Arif Canakoglu

Publications (18)

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

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

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

The road towards data integration in human genomics: players, steps and interactions.

Briefings in bioinformatics

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

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

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

META-BASE: A Novel Architecture for Large-Scale Genomic Metadata Integration.

IEEE/ACM transactions on computational biology and bioinformatics

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

GenoSurf: metadata driven semantic search system for integrated genomic datasets.

Database : the journal of biological databases and curation

Avec: Arif Canakoglu , Anna Bernasconi , Andrea Colombo , Marco Masseroli , 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

Association of COVID-19 Vaccinations With Intensive Care Unit Admissions and Outcome of Critically Ill Patients With COVID-19 Pneumonia in Lombardy, Italy.

JAMA network open

Avec: Giacomo Grasselli , Alberto Zanella , Eleonora Carlesso , Gaetano Florio , Arif Canakoglu , Giacomo Bellani , Nicola Bottino , Luca Cabrini , Gian Paolo Castelli , Emanuele Catena , Maurizio Cecconi , Danilo Cereda , Davide Chiumello , Andrea Forastieri , Giuseppe Foti , Marco Gemma , Riccardo Giudici , Lorenzo Grazioli , Andrea Lombardo , Ferdinando Luca Lorini , Fabiana Madotto , Alberto Mantovani , Giovanni Mistraletti , Francesco Mojoli , Silvia Mongodi , Gianpaola Monti , Stefano Muttini , Simone Piva , Alessandro Protti , Frank Rasulo , Anna Mara Scandroglio , Paolo Severgnini , Enrico Storti , Roberto Fumagalli , Antonio Pesenti , Auteur inconnu

Genomic data integration and user-defined sample-set extraction for population variant analysis.

BMC bioinformatics

Avec: Tommaso Alfonsi , Anna Bernasconi , Arif Canakoglu , Marco Masseroli

Processing genome-wide association studies within a repository of heterogeneous genomic datasets.

BMC genomic data

Avec: Anna Bernasconi , Arif Canakoglu , Federico Comolli

Réseau de co-auteurs

Pietro Pinoli 12 collaborations

Anna Bernasconi 12 collaborations

Stefano Ceri 12 collaborations

Marco Masseroli 9 collaborations

Luca Nanni 5 collaborations

Tommaso Alfonsi 5 collaborations

Andrea Gulino 3 collaborations

None None 2 collaborations

Luca Cilibrasi 2 collaborations

Matteo Chiara 2 collaborations

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

Abdulrahman Kaitoua 1 collaboration

Olha Horlova 1 collaboration

Stefano Perna 1 collaboration

Eirini Stamoulakatou 1 collaboration

Ruba Al Khalaf 1 collaboration

Damianos P Melidis 1 collaboration

Anna Sandionigi 1 collaboration

Erika Ferrandi 1 collaboration

Luca Minotti 1 collaboration

Andrea Colombo 1 collaboration

Giacomo Grasselli 1 collaboration

Alberto Zanella 1 collaboration

Eleonora Carlesso 1 collaboration

Gaetano Florio 1 collaboration

Giacomo Bellani 1 collaboration

Nicola Bottino 1 collaboration

Luca Cabrini 1 collaboration

Gian Paolo Castelli 1 collaboration

Emanuele Catena 1 collaboration

Maurizio Cecconi 1 collaboration

Danilo Cereda 1 collaboration

Davide Chiumello 1 collaboration

Andrea Forastieri 1 collaboration

Giuseppe Foti 1 collaboration

Marco Gemma 1 collaboration

Riccardo Giudici 1 collaboration

Lorenzo Grazioli 1 collaboration

Andrea Lombardo 1 collaboration

Ferdinando Luca Lorini 1 collaboration

Fabiana Madotto 1 collaboration

Alberto Mantovani 1 collaboration

Giovanni Mistraletti 1 collaboration

Francesco Mojoli 1 collaboration

Silvia Mongodi 1 collaboration

Gianpaola Monti 1 collaboration

Stefano Muttini 1 collaboration

Simone Piva 1 collaboration

Alessandro Protti 1 collaboration

Frank Rasulo 1 collaboration

Anna Mara Scandroglio 1 collaboration

Paolo Severgnini 1 collaboration

Enrico Storti 1 collaboration

Roberto Fumagalli 1 collaboration

Antonio Pesenti 1 collaboration

Federico Comolli 1 collaboration