • SIGNOR 3.0, the SIGnaling network open resource 3.0: 2022 update.

    Published in:
    Nucleic Acids Research, 2023, v. 51, n. D1, p. D631, doi. 10.1093/nar/gkac883
    By:
    • Lo Surdo, Prisca;
    • Iannuccelli, Marta;
    • Contino, Silvia;
    • Castagnoli, Luisa;
    • Licata, Luana;
    • Cesareni, Gianni;
    • Perfetto, Livia
    Publication type:
    Article

  • Complex Portal 2022: new curation frontiers.

    Published in:
    Nucleic Acids Research, 2022, v. 50, n. D1, p. D578, doi. 10.1093/nar/gkab991
    By:
    • Meldal, Birgit H M;
    • Perfetto, Livia;
    • Combe, Colin;
    • Lubiana, Tiago;
    • Ferreira Cavalcante, João Vitor;
    • Bye-A-Jee, Hema;
    • Waagmeester, Andra;
    • del-Toro, Noemi;
    • Shrivastava, Anjali;
    • Barrera, Elisabeth;
    • Wong, Edith;
    • Mlecnik, Bernhard;
    • Bindea, Gabriela;
    • Panneerselvam, Kalpana;
    • Willighagen, Egon;
    • Rappsilber, Juri;
    • Porras, Pablo;
    • Hermjakob, Henning;
    • Orchard, Sandra
    Publication type:
    Article

  • IntAct database: efficient access to fine-grained molecular interaction data.

    Published in:
    Nucleic Acids Research, 2022, v. 50, n. D1, p. D648, doi. 10.1093/nar/gkab1006
    By:
    • del Toro, Noemi;
    • Shrivastava, Anjali;
    • Ragueneau, Eliot;
    • Meldal, Birgit;
    • Combe, Colin;
    • Barrera, Elisabet;
    • Perfetto, Livia;
    • How, Karyn;
    • Ratan, Prashansa;
    • Shirodkar, Gautam;
    • Lu, Odilia;
    • Mészáros, Bálint;
    • Watkins, Xavier;
    • Pundir, Sangya;
    • Licata, Luana;
    • Iannuccelli, Marta;
    • Pellegrini, Matteo;
    • Martin, Maria Jesus;
    • Panni, Simona;
    • Duesbury, Margaret
    Publication type:
    Article

  • Analysing the yeast complexome—the Complex Portal rising to the challenge.

    Published in:
    Nucleic Acids Research, 2021, v. 49, n. 6, p. 3156, doi. 10.1093/nar/gkab077
    By:
    • Meldal, Birgit H M;
    • Pons, Carles;
    • Perfetto, Livia;
    • Del-Toro, Noemi;
    • Wong, Edith;
    • Aloy, Patrick;
    • Hermjakob, Henning;
    • Orchard, Sandra;
    • Porras, Pablo
    Publication type:
    Article

  • SIGNOR 2.0, the SIGnaling Network Open Resource 2.0: 2019 update.

    Published in:
    Nucleic Acids Research, 2020, v. 48, n. D1, p. D504, doi. 10.1093/nar/gkz949
    By:
    • Licata, Luana;
    • Lo Surdo, Prisca;
    • Iannuccelli, Marta;
    • Palma, Alessandro;
    • Micarelli, Elisa;
    • Perfetto, Livia;
    • Peluso, Daniele;
    • Calderone, Alberto;
    • Castagnoli, Luisa;
    • Cesareni, Gianni
    Publication type:
    Article

  • CancerGeneNet: linking driver genes to cancer hallmarks.

    Published in:
    Nucleic Acids Research, 2020, v. 48, n. D1, p. D416, doi. 10.1093/nar/gkz871
    By:
    • Iannuccelli, Marta;
    • Micarelli, Elisa;
    • Surdo, Prisca Lo;
    • Palma, Alessandro;
    • Perfetto, Livia;
    • Rozzo, Ilaria;
    • Castagnoli, Luisa;
    • Licata, Luana;
    • Cesareni, Gianni
    Publication type:
    Article

  • Myo-REG: A Portal for Signaling Interactions in Muscle Regeneration.

    Published in:
    Frontiers in Physiology, 2019, p. 1, doi. 10.3389/fphys.2019.01216
    By:
    • Palma, Alessandro;
    • Perpetuini, Andrea Cerquone;
    • Ferrentino, Federica;
    • Fuoco, Claudia;
    • Gargioli, Cesare;
    • Giuliani, Giulio;
    • Iannuccelli, Marta;
    • Licata, Luana;
    • Micarelli, Elisa;
    • Paoluzi, Serena;
    • Perfetto, Livia;
    • Petrilli, Lucia Lisa;
    • Reggio, Alessio;
    • Rosina, Marco;
    • Sacco, Francesca;
    • Vumbaca, Simone;
    • Zuccotti, Alessandro;
    • Castagnoli, Luisa;
    • Cesareni, Gianni
    Publication type:
    Article

  • The human phosphatase interactome: An intricate family portrait

    Published in:
    FEBS Letters, 2012, v. 586, n. 17, p. 2732, doi. 10.1016/j.febslet.2012.05.008
    By:
    • Sacco, Francesca;
    • Perfetto, Livia;
    • Castagnoli, Luisa;
    • Cesareni, Gianni
    Publication type:
    Article

  • A Resource for the Network Representation of Cell Perturbations Caused by SARS-CoV-2 Infection.

    Published in:
    Genes, 2021, v. 12, n. 3, p. 450, doi. 10.3390/genes12030450
    By:
    • Perfetto, Livia;
    • Micarelli, Elisa;
    • Iannuccelli, Marta;
    • Lo Surdo, Prisca;
    • Giuliani, Giulio;
    • Latini, Sara;
    • Pugliese, Giusj Monia;
    • Massacci, Giorgia;
    • Vumbaca, Simone;
    • Riccio, Federica;
    • Fuoco, Claudia;
    • Paoluzi, Serena;
    • Castagnoli, Luisa;
    • Cesareni, Gianni;
    • Licata, Luana;
    • Sacco, Francesca;
    • Novelli, Giuseppe;
    • Biancolella, Michela
    Publication type:
    Article

  • SignalingProfiler 2.0 a network-based approach to bridge multi-omics data to phenotypic hallmarks.

    Published in:
    NPJ Systems Biology & Applications, 2024, v. 10, n. 1, p. 1, doi. 10.1038/s41540-024-00417-6
    By:
    • Venafra, Veronica;
    • Sacco, Francesca;
    • Perfetto, Livia
    Publication type:
    Article

  • Towards a unified open access dataset of molecular interactions.

    Published in:
    Nature Communications, 2020, v. 11, n. 1, p. N.PAG, doi. 10.1038/s41467-020-19942-z
    By:
    • Porras, Pablo;
    • Barrera, Elisabet;
    • Bridge, Alan;
    • del-Toro, Noemi;
    • Cesareni, Gianni;
    • Duesbury, Margaret;
    • Hermjakob, Henning;
    • Iannuccelli, Marta;
    • Jurisica, Igor;
    • Kotlyar, Max;
    • Licata, Luana;
    • Lovering, Ruth C.;
    • Lynn, David J.;
    • Meldal, Birgit;
    • Nanduri, Bindu;
    • Paneerselvam, Kalpana;
    • Panni, Simona;
    • Pastrello, Chiara;
    • Pellegrini, Matteo;
    • Perfetto, Livia
    Publication type:
    Article