Chiara Pastrello

According to our database, Chiara Pastrello authored at least 23 papers between 2013 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of three.

2023

<i>USNAP</i>: fast unique dense region detection and its application to lung cancer.

Serene W. H. Wong, Chiara Pastrello, Max Kotlyar, Christos Faloutsos, Igor Jurisica

Bioinform., August, 2023

MirDIP 5.2: tissue context annotation and novel microRNA curation.

Anne-Christin Hauschild, Chiara Pastrello, Gitta Kirana Anindya Ekaputeri, Dylan Bethune-Waddell, Mark Abovsky, Zuhaib Ahmed, Max Kotlyar, Richard Lu, Igor Jurisica

Nucleic Acids Res., January, 2023

2022

IID 2021: towards context-specific protein interaction analyses by increased coverage, enhanced annotation and enrichment analysis.

Max Kotlyar, Chiara Pastrello, Zuhaib Ahmed, Justin Chee, Zofia Varyova, Igor Jurisica

Nucleic Acids Res., 2022

miRAnno - network-based functional microRNA annotation.

Tomás Tokár, Chiara Pastrello, Mark Abovsky, Sara Rahmati, Igor Jurisica

Bioinform., 2022

Pathway integration and annotation: building a puzzle with non-matching pieces and no reference picture.

Giuseppe Agapito, Chiara Pastrello, Yun Niu, Igor Jurisica

Briefings Bioinform., 2022

2021

Comprehensive pathway enrichment analysis workflows: COVID-19 case study.

Giuseppe Agapito, Chiara Pastrello, Igor Jurisica

Briefings Bioinform., 2021

2020

Informed Use of Protein-Protein Interaction Data: A Focus on the Integrated Interactions Database (IID).

Chiara Pastrello, Max Kotlyar, Igor Jurisica

Proceedings of the Protein-Protein Interaction Networks, Methods and Protocols., 2020

pathDIP 4: an extended pathway annotations and enrichment analysis resource for human, model organisms and domesticated species.

Sara Rahmati, Mark Abovsky, Chiara Pastrello, Max Kotlyar, Richard Lu, Christian A. Cumbaa, Proton Rahman, Vinod Chandran, Igor Jurisica

Nucleic Acids Res., 2020

GSOAP: a tool for visualization of gene set over-representation analysis.

Tomás Tokár, Chiara Pastrello, Igor Jurisica

Bioinform., 2020

BioPAX-Parser: parsing and enrichment analysis of BioPAX pathways.

Giuseppe Agapito, Chiara Pastrello, Pietro Hiram Guzzi, Igor Jurisica, Mario Cannataro

Bioinform., 2020

The IMEx coronavirus interactome: an evolving map of Coronaviridae-host molecular interactions.

Livia Perfetto, Chiara Pastrello, Noemi del-Toro, Margaret J. Duesbury, Marta Iannuccelli, Max Kotlyar, Luana Licata, Birgit Meldal, Kalpana Panneerselvam, Simona Panni, N. Rahimzadeh, Sylvie Ricard-Blum, Lukasz Salwínski, Anjali Shrivastava, Gianni Cesareni, Matteo Pellegrini, Sandra E. Orchard, Igor Jurisica, Henning Hermjakob, Pablo Porras

Database J. Biol. Databases Curation, 2020

2019

Two Decades of Biological Pathway Databases: Results and Challenges.

Sara Rahmati, Chiara Pastrello, Andrea E. M. Rossos, Igor Jurisica

Proceedings of the Encyclopedia of Bioinformatics and Computational Biology - Volume 1, 2019

Protein-Protein Interaction Databases.

Max Kotlyar, Chiara Pastrello, Andrea E. M. Rossos, Igor Jurisica

Proceedings of the Encyclopedia of Bioinformatics and Computational Biology - Volume 1, 2019

Visualization of Biomedical Networks.

Anne-Christin Hauschild, Chiara Pastrello, Andrea E. M. Rossos, Igor Jurisica

Proceedings of the Encyclopedia of Bioinformatics and Computational Biology - Volume 1, 2019

IID 2018 update: context-specific physical protein-protein interactions in human, model organisms and domesticated species.

Max Kotlyar, Chiara Pastrello, Zara Malik, Igor Jurisica

Nucleic Acids Res., 2019

2018

mirDIP 4.1 - integrative database of human microRNA target predictions.

Tomás Tokár, Chiara Pastrello, Andrea E. M. Rossos, Mark Abovsky, Anne-Christin Hauschild, Mike Tsay, Richard Lu, Igor Jurisica

Nucleic Acids Res., 2018

SDREGION: Fast Spotting of Changing Communities in Biological Networks.

Serene W. H. Wong, Chiara Pastrello, Max Kotlyar, Christos Faloutsos, Igor Jurisica

Proceedings of the 24th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining, 2018

2017

pathDIP: an annotated resource for known and predicted human gene-pathway associations and pathway enrichment analysis.

Sara Rahmati, Mark Abovsky, Chiara Pastrello, Igor Jurisica

Nucleic Acids Res., 2017

2016

Integrated interactions database: tissue-specific view of the human and model organism interactomes.

Max Kotlyar, Chiara Pastrello, Nicholas Sheahan, Igor Jurisica

Nucleic Acids Res., 2016

Robust quantitative scratch assay.

Andrea Vargas, Marc Angeli, Chiara Pastrello, Rosanne McQuaid, Han Li, Andrea Jurisicova, Igor Jurisica

Bioinform., 2016

2015

Prioritizing Therapeutics for Lung Cancer: An Integrative Meta-analysis of Cancer Gene Signatures and Chemogenomic Data.

Kristen Fortney, Joshua Griesman, Max Kotlyar, Chiara Pastrello, Marc Angeli, Ming-Sound Tsao, Igor Jurisica

PLoS Comput. Biol., 2015

2014

Visual Data Mining: Effective Exploration of the Biological Universe.

David Otasek, Chiara Pastrello, Andreas Holzinger, Igor Jurisica

Proceedings of the Interactive Knowledge Discovery and Data Mining in Biomedical Informatics, 2014

2013

Visual Data Mining of Biological Networks: One Size Does Not Fit All.

Chiara Pastrello, David Otasek, Kristen Fortney, Giuseppe Agapito, Mario Cannataro, Elize Shirdel, Igor Jurisica

PLoS Comput. Biol., 2013