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1

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:

Year:

2018

Language:

english

File:

PDF, 327 KB

english, 2018

2

[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

Year:

2019

Language:

english

File:

PDF, 505 KB

english, 2019

3

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

Bernasconi, Anna, CANAKOGLU, ARIF, Masseroli, Marco, Ceri, Stefano

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2020

File:

PDF, 6.11 MB

2020

4

[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) - De Novo Sequence-Based Method for ncRPI Prediction using Structural Information

Leone, Michele, Galvani, Marta, Masseroli, Marco

Year:

2019

Language:

english

File:

PDF, 98 KB

english, 2019

5

Bio Search Computing: Bioinformatics web service integration for data-driven answering of complex Life Science questions

Marco Masseroli, Giorgio Ghisalberti, Stefano Ceri

Journal:

Procedia Computer Science

Year:

2011

Language:

english

File:

PDF, 420 KB

english, 2011

6

Engrailed-2 regulates genes related to vesicle formation and transport in cerebellar Purkinje cells

Martin I. Holst, Christian Maercker, Bogdan Pintea, Marco Masseroli, Christian Liebig, Jakob Jankowski, Andreas Miething, Julia Martini, Beat Schwaller, John Oberdick, Karl Schilling, Stephan L. Baade

Journal:

Molecular and Cellular Neuroscience

Year:

2008

Language:

english

File:

PDF, 2.67 MB

english, 2008

7

Cross-organism learning method to discover new gene functionalities

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

Journal:

Computer Methods and Programs in Biomedicine

Year:

2016

Language:

english

File:

PDF, 2.22 MB

english, 2016

8

Bio-Search Computing: Integration and global ranking of bioinformatics search results

Masseroli, Marco, Ghisalberti, Giorgio, Ceri, Stefano

Journal:

Journal of Integrative Bioinformatics

Year:

2011

Language:

english

File:

PDF, 521 KB

english, 2011

9

[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

Year:

2017

Language:

english

File:

PDF, 638 KB

english, 2017

10

Trends in biomedical engineering: focus on Genomics and Proteomics

Pattini, Linda, Bertacco, Riccardo, Candiani, Gabriele, Masseroli, Marco, Servi, Stefano

Journal:

Journal of Applied Biomaterials & Biomechanics

Year:

2011

Language:

english

File:

PDF, 413 KB

english, 2011

11

Computational algorithms to predict Gene Ontology annotations

Pinoli, Pietro, Chicco, Davide, Masseroli, Marco

Journal:

BMC Bioinformatics

Year:

2015

Language:

english

File:

PDF, 1.37 MB

english, 2015

12

Role of Intrarenal Endothelin 1, Endothelin 3, and Angiotensin II Expression in Chronic Cyclosporin A Nephrotoxicity in Rats

Ramírez, César, Olmo, Asunción, O’Valle, Francisco, Masseroli, Marco, Aguilar, Mariano, Gómez-Morales, Mercedes, Revelles, Francisco, García-Chicano, María José, Arrebola, Francisco, Reguero, María Eu

Journal:

Nephron Experimental Nephrology

Year:

2000

Language:

english

File:

PDF, 899 KB

english, 2000

13

SMfinder: Small Molecules Finder for Metabolomics and Lipidomics analysis

Martano, Giuseppe, Leone, Michele, D'oro, Pierluca, Matafora, Vittoria, Cattaneo, Angela, Masseroli, Marco, Bachi, Angela

Journal:

Analytical Chemistry

Year:

2020

File:

PDF, 880 KB

2020

14

Performance of Combinatorial Peptide Libraries in Capturing the Low-Abundance Proteome of Red Blood Cells. 2. Behavior of Resins Containing Individual Amino Acids

Bachi, Angela, Simó, Carolina, Restuccia, Umberto, Guerrier, Luc, Fortis, Frederic, Boschetti, Egisto, Masseroli, Marco, Righetti, Pier Giorgio

Journal:

Analytical Chemistry

Year:

2008

Language:

english

File:

PDF, 860 KB

english, 2008

15

Quality Control of Cervical Cytology in High-Risk Women

Bergeron, Christine, Masseroli, Marco, Ghezi, Ariane, Lemarie, Anne, Mango, Laurie, Koss, Leopold G.

Journal:

Acta Cytologica

Year:

2000

Language:

english

File:

PDF, 89 KB

english, 2000

16

Association rule mining to identify transcription factor interactions in genomic regions

Ceddia, Gaia, Martino, Liuba Nausicaa, Parodi, Alice, Secchi, Piercesare, Campaner, Stefano, Masseroli, Marco, Birol, Inanc

Journal:

Year:

2019

Language:

english

File:

PDF, 493 KB

english, 2019

17

Association rule mining to identify transcription factor interactions in genomic regions

Ceddia, Gaia, Martino, Liuba Nausicaa, Parodi, Alice, Secchi, Piercesare, Campaner, Stefano, Masseroli, Marco, Birol, Inanc

Journal:

Year:

2019

File:

PDF, 493 KB

2019

18

He@lthCo-op: a web-based system to support distributed healthcare co-operative work

Marco Masseroli, Alberto Visconti, Simone Giovanni Bano, Francesco Pinciroli

Journal:

Computers in Biology and Medicine

Year:

2006

Language:

english

File:

PDF, 807 KB

english, 2006

19

Automatic quantification of liver fibrosis: design and validation of a new image analysis method: comparison with semi-quantitative indexes of fibrosis

Marco Masseroli, Trinidad Caballero, Francisco O'Valle, Raimundo M.G.Del Moral, Alejandro Pérez-Milena, Raimundo G.Del Moral

Journal:

Journal of Hepatology

Year:

2000

Language:

english

File:

PDF, 1.58 MB

english, 2000

20

NETTAB 2012 on "Integrated Bio-Search"

Romano, Paolo, Lisacek, Frédérique, Masseroli, Marco

Journal:

BMC Bioinformatics

Year:

2014

Language:

english

File:

PDF, 120 KB

english, 2014

21

Integration and Querying of Genomic and Proteomic Semantic Annotations for Biomedical Knowledge Extraction

Masseroli, Marco, Canakoglu, Arif, Ceri, Stefano

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2015

Language:

english

File:

PDF, 865 KB

english, 2015

22

MuSERA: Multiple Sample Enriched Region Assessment

Jalili, Vahid, Matteucci, Matteo, Morelli, Marco J., Masseroli, Marco

Journal:

Briefings in Bioinformatics

Year:

2016

Language:

english

File:

PDF, 1.93 MB

english, 2016

23

Endometrioid Neoplasia Retrogressive Terminology

Bergeron, Christine, Nogales, Francisco F., Masseroli, Marco, Abeler, Vera, Duvillard, Pierre, Muller-Holzner, Elizabeth, Pickart, Heinz, Wells, Michael

Journal:

American Journal of Surgical Pathology

Year:

2000

Language:

english

File:

PDF, 44 KB

english, 2000

24

Novelty Indicator for Enhanced Prioritization of Predicted Gene Ontology Annotations

Chicco, Davide, Palluzzi, Fernando, Masseroli, Marco

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2017

Language:

english

File:

PDF, 4.27 MB

english, 2017

25

Automatic quantitation of cell colonies on petri dishes by computerized image analysis

Alberto Bollea, Marco Masseroli, Antonino Nicotra, Patrizia Beccaglia, Soumitra Sen, Eugenio Erba, Giovanna Balconi

Journal:

Year:

1995

Language:

english

File:

PDF, 730 KB

english, 1995

26

Detection of gene annotations and protein-protein interaction associated disorders through transitive relationships between integrated annotations

Masseroli, Marco, Canakoglu, Arif, Quigliatti, Massimiliano

Journal:

Year:

2015

Language:

english

File:

PDF, 2.31 MB

english, 2015

27

Automatic quantitative evaluation of autoradiographic band films by computerized image analysis

Marco Masseroli, Andrea Messori, Caterina Bendotti, Mauro Ponti, Gianluigi Forloni

Journal:

Year:

1993

Language:

english

File:

PDF, 573 KB

english, 1993

28

[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

Year:

2012

Language:

english

File:

PDF, 1007 KB

english, 2012

29

Using combined evidence from replicates to evaluate ChIP-seq peaks

Jalili, Vahid, Matteucci, Matteo, Masseroli, Marco, Morelli, Marco J

Journal:

Year:

2018

File:

PDF, 37 KB

2018

30

[IEEE 2020 International Joint Conference on Neural Networks (IJCNN) - Glasgow, United Kingdom (2020.7.19-2020.7.24)] 2020 International Joint Conference on Neural Networks (IJCNN) - Hybrid Evolutionary Framework for Selection of Genes Predicting Breast Cancer Relapse

Perino, Lorenzo, Cascianelli, Silvia, Masseroli, Marco

Year:

2020

File:

PDF, 1.40 MB

2020

31

Reference Module in Life Sciences || Biological and Medical Ontologies: Introduction

Masseroli, Marco

Year:

2018

Language:

english

File:

PDF, 639 KB

english, 2018

32

[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

Year:

2018

Language:

english

File:

PDF, 1.46 MB

english, 2018

33

MicroGen: a MIAME compliant web system for microarray experiment information and workflow management

Sarah Burgarella, Dario Cattaneo, Francesco Pinciroli, Marco Masseroli

Journal:

BMC Bioinformatics

Year:

2005

Language:

english

File:

PDF, 309 KB

english, 2005

34

Gingival overgrowth induced by nifedipine and cyclosporin : A Clinical and morphometric study with image analysis

Francisco O'Valle, Francisco Mesa, José Aneiros, Mercedes Gómez-Morales, Miguel Angel Lucena, César Ramírez, Francisco Revelles, Esther Moreno, Nieves Navarro, Trinidad Caballero, Marco Masseroli, Rai

Journal:

Journal of Clinical Periodontology

Year:

1995

Language:

english

File:

PDF, 5.43 MB

english, 1995

35

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

Year:

2016

Language:

english

File:

PDF, 4.47 MB

english, 2016

36

SPIE Proceedings [SPIE Photonics West 2001 - Electronic Imaging - San Jose, CA (Saturday 20 January 2001)] Internet Imaging II - Web tools for effective retrieval, visualization, and evaluation of cardiology medical images and records

Masseroli, Marco, Pinciroli, Francesco, Beretta, Giordano B., Schettini, Raimondo

Year:

2000

Language:

english

File:

PDF, 584 KB

english, 2000

37

Searching for specific motifs in affinity capture in proteome analysis

Marco Masseroli, Angela Bachi, Egisto Boschetti, Pier Giorgio Righetti

Journal:

Journal of Proteomics

Year:

2009

Language:

english

File:

PDF, 484 KB

english, 2009

38

Liver fibrosis assessment with semiquantitative indexes and image analysis quantification in sustained-responder and non-responder interferon-treated patients with chronic hepatitis C

Trinidad Caballero, Alejandro Pérez-Milena, Marco Masseroli, Francisco O'Valle, Francisco J Salmerón, Raimundo M.G Del Moral, Guillermo Sánchez-Salgado

Journal:

Journal of Hepatology

Year:

2001

Language:

english

File:

PDF, 928 KB

english, 2001

39

[IEEE 2006 International Conference of the IEEE Engineering in Medicine and Biology Society - New York, NY, USA (2006.08.30-2006.09.3)] 2006 International Conference of the IEEE Engineering in Medicine and Biology Society - A Web Application for Managing Data of Cardiovascular Risk Patients

Bonacina, Stefano, Masseroli, Marco

Year:

2006

Language:

english

File:

PDF, 174 KB

english, 2006

40

Ontology-Based Search of Genomic Metadata

Fernandez, Javier, Lenzerini, Maurizio, Masseroli, Marco, Venco, Francesco, Ceri, Stefano

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2015

Language:

english

File:

PDF, 2.11 MB

english, 2015

41

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

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

Journal:

Year:

2016

Language:

english

File:

PDF, 2.57 MB

english, 2016

42

Reference Module in Life Sciences || Biological and Medical Ontologies: GO and GOA

Masseroli, Marco

Year:

2018

Language:

english

File:

PDF, 288 KB

english, 2018

43

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

Year:

2020

File:

PDF, 1.34 MB

2020

44

Quantification of intramural calcification in coronary intravascular ultrasound images with automated image analysis

Marco Masseroli, Robert M. Cothren, Dominik S. Meier, E.Murat Tuzcu, D.Geoffrey Vince, Steven E. Nissen, James D. Thomas, J.Fredrick Cornhill

Journal:

American Heart Journal

Year:

1998

Language:

english

File:

PDF, 222 KB

english, 1998

45

Ontology-Based Prediction and Prioritization of Gene Function Annotations

Chicco, Davide, Masseroli, Marco

Journal:

IEEE/ACM Transactions on Computational Biology and Bioinformatics

Year:

2015

Language:

english

File:

PDF, 565 KB

english, 2015

46

[IEEE Conference Proceedings. Annual International Conference of the IEEE Engineering in Medicine and Biology Society - New York, NY (2006.08.30-2006.09.3)] 2006 International Conference of the IEEE Engineering in Medicine and Biology Society - A Web Application for Managing Data of Cardiovascular Risk Patients

Bonacina, Stefano, Masseroli, Marco

Year:

2006

Language:

english

File:

PDF, 174 KB

english, 2006

47

Search and comparison of (epi)genomic feature patterns in multiple genome browser tracks

Ceol, Arnaud, Montanari, Piero, Bartolini, Ilaria, Ceri, Stefano, Ciaccia, Paolo, Patella, Marco, Masseroli, Marco

Journal:

BMC Bioinformatics

Year:

2020

File:

PDF, 2.03 MB

2020

48

Pattern Similarity Search in Genomic Sequences

Montanari, Piero, Bartolini, Ilaria, Ciaccia, Paolo, Patella, Marco, Ceri, Stefano, Masseroli, Marco

Journal:

IEEE Transactions on Knowledge and Data Engineering

Year:

2016

Language:

english

File:

PDF, 2.64 MB

english, 2016

49

[IEEE 2010 IEEE International Conference on BioInformatics and BioEngineering - Philadelphia, PA, USA (2010.05.31-2010.06.3)] 2010 IEEE International Conference on BioInformatics and BioEngineering - Prediction of Gene Ontology Annotations Based on Gene Functional Clustering

Tagliasacchi, Marco, Sarati, Roberto, Masseroli, Marco

Year:

2010

Language:

english

File:

PDF, 178 KB

english, 2010

50

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:

Year:

2015

Language:

english

File:

PDF, 104 KB

english, 2015

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