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1

Data Science for Genomic Data Management: Challenges, Resources, Experiences

Ceri, Stefano, Pinoli, Pietro

Journal:

SN Computer Science

Année:

2020

Langue:

english

Fichier:

PDF, 960 KB

english, 2020

2

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

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

Journal:

Année:

2018

Langue:

english

Fichier:

PDF, 327 KB

english, 2018

3

[IEEE 2019 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB) - Siena, Italy (2019.7.9-2019.7.11)] 2019 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB) - Non-negative Matrix Tri-Factorization for Data Integration and Network-based Drug Repositioning

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

Année:

2019

Langue:

english

Fichier:

PDF, 505 KB

english, 2019

4

[IEEE 2013 IEEE 13th International Conference on Bioinformatics and Bioengineering (BIBE) - Chania, Greece (2013.11.10-2013.11.13)] 13th IEEE International Conference on BioInformatics and BioEngineering - Enhanced probabilistic latent semantic analysis with weighting schemes to predict genomic annotations

Pinoli, Pietro, Chicco, Davide, Masseroli, Marco

Année:

2013

Langue:

english

Fichier:

PDF, 273 KB

english, 2013

5

[IEEE 2012 International Joint Conference on Neural Networks (IJCNN 2012 - Brisbane) - Brisbane, Australia (2012.06.10-2012.06.15)] The 2012 International Joint Conference on Neural Networks (IJCNN) - Probabilistic Latent Semantic Analysis for prediction of Gene Ontology annotations

Masseroli, Marco, Chicco, Davide, Pinoli, Pietro

Année:

2012

Langue:

english

Fichier:

PDF, 1007 KB

english, 2012

6

[IEEE 2014 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB) - Honolulu, HI, USA (2014.5.21-2014.5.24)] 2014 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology - Latent Dirichlet Allocation based on Gibbs Sampling for gene function prediction

Pinoli, Pietro, Chicco, Davide, Masseroli, Marco

Année:

2014

Langue:

english

Fichier:

PDF, 514 KB

english, 2014

7

GenoMetric Query Language: a novel approach to large-scale genomic data management

Masseroli, Marco, Pinoli, Pietro, Venco, Francesco, Kaitoua, Abdulrahman, Jalili, Vahid, Palluzzi, Fernando, Muller, Heiko, Ceri, Stefano

Journal:

Année:

2015

Langue:

english

Fichier:

PDF, 104 KB

english, 2015

8

[IEEE 2015 IEEE International Conference on Big Data (Big Data) - Santa Clara, CA, USA (2015.10.29-2015.11.1)] 2015 IEEE International Conference on Big Data (Big Data) - Evaluating cloud frameworks on genomic applications

Bertoni, Michele, Ceri, Stefano, Kaitoua, Abdurrahman, Pinoli, Pietro

Année:

2015

Langue:

english

Fichier:

PDF, 1.37 MB

english, 2015

9

Cross-organism learning method to discover new gene functionalities

Domeniconi, Giacomo, Masseroli, Marco, Moro, Gianluca, Pinoli, Pietro

Journal:

Computer Methods and Programs in Biomedicine

Année:

2016

Langue:

english

Fichier:

PDF, 2.22 MB

english, 2016

10

Computational algorithms to predict Gene Ontology annotations

Pinoli, Pietro, Chicco, Davide, Masseroli, Marco

Journal:

BMC Bioinformatics

Année:

2015

Langue:

english

Fichier:

PDF, 1.37 MB

english, 2015

11

Data Management for Heterogeneous Genomic Datasets

Ceri, Stefano, Kaitoua, Abdulrahman, Masseroli, Marco, Pinoli, Pietro, Venco, Francesco

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Année:

2016

Langue:

english

Fichier:

PDF, 4.47 MB

english, 2016

12

Framework for Supporting Genomic Operations

Kaitoua, Abdulrahman, Pinoli, Pietro, Bertoni, Michele, Ceri, Stefano

Journal:

IEEE Transactions on Computers

Année:

2016

Langue:

english

Fichier:

PDF, 5.58 MB

english, 2016

13

Modeling and interoperability of heterogeneous genomic big data for integrative processing and querying

Masseroli, Marco, Kaitoua, Abdulrahman, Pinoli, Pietro, Ceri, Stefano

Journal:

Année:

2016

Langue:

english

Fichier:

PDF, 2.57 MB

english, 2016

14

[ACM Press the 4th Algorithms and Systems - Chicago, IL, USA (2017.05.14-2017.05.19)] Proceedings of the 4th Algorithms and Systems on MapReduce and Beyond - BeyondMR'17 - Bi-Dimensional Binning for Big Genomic Datasets

Cattani, Simone, Ceri, Stefano, Kaitoua, Abdulrahman, Pinoli, Pietro

Année:

2017

Langue:

english

Fichier:

PDF, 1.76 MB

english, 2017

15

[IEEE 2017 International Conference on High Performance Computing & Simulation (HPCS) - Genoa, Italy (2017.7.17-2017.7.21)] 2017 International Conference on High Performance Computing & Simulation (HPCS) - Scalable Genomic Data Management System on the Cloud

Kaitoua, Abdulrahman, Gulino, Andrea, Masseroli, Marco, Pinoli, Pietro, Ceri, Stefano

Année:

2017

Langue:

english

Fichier:

PDF, 638 KB

english, 2017

16

Metadata management for scientific databases

Pinoli, Pietro, Ceri, Stefano, Martinenghi, Davide, Nanni, Luca

Journal:

Information Systems

Année:

2018

Langue:

english

Fichier:

PDF, 899 KB

english, 2018

17

[ACM Press the 27th ACM International Conference - Torino, Italy (2018.10.22-2018.10.26)] Proceedings of the 27th ACM International Conference on Information and Knowledge Management - CIKM '18 - Demonstration of GenoMetric Query Language

Ceri, Stefano, Canakoglu, Arif, Gulino, Andrea, Kaitoua, Abdulrahman, Masseroli, Marco, Nanni, Luca, Pinoli, Pietro

Année:

2018

Langue:

english

Fichier:

PDF, 1.46 MB

english, 2018

18

TICA: Transcriptional Interaction and Coregulation Analyzer

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

Journal:

Genomics, Proteomics & Bioinformatics

Année:

2018

Fichier:

PDF, 913 KB

2018

19

TICA: Transcriptional Interaction and Coregulation Analyzer

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

Journal:

Genomics, Proteomics & Bioinformatics

Année:

2018

Langue:

english

Fichier:

PDF, 913 KB

english, 2018

20

[IEEE 2018 IEEE International Conference on Big Data (Big Data) - Seattle, WA, USA (2018.12.10-2018.12.13)] 2018 IEEE International Conference on Big Data (Big Data) - DLA: a Distributed, Location-based and Apriori-based Algorithm for Biological Sequence Pattern Mining

Stamoulakatou, Eirini, Gulino, Andrea, Pinoli, Pietro

Année:

2018

Fichier:

PDF, 8 KB

2018

21

[ACM Press the 5th International Workshop - Houston, TX, USA (2018.06.15-2018.06.15)] Proceedings of the 5th International Workshop on Exploratory Search in Databases and the Web - ExploreDB 2018 - Exploring Genomic Datasets

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

Année:

2018

Langue:

english

Fichier:

PDF, 866 KB

english, 2018

22

PyGMQL: scalable data extraction and analysis for heterogeneous genomic datasets

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

Journal:

BMC Bioinformatics

Année:

2019

Langue:

english

Fichier:

PDF, 1.45 MB

english, 2019

23

PyGMQL: scalable data extraction and analysis for heterogeneous genomic datasets

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

Journal:

BMC Bioinformatics

Année:

2019

Fichier:

PDF, 1.45 MB

2019

24

[ACM Press the 10th ACM International Conference - Niagara Falls, NY, USA (2019.09.07-2019.09.10)] Proceedings of the 10th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics - BCB '19 - Drug Repositioning Predictions by Non-Negative Matrix Tri-Factorization of Integrated Association Data

Dissez, Gaëtan, Ceddia, Gaia, Pinoli, Pietro, Ceri, Stefano, Masseroli, Marco

Année:

2019

Fichier:

PDF, 2.02 MB

2019

25

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

Pinoli, Pietro, Stamoulakatou, Eirini, Nguyen, An-Phi, Rodríguez Martínez, María, Ceri, Stefano, Paliouras, Miltiadis

Journal:

Année:

2020

Langue:

english

Fichier:

PDF, 2.68 MB

english, 2020

26

[IEEE 2019 IEEE 19th International Conference on Bioinformatics and Bioengineering (BIBE) - Athens, Greece (2019.10.28-2019.10.30)] 2019 IEEE 19th International Conference on Bioinformatics and Bioengineering (BIBE) - Deleterious Impact of Mutational Processes on Transcription Factor Binding Sites in Human Cancer

Pinoli, Pietro, Stamoulakatou, Eirini, Ceri, Stefano, Piro, Rosario

Année:

2019

Fichier:

PDF, 695 KB

2019

27

[IEEE 2019 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - San Diego, CA, USA (2019.11.18-2019.11.21)] 2019 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) - Analysis and Visualization of Mutation Enrichments for Selected Genomic Regions and Cancer Types

Gulino, Andrea, Stamoulakatou, Eirini, Canakoglu, Arif, Pinoli, Pietro

Année:

2019

Langue:

english

Fichier:

PDF, 1.12 MB

english, 2019

28

Matrix Factorization-based Technique for Drug Repurposing Predictions

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

Journal:

IEEE Journal of Biomedical and Health Informatics

Année:

2020

Fichier:

PDF, 477 KB

2020

29

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

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

Journal:

Année:

2020

Fichier:

PDF, 1.08 MB

2020

30

ViruSurf: an integrated database to investigate viral sequences

Canakoglu, Arif, Pinoli, Pietro, Bernasconi, Anna, Alfonsi, Tommaso, Melidis, DamianosÂ P, Ceri, Stefano

Journal:

Nucleic Acids Research

Année:

2020

Fichier:

PDF, 2.62 MB

2020

31

Federated sharing and processing of genomic datasets for tertiary data analysis

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

Journal:

Briefings in Bioinformatics

Année:

2020

Fichier:

PDF, 1.34 MB

2020