Pietro Pinoli

Publications (28)

Impact of mutational signatures on microRNA and their response elements.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing

Avec: Eirini Stamoulakatou , Pietro Pinoli , Stefano Ceri , Rosario M Piro

Analysis of co-occurring and mutually exclusive amino acid changes and detection of convergent and divergent evolution events in SARS-CoV-2.

Computational and structural biotechnology journal

Avec: Ruba Al Khalaf , Anna Bernasconi , Pietro Pinoli , Stefano Ceri

SARS-CoV-2 viremia and COVID-19 mortality: A prospective observational study.

PloS one

Avec: Andrea Giacomelli , Elena Righini , Valeria Micheli , Pietro Pinoli , Anna Bernasconi , Alberto Rizzo , Letizia Oreni , Anna Lisa Ridolfo , Spinello Antinori , Stefano Ceri , Giuliano Rizzardini

The molecular basis of the anticancer effect of statins.

Scientific reports

Avec: Giovanni Buccioli , Carolina Testa , Emanuela Jacchetti , Pietro Pinoli , Stephana Carelli , Stefano Ceri , Manuela T Raimondi

VirusViz: comparative analysis and effective visualization of viral nucleotide and amino acid variants.

Nucleic acids research

Avec: Anna Bernasconi , Andrea Gulino , Tommaso Alfonsi , Arif Canakoglu , Pietro Pinoli , Anna Sandionigi , Stefano Ceri

Identifying collateral and synthetic lethal vulnerabilities within the DNA-damage response.

BMC bioinformatics

Avec: Pietro Pinoli , Sriganesh Srihari , Limsoon Wong , Stefano Ceri

Predicting Drug Synergism by Means of Non-Negative Matrix Tri-Factorization.

IEEE/ACM transactions on computational biology and bioinformatics

Avec: Pietro Pinoli , Gaia Ceddia , Stefano Ceri , Marco Masseroli

ViruClust: direct comparison of SARS-CoV-2 genomes and genetic variants in space and time.

Bioinformatics (Oxford, England)

Avec: Luca Cilibrasi , Pietro Pinoli , Anna Bernasconi , Arif Canakoglu , Matteo Chiara , Stefano Ceri

VariantHunter: a method and tool for fast detection of emerging SARS-CoV-2 variants.

Database : the journal of biological databases and curation

Avec: Pietro Pinoli , Arif Canakoglu , Stefano Ceri , Matteo Chiara , Erika Ferrandi , Luca Minotti , Anna Bernasconi

Investigating Deep Learning Based Breast Cancer Subtyping Using Pan-Cancer and Multi-Omic Data.

IEEE/ACM transactions on computational biology and bioinformatics

Avec: Francisco Cristovao , Silvia Cascianelli , Arif Canakoglu , Mark Carman , Luca Nanni , Pietro Pinoli , Marco Masseroli

NAUTICA: classifying transcription factor interactions by positional and protein-protein interaction information.

Biology direct

Avec: Stefano Perna , Pietro Pinoli , Stefano Ceri , Limsoon Wong

High Performance Integration Pipeline for Viral and Epitope Sequences.

Biotech (Basel (Switzerland))

Avec: Tommaso Alfonsi , Pietro Pinoli , Arif Canakoglu

The ENCODE Imputation Challenge: a critical assessment of methods for cross-cell type imputation of epigenomic profiles.

Genome biology

Avec: Jacob Schreiber , Carles Boix , Jin Wook Lee , Hongyang Li , Yuanfang Guan , Chun-Chieh Chang , Jen-Chien Chang , Alex Hawkins-Hooker , Bernhard Schölkopf , Gabriele Schweikert , Mateo Rojas Carulla , Arif Canakoglu , Francesco Guzzo , Luca Nanni , Marco Masseroli , Mark James Carman , Pietro Pinoli , Chenyang Hong , Kevin Y Yip , Jeffrey P Spence , Sanjit Singh Batra , Yun S Song , Shaun Mahony , Zheng Zhang , Wuwei Tan , Yang Shen , Yuanfei Sun , Minyi Shi , Jessika Adrian , Richard Sandstrom , Nina Farrell , Jessica Halow , Kristen Lee , Lixia Jiang , Xinqiong Yang , Charles Epstein , J Seth Strattan , Bradley Bernstein , Michael Snyder , Manolis Kellis , William Stafford , Anshul Kundaje , Auteur inconnu

Advancing healthcare through data: the BETTER project's vision for distributed analytics.

Frontiers in medicine

Avec: Matteo Bregonzio , Anna Bernasconi , Pietro Pinoli

Processing of big heterogeneous genomic datasets for tertiary analysis of Next Generation Sequencing data.

Bioinformatics (Oxford, England)

Avec: Marco Masseroli , Arif Canakoglu , Pietro Pinoli , Abdulrahman Kaitoua , Andrea Gulino , Olha Horlova , Luca Nanni , Anna Bernasconi , Stefano Perna , Eirini Stamoulakatou , Stefano Ceri

PyGMQL: scalable data extraction and analysis for heterogeneous genomic datasets.

BMC bioinformatics

Avec: Luca Nanni , Pietro Pinoli , Arif Canakoglu , Stefano Ceri

EpiSurf: metadata-driven search server for analyzing amino acid changes within epitopes of SARS-CoV-2 and other viral species.

Database : the journal of biological databases and curation

Avec: Anna Bernasconi , Luca Cilibrasi , Ruba Al Khalaf , Tommaso Alfonsi , Stefano Ceri , Pietro Pinoli , Arif Canakoglu

ViruSurf: an integrated database to investigate viral sequences.

Nucleic acids research

Avec: Arif Canakoglu , Pietro Pinoli , Anna Bernasconi , Tommaso Alfonsi , Damianos P Melidis , Stefano Ceri

VirusLab: A Tool for Customized SARS-CoV-2 Data Analysis.

Biotech (Basel (Switzerland))

Avec: Pietro Pinoli , Anna Bernasconi , Anna Sandionigi , Stefano Ceri

Whole transcriptomic analysis of mesenchymal stem cells cultured in Nichoid micro-scaffolds.

Frontiers in bioengineering and biotechnology

Avec: Carolina Testa , Stefania Oliveto , Emanuela Jacchetti , Francesca Donnaloja , Chiara Martinelli , Pietro Pinoli , Roberto Osellame , Giulio Cerullo , Stefano Ceri , Stefano Biffo , Manuela T Raimondi

Matrix Factorization-based Technique for Drug Repurposing Predictions.

IEEE journal of biomedical and health informatics

Avec: G Ceddia , P Pinoli , S Ceri , M Masseroli

Pan-cancer analysis of somatic mutations and epigenetic alterations in insulated neighbourhood boundaries.

PloS one

Avec: Pietro Pinoli , Eirini Stamoulakatou , An-Phi Nguyen , María Rodríguez Martínez , Stefano Ceri

Federated sharing and processing of genomic datasets for tertiary data analysis.

Briefings in bioinformatics

Avec: Arif Canakoglu , Pietro Pinoli , Andrea Gulino , Luca Nanni , Marco Masseroli , Stefano Ceri

A review on viral data sources and search systems for perspective mitigation of COVID-19.

Briefings in bioinformatics

Avec: Anna Bernasconi , Arif Canakoglu , Marco Masseroli , Pietro Pinoli , Stefano Ceri

Employing a systematic approach to biobanking and analyzing clinical and genetic data for advancing COVID-19 research.

European journal of human genetics : EJHG

Avec: Sergio Daga , Chiara Fallerini , Margherita Baldassarri , Francesca Fava , Floriana Valentino , Gabriella Doddato , Elisa Benetti , Simone Furini , Annarita Giliberti , Rossella Tita , Sara Amitrano , Mirella Bruttini , Ilaria Meloni , Anna Maria Pinto , Francesco Raimondi , Alessandra Stella , Filippo Biscarini , Nicola Picchiotti , Marco Gori , Pietro Pinoli , Stefano Ceri , Maurizio Sanarico , Francis P Crawley , Giovanni Birolo , Auteur inconnu , Alessandra Renieri , Francesca Mari , Elisa Frullanti

A comparative analysis of ENCODE and Cistrome in the context of TF binding signal.

BMC genomics

Avec: Stefano Perna , Pietro Pinoli , Stefano Ceri , Limsoon Wong

Systematic analysis of SARS-CoV-2 Omicron subvariants' impact on B and T cell epitopes.

PloS one

Avec: Ruba Al Khalaf , Anna Bernasconi , Pietro Pinoli

Non-Negative Matrix Tri-Factorization for Representation Learning in Multi-Omics Datasets with Applications to Drug Repurposing and Selection.

International journal of molecular sciences

Avec: Letizia Messa , Carolina Testa , Stephana Carelli , Federica Rey , Emanuela Jacchetti , Cristina Cereda , Manuela Teresa Raimondi , Stefano Ceri , Pietro Pinoli

Réseau de co-auteurs

Stefano Ceri 22 collaborations

Anna Bernasconi 12 collaborations

Arif Canakoglu 12 collaborations

Marco Masseroli 6 collaborations

Luca Nanni 5 collaborations

Tommaso Alfonsi 4 collaborations

Eirini Stamoulakatou 3 collaborations

Ruba Al Khalaf 3 collaborations

Carolina Testa 3 collaborations

Emanuela Jacchetti 3 collaborations

Andrea Gulino 3 collaborations

Limsoon Wong 3 collaborations

Stefano Perna 3 collaborations

Stephana Carelli 2 collaborations

Manuela T Raimondi 2 collaborations

Anna Sandionigi 2 collaborations

Luca Cilibrasi 2 collaborations

Matteo Chiara 2 collaborations

None None 2 collaborations

Rosario M Piro 1 collaboration

Andrea Giacomelli 1 collaboration

Elena Righini 1 collaboration

Valeria Micheli 1 collaboration

Alberto Rizzo 1 collaboration

Letizia Oreni 1 collaboration

Anna Lisa Ridolfo 1 collaboration

Spinello Antinori 1 collaboration

Giuliano Rizzardini 1 collaboration

Giovanni Buccioli 1 collaboration

Sriganesh Srihari 1 collaboration

Gaia Ceddia 1 collaboration

Erika Ferrandi 1 collaboration

Luca Minotti 1 collaboration

Francisco Cristovao 1 collaboration

Silvia Cascianelli 1 collaboration

Mark Carman 1 collaboration

Jacob Schreiber 1 collaboration

Carles Boix 1 collaboration

Jin Wook Lee 1 collaboration

Hongyang Li 1 collaboration

Yuanfang Guan 1 collaboration

Chun-Chieh Chang 1 collaboration

Jen-Chien Chang 1 collaboration

Alex Hawkins-Hooker 1 collaboration

Bernhard Schölkopf 1 collaboration

Gabriele Schweikert 1 collaboration

Mateo Rojas Carulla 1 collaboration

Francesco Guzzo 1 collaboration

Mark James Carman 1 collaboration

Chenyang Hong 1 collaboration

Kevin Y Yip 1 collaboration

Jeffrey P Spence 1 collaboration

Sanjit Singh Batra 1 collaboration

Yun S Song 1 collaboration

Shaun Mahony 1 collaboration

Zheng Zhang 1 collaboration

Wuwei Tan 1 collaboration

Yang Shen 1 collaboration

Yuanfei Sun 1 collaboration

Minyi Shi 1 collaboration

Jessika Adrian 1 collaboration

Richard Sandstrom 1 collaboration

Nina Farrell 1 collaboration

Jessica Halow 1 collaboration

Kristen Lee 1 collaboration

Lixia Jiang 1 collaboration

Xinqiong Yang 1 collaboration

Charles Epstein 1 collaboration

J Seth Strattan 1 collaboration

Bradley Bernstein 1 collaboration

Michael Snyder 1 collaboration

Manolis Kellis 1 collaboration

William Stafford 1 collaboration

Anshul Kundaje 1 collaboration

Matteo Bregonzio 1 collaboration

Abdulrahman Kaitoua 1 collaboration

Olha Horlova 1 collaboration

Damianos P Melidis 1 collaboration

Stefania Oliveto 1 collaboration

Francesca Donnaloja 1 collaboration

Chiara Martinelli 1 collaboration

Roberto Osellame 1 collaboration

Giulio Cerullo 1 collaboration

Stefano Biffo 1 collaboration

G Ceddia 1 collaboration

P Pinoli 1 collaboration

S Ceri 1 collaboration

M Masseroli 1 collaboration

An-Phi Nguyen 1 collaboration

María Rodríguez Martínez 1 collaboration

Sergio Daga 1 collaboration

Chiara Fallerini 1 collaboration

Margherita Baldassarri 1 collaboration

Francesca Fava 1 collaboration

Floriana Valentino 1 collaboration

Gabriella Doddato 1 collaboration

Elisa Benetti 1 collaboration

Simone Furini 1 collaboration

Annarita Giliberti 1 collaboration

Rossella Tita 1 collaboration

Sara Amitrano 1 collaboration

Mirella Bruttini 1 collaboration

Ilaria Meloni 1 collaboration

Anna Maria Pinto 1 collaboration

Francesco Raimondi 1 collaboration

Alessandra Stella 1 collaboration

Filippo Biscarini 1 collaboration

Nicola Picchiotti 1 collaboration

Marco Gori 1 collaboration

Maurizio Sanarico 1 collaboration

Francis P Crawley 1 collaboration

Giovanni Birolo 1 collaboration

Alessandra Renieri 1 collaboration

Francesca Mari 1 collaboration

Elisa Frullanti 1 collaboration

Letizia Messa 1 collaboration

Federica Rey 1 collaboration

Cristina Cereda 1 collaboration

Manuela Teresa Raimondi 1 collaboration