2025
2024
- Marinello E, Tavazzi E, Longato E, Bosoni P, Dagliati A, Vazifehdan M, Bellazzi R, Trescato I, Guazzo A, Vettoretti M, Tavazzi E, Ahmad L, Bergamaschi R, Cavalla P, Manera, U, Chiò A, Di Camillo B. Machine Learning Models Highlight the Impact of Pollution and Weather Patterns on Relapse Occurrence in Multiple Sclerosis Patients. IEEE International Conference on Bioinformatics and Biomedicine (BIBM) 2024
- Di Liberto G, Nidiffer A, Crosse M, Zuk M, Haro S, Cantisani G, Winchester M, Igoe A, McCrann R, Chandra S, Lalor E, Baruzzo G. A standardised open science framework for sharing and re-analysing neural data acquired to continuous stimuli. Neurons, Behavior, Data analysis and Theory 2024
- Marinello E, Tavazzi E, Longato E, Bosoni P, Dagliati A, Vazifehdan M, Bellazzi R, Trescato I, Guazzo A, Vettoretti M, Tavazzi E, Ahmad L, Bergamaschi R, Cavalla P, Manera U, Chiò A, Di Camillo B. Exploring the Impact of Environmental Pollutants on Multiple Sclerosis Progression. In: Proc. 19th International Conference on Computational Intelligence methods for Bioinformatics and Biostatistics (CIBB) 2024.
- Dei Cas D, Di Camillo B, Fadini GP, Sparacino G and Longato E. Effect of Clinical History on Predictive Model Performance for Renal Complications of Diabetes. In: Proc. 19th International Conference on Computational Intelligence methods for Bioinformatics and Biostatistics (CIBB) 2024.
- Poletto S, Longato E, Tavazzi E, Vettoretti M. Comparing Propensity Score-Based Methods in Estimating the Treatment Effect: A Simulation Study. In: Proc. 19th International Conference on Computational Intelligence methods for Bioinformatics and Biostatistics (CIBB) 2024.
- Gottardelli B, Gatta R, Nucciarelli L, Tudor AM, Tavazzi E, Orini S, Vallati M, Di Giorgi N, Damiani A. GEN-RWD Sandbox: Bridging the Gap Between Hospital Data Privacy and External Research Insights with Distributed Analytics. BMC Med Inform Decis Mak 2024
- Roversi C, Tavazzi E, Vettoretti M, Di Camillo B. A Dynamic Probabilistic Model of the Onset and Interaction of Cardio-metabolic Comorbidities. Sci Rep 2024
2023
- Guazzo A, Longato E, Fadini GP, Morieri ML, Sparacino G, Di Camillo B. Explainable Deep-Learning Model Reveals Past Cardiovascular Disease in Patients with Diabetes Using Free-Form Visit Reports. Lecture Notes in Computer Science
- Guazzo A, Trescato I, Longato E, Tavazzi E, Vettoretti M, Di Camillo B. Baseline Machine Learning Approaches To Predict Multiple Sclerosis Disease Progression. CLEF 2023 Working Notes, CEUR Workshop Proceedings 2023
- Trescato I., Roversi C., Vettoretti M., Di Camillo B., Facchinetti A. A model to forecast the two-year variation of subjective wellbeing in the elderly population. BMC Med Inform and Decis Mak 2023
- Guazzo A, Longato E, Fadini GP, Morieri ML, Sparacino G, Di Camillo B. Deep-learning-based natural-language-processing models to identify cardiovascular disease hospitalisations of patients with diabetes from routine visits’ text. Sci Rep 2023.
- Lee Y, Cappellato M, Di Camillo B. Machine learning-based feature selection to search stable microbial biomarkers: application to inflammatory bowel disease. Gigascience. 2023
- Bellato M, Cappellato M, Longhin F, Del Vecchio C, Brancaccio G, Cattelan AM, Brun P, Salaris C, Castagliuolo I, Di Camillo B. Uncover a microbiota signature of upper respiratory tract in patients with SARS-CoV-2+. Sci Rep. 2023
- Tavazzi E, Roversi C, Vettoretti M, Di Camillo B. Investigating the Dynamics of Cardio-metabolic Comorbidities and Their Interactions in Ageing Adults through Dynamic Bayesian Networks, In: 6th Workshop on Artificial Intelligence for Aging, Rehabilitation, and Intelligent Assisted Living (ARIAL) 2023.
- Faggioli G, Guazzo A, Marchesin S, Menotti L, Trescato I, Aidos H, Bergamaschi R, Birolo G, Paola Cavalla P, Chiò A, Dagliati A, de Carvalho M, Di Nunzio G M, Fariselli P, García Dominguez J M, Gromicho M, Longato E, C Madeira S C, Manera U, Silvello G, Tavazzi E, Tavazzi E, Vettoretti M, Di Camillo B, Ferro N. Intelligent Disease Progression Prediction: Overview of iDPP@ CLEF 2023. Lect Notes in Comp Science (LNCS) 2023
- Faggioli G, Guazzo A, Marchesin S, Menotti L, Trescato I, Aidos H, Bergamaschi R, Birolo G, Cavalla P, Chiò A, Dagliati A, de Carvalho M, Di Nunzio GM, Fariselli P , García Dominguez LM, Gromicho M, Longato E, Madeira SC, Manera U, Silvello G, Tavazzi E, Tavazzi E, Vettoretti M, Di Camillo B, Ferro N. Overview of iDPP@ CLEF 2023: the intelligent disease progression prediction challenge. In: Int Conf of the Cross-Language Ev Forum for Europ Lan. Cham: Springer Nat Switz, 2023
- Gottardelli B, Nucciarelli L, Tavazzi E, Damiani A. GEN-RWD Sandbox: A Modular Architecture for Privacy-preserving Data Sharing for AI-driven Medical Research. In: Proc. 18th International Conference on Computational Intelligence methods for Bioinformatics and Biostatistics (CIBB) 2023.
- Trescato I, Tavazzi E, Vettoretti M, Vasta R, Chiò A, Di Camillo B. Identifying extreme profiles in amyotrophic lateral sclerosis patients at diagnosis through archetypal analysis. In: Proc. VIII Congress of the National Group of Bioengineering (GNB 2023).
- Longato E, Tavazzi E, Chiò A, Sparacino G, Di Camillo B. Dynamic Bayesian Networks and Transfer Learning Enable the Development of Deep Sequence-Based Models on Small-Sample Data. In: Proc. VIII Congress of the National Group of Bioengineering (GNB 2023).
- Tavazzi E, Albertini D, Vettoretti M. Development of predictive models for short-term prediction of disability progression in multiple sclerosis. In: Proc. VIII Congress of the National Group of Bioengineering (GNB 2023).
- Longato E, Tavazzi E, Chiò A, Mora G, Sparacino G, Di Camillo B. Dealing with Data Scarcity in Rare Diseases: Dynamic Bayesian Networks and Transfer Learning to Develop Prognostic Models of Amyotrophic Lateral Sclerosis, In: Proc. of the 21st International Conference of Artificial Intelligence in Medicine (AIME) 2023.
- Tavazzi E, Longato E, Vettoretti M, Aidos H, Trescato I, Roversi C, Martins AS, Castanho EN, Branco R, Soares DF, Guazzo A, Birolo G, Pala D, Bosoni P, Chiò A, Manera U, de Carvalho M, Miranda B, Gromicho M, Alves I, Bellazzi R, Dagliati A, Fariselli P, Madeira SC, Di Camillo B. Artificial Intelligence and Statistical Methods for Stratification and Prediction of Progression in amyotrophic lateral sclerosis: A Systematic Review. Artif Intell Med 2023.
- Panariello F, Gagliano O, Luni C, Grimaldi A, Angiolillo S, Qin W, Manfredi A, Annunziata P, Slovin S, Vaccaro L, Riccardo S, Bouche V, Dionisi M, Salvi M, Martewicz S, Hu M, Cui M, Stuart H, Laterza C, Baruzzo G, Schiebinger G, Di Camillo B, Cacchiarelli D & Elvassore N. Cellular population dynamics shape the route to human pluripotency. Nat Comm 2023
- Khachatryan L, Xiang Y, Ivanov A, Glaab E, Graham G, Granata I, Giordano M, Maddalena L, Piccirillo M, Manipur I, Baruzzo G, Cappellato M, Avot B, Stan A, Battey J, Lo Sasso G, Boue S, Ivanov NV, Peitsch MC, Hoeng J, Falquet F, Di Camillo B, Guarracino M, Ulyantsev V, Sierro N, Poussin C. Results and Lessons Learned from the sbv IMPROVER Metagenomics Diagnostics for Inflammatory Bowel Disease Challenge. Sci Rep 2023
- Baruzzo G, Serafini A, Finotello F, Sanavia T, Cioetto-Mazzabò L, Boldrin F, Lavezzo E, Barzon L, Toppo S, Provvedi R, Manganelli R, Di Camillo B. Role of the Extracytoplasmic Function Sigma Factor SigE in the Stringent Response of Mycobacterium tuberculosis. Microbiol Spectr 2023
- Tavazzi E, Gatta R, Vallati M, Cotti Piccinelli S, Filosto M, Padovani A, Castellano M, Di Camillo B. Leveraging Process Mining for Modeling Progression Trajectories in Amyotrophic Lateral Sclerosis. BMC Medical Inform Decis Mak 2022
- Di Camillo B, Puricelli L, Iori E, Toffolo GM, Tessari P, Arrigoni G. Modeling SILAC Data to Assess Protein Turnover in a Cellular Model of Diabetic Nephropathy. Int J Mol Sci. 2023
2022
- Chicco D, Oneto L, Tavazzi E. Eleven quick tips for data cleaning and feature engineering. PLoS Comput Biol 2022
- Morieri ML, Longato E, Di Camillo B, Sparacino G, Avogaro A, Fadini GP. Management of type 2 diabetes with a treat-to-benefit approach improved long-term cardiovascular outcomes under routine care. Cardiovasc Diabetol 2022.
- Cuendet MA, Gatta R, Wicky A, Gerard CL, Dalla-Vale M, Tavazzi E, Michielin G, Delyon J, Fehrata N, Cesbron J, Lofek S, Huber A, Jankovic J, Demicheli R, Bouchaab H, Digklia A, Obeid M, Peters S, Eicher M, Prandervand S, Michielin O. A differential process mining analysis of COVID-19 management for cancer patients. Front Oncol 2022
- Cesaro G., Milia M., Baruzzo G., Finco G., Morandini F., Lazzarini A., Alotto P., de Miranda N.F., Trajanoski Z., Finotello F., Di Camillo B. MAST: a hybrid Multi-Agent Spatio-Temporal model of tumor microenvironment informed using a data-driven approach, Bioinformatics Advances 2022
- Cappellato M, Baruzzo G, Di Camillo B. Investigating differential abundance methods in microbiome data: A benchmark study. PLOS Computational Biology 2022
- Guazzo A, Trescato I, Hazizaj E., Longato E, Dosso D, Faggioli G, Di Nunzio G M, Silvello G, Vettoretti M, Tavazzi E, Roversi C, Fariselli P, Madeira S C, Alves de Carvalho M, Chiò A, Dagliati A, Birolo G, Aidos H, Di Camillo B, and Ferro N. Overview of iDPP@CLEF 2022: The Intelligent Disease Progression Prediction Challenge. In: Faggioli G, Ferro N, Hanbury A, Potthast M (Eds.), CLEF 2022 Working Notes, CEUR Workshop Proceedings (CEUR-WS.org), 2022
- Guazzo A, Trescato I, Hazizaj E., Longato E, Dosso D, Faggioli G, Di Nunzio G M, Silvello G, Vettoretti M, Tavazzi E, Roversi C, Fariselli P, Madeira S C, Alves de Carvalho M, Chiò A, Dagliati A, Birolo G, Aidos H, Di Camillo B, and Ferro N. Intelligent Disease Progression Prediction: Overview of iDPP@CLEF 2022. In: Barrón-Cedeño A, Da San Martino G, Degli Esposti M, Sebastiani F, Macdonald C, Pasi G, Hanbury A, Potthast M, Faggioli G, and Ferro N, (Eds.), Experimental IR Meets Multilinguality, Multimodality, and Interaction, Proceedings of the Thirteenth International Conference of the CLEF Association (CLEF 2022), Lecture Notes in Computer Science (LNCS) 2022
- Longato E, Di Camillo B, Sparacino G, Avogaro A, Fadini GP. Time-resolved trajectory of glucose lowering medications and cardiovascular outcomes in type 2 diabetes: a recurrent neural network analysis. Cardiovasc Diabetol 2022.
- Trescato I, Guazzo A, Longato E, Hazizaj E, Roversi C, Tavazzi E, Vettoretti M, Di Camillo B. Baseline Machine Learning Approaches To Predict Amyotrophic Lateral Sclerosis Disease Progression. In: Faggioli G, Ferro N, Hanbury A, Potthast M (Eds.), CLEF 2022 Working Notes, CEUR Workshop Proceedings (CEUR-WS.org) 2022
- Longato E, Morieri ML, Sparacino G, Di Camillo B, Cattelan A, Lo Menzo S, Trevenzoli M, Vianello A, Guarnieri G, Lionello F, Avogaro A, Fioretto P, Vettor R, Fadini GP. Time-series analysis of multidimensional clinical-laboratory data by dynamic Bayesian networks reveals trajectories of COVID-19 outcomes. Comput Methods Programs Biomed 2022.
- Guazzo A, Longato E, Morieri ML, Sparacino G, Franco-Novelletto B, Cancian M, Fusello M, Tramontan L, Battaggia A, Avogaro A, Fadini GP, Di Camillo B. Performance assessment across different care settings of a heart failure hospitalisation risk-score for type 2 diabetes using administrative claims. Scientific Reports 2022
- Tavazzi E, Daberdaku S, Zandonà A, Vasta R, Nefussy B, Lunetta C, Mora G, Mandrioli J, Grisan E, Tarlarini C, Calvo A, Moglia C, Gotkine M, Drory V, Chiò A, Di Camillo B. Predicting functional impairment trajectories in amyotrophic lateral sclerosis: a probabilistic, multifactorial model of disease progression. J Neurol 2022
- Baruzzo G, Patuzzi I, Di Camillo B. Beware to ignore the rare: how imputing zero-values can improve the quality of 16S rRNA gene studies results. BMC Bioinformatics 2022
- Baruzzo G, Cesaro G, Di Camillo B. Identify, quantify and characterize cellular communication from single cell RNA sequencing data with scSeqComm. Bioinformatics 2022
- Guazzo A, Longato E, Fadini GP, Sparacino G, Battaggia A, Franco-Novelletto B, Cancian M, Fusello M, Avogaro A, Di Camillo B. Comparing the Predictive Power of Heart Failure Hospitalisation Risk Scores in the Diabetic Outpatient Clinic and Primary Care Settings. In: Proc. IEEE International Conference on Bioinformatics and Biomedicine (BIBM) 2021
2021
- Trescato I, Tavazzi E, Vettoretti M, Vasta R, Chiò A, Di Camillo B. Identifying prototype model patients in Amyotrophic Lateral Sclerosis patients at diagnosis through Archetypal Analysis. In: Proc. 17th International Conference on Computational Intelligence methods for Bioinformatics and Biostatistics (CIBB) 2021.
- Tavazzi E, Gatta R, Vallati M, Cotti Piccinelli S, Filosto M, Castellano M, Di Camillo B. Inspecting Progression Trajectories in Amyotrophic Lateral Sclerosis using Process Mining. In: Proc. 17th International Conference on Computational Intelligence methods for Bioinformatics and Biostatistics (CIBB) 2021
- Longato E, Di Camillo B, Sparacino G, Tramontan L, Avogaro A, Fadini GP. Cardiovascular Outcomes After Initiating GLP-1 Receptor Agonist or Basal Insulin for the Routine Treatment of Type 2 Diabetes: A Region-wide Retrospective Study. Cardiovasc Diabetol 2021.
- Longato E, Bonora BM, Di Camillo B, Sparacino G, Tramontan L, Avogaro A, Fadini GP. Outcomes of Patients with Type 2 Diabetes Treated with SGLT-2 Inhibitors Versus DPP-4 Inhibitors. An Italian Real-World Study in the Context of Other Observational Studies. Diabetes Res Clin Pract 2021.
- Roversi C, Tavazzi E, Vettoretti M, Di Camillo B. A Dynamic Bayesian Network model for simulating the progression to diabetes onset in the ageing population. In: Proc. 2021 IEEE-EMBS International Conference on Biomedical and Health Informatics (BHI) 2021
- Tangaro MA, Defazio G, Fosso B, Licciulli VF, Grillo G, Donvito G, Lavezzo E, Baruzzo G, Pesole G, Santamaria M. ITSoneWB: profiling global taxonomic diversity of eukaryotic communities on Galaxy. Bioinformatics 2021.
- Longato E, Fadini GP, Sparacino G, Avogaro A, Di Camillo B. Recurrent Neural Network to Predict Renal Function Impairment in Diabetic Patients via Longitudinal Routine Check-Up Data. In: Proc. of the 19th International Conference on Artificial Intelligence in Medicine (AIME) 2021.
- Ghisoni E, Wicky AM, Bouchaab H, Imbimbo M, Delyon J, Gautron Moura B, Gérard CL, Latifyan S, Özdemir BC, Caikovski M, Pradervand S, Tavazzi E, Gatta R, Marandino L, Valabrega G, Aglietta M, Obeid M, Homicsko K, Mederos-Alfonso NN , Zimmermann S, Coukos G, Peters S, Cuendet MA, Di Maio M, and Michielin O. Late-onset and long-lasting immune-related adverse events from immune checkpoint inhibitors: An overlooked aspect in immunotherapy. Eur J Cancer 2021
- Longato E, Fadini GP, Sparacino G, Avogaro A, Tramontan L, Di Camillo B. A Deep Learning Approach to Predict Diabetes’ Cardiovascular Complications From Administrative Claims. IEEE J Biomed Health Inform 2021.
- Longato E, Di Camillo B, Sparacino G, Tramontan L, Avogaro A, Fadini GP. Cardiovascular effectiveness of human-based vs. exendin-based glucagon like peptide-1 receptor agonists: a retrospective study in patients with type 2 diabetes. Eur J Prev Cardiol 2021.
2020
- Tavazzi E, Gérard CL, Michielin O, Wicky A, Gatta R, Cuendet M. A Process Mining approach to statistical analysis: application to a real-world advanced melanoma dataset. Lect. Notes Bus. Inf. Process 2020
- Tanevski J, Nguyen T, Truong B, Karaiskos N, Ahsen ME, Zhang X, Shu C, Xu K, Liang X, Hu Y, Pham HV, Xiaomei L, Le TD, Tarca AL, Bhatti G, Romero R, Karathanasis N, Loher P, Chen Y, Ouyang Z, Mao D, Zhang Y, Zand M, Ruan J, Hafemeister C, Qiu P, Tran D, Nguyen T, Gabor A, Yu T, Guinney J, Glaab E, Krause R, Banda P, DREAM SCTC Consortium, Stolovitzky G, Rajewsky N, Saez-Rodriguez J, Meyer P. Gene selection for optimal prediction of cell position in tissues from single-cell transcriptomics data. Life Sci Alliance 2020
- Cappellato M, Baruzzo G, Patuzzi I, Di Camillo B. Modeling Microbial Community Networks: Methods and Tools. Current Genomics 2020
- Gatta R, Vallati M, Fernandez-Llatas C, Martinez-Millana A, Orini S, Sacchi L, Lenkowicz J, Marcos M, Munoz-Gama J, Cuendet M, De Bari B, Marco-Ruiz L, Stefanini A, Valero-Ramon Z, Michielin O, Lapinskas T, Montvila A, Martin N, Tavazzi E, and Castellano M. What Role can Process Mining play in recurrent Clinical Guidelines issues? A Position Paper. International Journal of Environmental Research and Public Health 2020
- Tavazzi E, Daberdaku S, Vasta R, Calvo A, Chiò A, Di Camillo B. Exploiting mutual information for the imputation of static and dynamic mixed-type clinical data with an adaptive k-nearest neighbours approach. BMC Med Inform Decis Mak 2020
- Vettoretti M, Longato E, Zandonà A, Li Y, Pagán JA, Siscovick D, Carnethon MR, Bertoni AG, Facchinetti A, Di Camillo B. Addressing practical issues of predictive models translation into everyday practice and public health management: a combined model to predict the risk of type 2 diabetes improves incidence prediction and reduces the prevalence of missing risk predictions. BMJ Open Diabetes Res Care 2020
- Longato E, Vettoretti M, Di Camillo B. A practical perspective on the concordance index for the evaluation and selection of prognostic time-to-event models. J Biomed Inform 2020
- Longato E, Di Camillo B, Sparacino G, Gubian L, Avogaro A, Fadini GP. Cardiovascular outcomes of type 2 diabetic patients treated with SGLT-2 inhibitors versus GLP-1 receptor agonists in real-life. BMJ Open Diabetes Res Care 2020
- Comin M, Di Camillo B, Pizzi C, Vandin F. Comparison of microbiome samples: methods and computational challenges. Brief Bioinform 2020
- Longato E, Di Camillo B, Sparacino G, Tramontan L, Avogaro A, Fadini GP. Better cardiovascular outcomes of type 2 diabetic patients treated with GLP-1 receptor agonists versus DPP-4 inhibitors in clinical practice. Cardiovasc Diabetol 2020
- Fadini GP, Morieri ML, Longato E, Bonora BM, Pinelli S, Selmin E, Voltan G, Falaguasta D, Tresso S, Costantini G, Sparacino G, Di Camillo B, Tramontan L, Cattelan AM, Vianello A, Fioretto P, Vettor R, Avogaro A. Exposure to dipeptidyl-peptidase-4 inhibitors and COVID-19 among people with type 2 diabetes: A case-control study. Diabetes Obes Metab 2020
- Fadini GP, Morieri ML, Longato E, Avogaro A. Prevalence and impact of diabetes among people infected with SARS-CoV-2. J Endocrinol Invest 2020.
- Daberdaku S, Tavazzi E, Di Camillo B. A Combined Interpolation and Weighted K-Nearest Neighbours Approach for the Imputation of Longitudinal ICU Laboratory Data. Journal of Healthcare Informatics Research 2020
- Longato E, Di Camillo B, Sparacino G, Saccavini C, Avogaro A, Fadini GP. Diabetes diagnosis from administrative claims and estimation of the true prevalence of diabetes among 4.2 million individuals of the Veneto region (North East Italy). Nutr Metab Cardiovasc Dis 2020
2019
- Patuzzi I, Baruzzo G, Losasso C, Ricci A, Di Camillo B. metaSPARSim: a 16S rRNA gene sequencing count data simulator. BMC Bioinformatics 2019
- Daberdaku S, Tavazzi E, Di Camillo B. Interpolation and K-Nearest Neighbours Combined Imputation for Longitudinal ICU Laboratory Data. In: 2019 IEEE International Conference on Healthcare Informatics (ICHI)
- Baruzzo G, Patuzzi I, Di Camillo B. SPARSim single cell: a count data simulator for scRNA-seq data. Bioinformatics 2019
- Tavazzi E, Daberdaku S, Zandonà A, Vasta R, Calvo A, Chiò A, and Di Camillo B. An Adaptive K-Nearest Neighbours Algorithm for the Imputation of Static and Dynamic Mixed-Type Clinical Data. In: Proc. 16th International Conference on Computational Intelligence methods for Bioinformatics and Biostatistics (CIBB), pp. 285-284, Bergamo (2019).
- Trojani A , Pungolino E, Dal Molin A, Lodola M, Rossi G, D’Adda M, Perego A, Elena C, Turrini M, Borin L, Bucelli C, Malato S, Carraro MC, Spina F, Latargia ML, Artale S, Spedini P, Anghilieri M, Di Camillo B, Baruzzo G, et al. Nilotinib interferes with cell cycle, ABC transporters and JAK-STAT signaling pathway in CD34+/lin- cells of patients with chronic phase chronic myeloid leukemia after 12 months of treatment. Plos One 2019
- Comoretto RI, Gasparetto T, Tavazzi E, and Gregori D. Towards Value-Based Healthcare and the Role of Regional Agencies: the Approach of the Veneto Region. Epidemiology, Biostatistics and Public Health 2019
- Dereli Eke E, Arga KY, Dikicioglu D, Eraslan S, Erkol E, Celik A, Kirdar B, Di Camillo B. Identification of Novel Components of Target-of-Rapamycin Signaling Pathway by Network-Based Multi-Omics Integrative Analysis. OMICS 2019
- Zandonà A, Vasta R, Chiò A, Di Camillo B. A Dynamic Bayesian Network model for the simulation of Amyotrophic Lateral Sclerosis progression. BMC Bioinform 2019
- Kueffner R, Zach N, Bronfeld M, Norel R, Atassi N, Balagurusamy V, Di Camillo B, Chiò A, Cudkowicz M and others. Stratification of amyotrophic lateral sclerosis patients: a crowdsourcing approach. Sci Rep 2019
2018
- Sambo F, Finotello F, Lavezzo E, Baruzzo G, Masi G, Peta E, Falda M, Toppo S, Barzon L, Di Camillo B. Optimizing PCR primers targeting the bacterial 16S ribosomal RNA gene. BMC Bioinform 2018
- van Zuydam NR, Ahlqvist E, Sandholm N, Deshmukh H, Rayner NW, Abdalla M, Ladenvall C, Ziemek D, Fauman E, Robertson NR, McKeigue PM et al. A Genome-Wide Association Study of Diabetic Kidney Disease in Subjects With Type 2 Diabetes. Diabetes 2018
- Di Camillo B, Hakaste L, Sambo F, Gabriel R, Kravic J, Isomaa B, Tuomilehto J, Alonso M, Longato E, Facchinetti A, C Groop L, Cobelli C and Tuomi T. HAPT2D: high accuracy of prediction of T2D with a model combining basic and advanced data depending on availability. European Journal of Endocrinology 2018
- Pungolino E, Rossi G, De Canal G, Trojani A, D’adda M, Perego A, Orlandi EM, Lunghi F, Turrini M, Borin L, Iurlo A, Latargia ML, Carraro MC, Spina F, Lodola M, Artale S, Anghilieri M, Spedini P, Cantoni S, Di Camillo B, Morra E, Cairoli R. Nilotinib induced bone marrow CD34+/lin-Ph+ cells early clearance in newly diagnosed CP-chronic myeloid leukemia. Am J Hematol 2018
- Dal Molin A, Di Camillo B. How to design a single-cell RNA-sequencing experiment: pitfalls, challenges and perspectives. Briefings in Bioinformatics 2018
- Peta E, Sinigaglia A, Masi G, Di Camillo B, Grassi A, Trevisan M, Messa L, Loregian A, Manfrin E, Brunelli M, Martignoni G, Palù G, Barzon L. HPV16 E6 and E7 upregulate the histone lysine demethylase KDM2B through the c-MYC/miR-146a-5p axys. Oncogene 2018
- Etna MP, Sinigaglia A, Grassi A, Giacomini E, Romagnoli A, Pardini M, Severa M, Cruciani M, Rizzo F, Anastasiadou E, Di Camillo B, Barzon L, Fimia GM, Manganelli R, Coccia EM. Mycobacterium tuberculosis-induced miR-155 subverts autophagy by targeting ATG3 in human dendritic cells. PLos Pathogens 2018
2017
- Ferraresso S, Aricò A, Sanavia T, Da Ros S, Milan M, Cascione L, Comazzi S, Martini V, Giantin M, Di Camillo B, Mazzariol S, Giannuzzi D, Marconato L, Aresu L. DNA methylation profiling reveals common signatures of tumorigenesis and defines epigenetic prognostic subtypes of canine Diffuse Large B-cell Lymphoma. Scientific Reports 2017
- Lahens NF, Ricciotti E, Smirnova O, Toorens E, Kim EJ, Baruzzo G, Hayer KE, Ganguly T, Schug J, Grant GR. A comparison of Illumina and Ion Torrent sequencing platforms in the context of differential gene expression. BMC Genomics 2017
- Dal Molin A, Baruzzo G, Di Camillo B. Single-Cell RNA-Sequencing: Assessment of Differential Expression Analysis Methods. Frontiers in Genetics 2017
- Giaretta A, Rocca B, Di Camillo B, Toffolo GM, Patrono C. In Silico Modeling of the Antiplatelet Pharmacodynamics of Low-dose Aspirin in Health and Disease. Clin Pharmacol Ther 2017
- Peta E, Cappellesso R, Masi G, Sinigaglia A, Trevisan M, Grassi A, Di Camillo B, Vassarotto E, Fassina A, Palù G, Barzon L. Down-regulation of microRNA-146a is associated with high-risk human papillomavirus infection and epidermal growth factor receptor overexpression in penile squamous cell carcinoma. Human Pathology 2017
- Sandholm N, Van Zuydam N, Ahlqvist E, Juliusdottir T, Deshmukh HA, Rayner NW, Di Camillo B, et al. The Genetic Landscape of Renal Complications in Type 1 Diabetes. J Am Soc Nephrol 2017
2016
- Finotello F, Mastrorilli E, Di Camillo B. Measuring the diversity of the human microbiota with targeted next-generation sequencing. Briefings in Bioinformatics 2016
- Franzin A, Sambo F, Di Camillo B. bnstruct: an R package for Bayesian Network structure learning in the presence of missing data. Bioinformatics 2016
- Baruzzo G, E Hayer K, Ji Kim E, Di Camillo B, A FitzGerald G, R Grant G. Simulation-based comprehensive benchmarking of RNA-seq aligners. Nature Methods 2016
- Noren DP, Long BL, Norel R, Rrhissorrakrai K, Hess K, Hu CW, Bisberg AJ, Schultz A, Engquist E, Liu L, Lin X, Chen GM, Xie H, Hunter GA, Boutros PC, Stepanov O, DREAM 9 AML-OPC Consortium (Di Camillo B within DREAM 9 AML-OPC Consortium), et al. A Crowdsourcing Approach to Developing and Assessing Prediction Algorithms for AML Prognosis. PLoS Computational Biology 2016
- Di Camillo B, Carlon A, Eduati F, Toffolo G. A rule-based model of insulin signalling pathway. BMC Systems Biology 2016
- Grassi A, Di Camillo B, Ciccarese F, Agnusdei V, Zanovello P, Amadori A, Finesso L, Indraccolo S, Toffolo GM. Reconstruction of gene regulatory modules from RNA silencing of IFN-α modulators: experimental set-up and inference method. BMC Genomics 2016
- Milan M, Matozzo V, Pauletto M, Di Camillo B, Giacomazzo M, Boffo L, Binato G, Marin MG, Patarnello T, Bargelloni L. Can ecological history influence response to pollutants? Transcriptomic analysis of Manila clam collected in different Venice lagoon areas and exposed to heavy metal. Aquatic Toxicology 2016
- Hill SM, Heiser LM, Cokelaer T, Unger M, Nesser NK, Carlin DE, Zhang Y, Sokolov A, Paull EO, Wong CK, Graim K, Bivol A, Wang H, Zhu F, Afsari B, Danilova LV, Favorov AV, Lee WS, Taylor D, Hu CW, Long BL, Noren DP, Bisberg AJ; HPN-DREAM Consortium, et al. Inferring causal molecular networks: empirical assessment through a community-based effort. Nature Methods 2016
2015
- Marini S, Trifoglio E, Barbarini N, Sambo F, Di Camillo B, Malovini A, Manfrini M, Cobelli C, Bellazzi R. A Dynamic Bayesian Network model for long-term simulation of clinical complications in type 1 diabetes. J Biomed Inform 2015
- Sanavia T, Finotello F, Di Camillo B. FunPat: function-based pattern analysis on RNA-seq time series data. BMC Genomics 2015
- Finotello F, Di Camillo B. Measuring differential gene expression with RNA-seq: challenges and strategies for data analysis. Briefings in Functional Genomics 2015
- Pegolo S, Di Camillo B, Montesissa C, Cannizzo FT, Biolatti B, Bargelloni L. Toxicogenomic markers for corticosteroid treatment in beef cattle: Integrated analysis of transcriptomic data. Food and Chemical Toxicology 2015
2014
- Visentin S, Grumolato F, Nardelli GB, Di Camillo B, Grisan E, Cosmi E. Early origins of adult disease: Low birth weight and vascular remodeling. Atherosclerosis 2014
- Sinigaglia A, Lavezzo E, Trevisan M, Sanavia T, Di Camillo B, Peta E, Scarpa M, Castagliuolo I, Guido M, Sarcognato S, Cappellesso R, Fassina A, Cardin R, Farinati F, Palù G, Barzon L. Changes in microRNA expression during disease progression in patients with chronic viral hepatitis. Liver Int. 2014
- Bansal M, et al. A community computational challenge to predict the activity of pairs of compounds. Nat Biotechnol. 2014
- Fadista J et al. Global genomic and transcriptomic analysis of human pancreatic islets reveals novel genes influencing glucose metabolism. Proceedings of the National Academy of Sciences 2014
- Nasso S, Hartler J, Trajanoski Z, Di Camillo B, Mechtlere K, Toffolo G. 3DSpectra: A 3-dimensional quantification algorithm for LC-MS labeled profile data. Journal of Proteomics 2014
- Sambo F, Di Camillo B, Toffolo G and Cobelli C. Compression and fast retrieval of SNP data. Bioinformatics 2014
- C Costello J et al. A community effort to assess and improve drug sensitivity prediction algorithms. Nature Biotechnology 2014
- Sambo F, Malovini A, Sandholm N, et al. Novel genetic susceptibility loci for diabetic end-stage renal disease identified through robust naive Bayes classification. Diabetologia 2014
- Di Camillo B, Eduati F, Nair SK, Avogaro A, Toffolo GM. Leucine modulates dynamic phosphorylation events in insulin signaling pathway and enhances insulin-dependent glycogen synthesis in human skeletal muscle cells. BMC Cell Biol 2014
- Sambo F, Borrotti M and Mylona K. A coordinate-exchange two-phase local search algorithm for the D- and I-optimal designs of split-plot experiments. Computational Statistics and Data Analysis 2014
- Di Camillo B, Sambo F, Toffolo G, Cobelli C. ABACUS: an entropy-based cumulative bivariate statistic robust to rare variants and different direction of genotype effect. Bioinformatics 2014
- Finotello F, Lavezzo E, Bianco L, Barzon L, Mazzon P, Fontana P, Toppo S, Di Camillo B. Reducing bias in RNA sequencing data: a novel approach to compute counts. BMC Bioinformatics 2014
2013
- Lavezzo E, Toppo S, Franchin E, Di Camillo B, Finotello F, Falda M, Manganelli R, Palù G, Barzon L. Genomic comparative analysis and gene function prediction in infectious diseases: application to the investigation of a meningitis outbreak. BMC Infect Dis 2013
- Tarca AL, Lauria M, Unger M, Bilal E, Boue S, Kumar Dey K, Hoeng J, Koeppl H, Martin F, Meyer P, Nandy P, Norel R, Peitsch M, Rice JJ, Romero R, Stolovitzky G, Talikka M, Xiang Y, Zechner C; IMPROVER DSC Collaborators. Strengths and limitations of microarray-based phenotype prediction: lessons learned from the IMPROVER Diagnostic Signature Challenge. Bioinformatics 2013
- Trojani A, Greco A, Tedeschi A, Lodola M, Di Camillo B, Ricci F, Turrini M, Varettoni M, Rattotti S, Morra E. Microarray demonstrates different gene expression profiling signatures between Waldenström macroglobulinemia and IgM monoclonal gammopathy of undetermined significance. Clin Lymphoma Myeloma Leuk 2013
- Militello V, Lavezzo E, Costanzi G, Franchin E, Di Camillo B, Toppo S, Palù G, Barzon L. Accurate human papillomavirus genotyping by 454 pyrosequencing. Clin Microbiol Infect 2013
- Aghaeepour N, Finak G, FlowCAP Consortium, DREAM Consortium, Hoos H, Mosmann TR, Brinkman R, Gottardo R, Scheuermann RH. Critical assessment of automated flow cytometry data analysis techniques. Nat Methods 2013
- Radivojac P, Clark WT, Oron TR, et al. A large-scale evaluation of computational protein function prediction. Nat Methods 2013
- Zycinski G, Barla A, Squillario M, Sanavia T, Di Camillo B, Verri A. Knowledge Driven Variable Selection (KDVS) – a new approach to enrichment analysis of gene signatures obtained from high-throughput data. Source Code for Biology and Medicine 2013
2012
- Finotello F, Lavezzo E, Barzon L, Mazzon P, Fontana P, Toppo S, Di Camillo B. A strategy to reduce technical variability and bias in RNA sequencing data. Erik Bongcam-Rudloff editor. EMBnet Journal Vol 18(B). Oral communication in NETTAB 2012. EMBnet 2012
- Giobbe GG, Zagallo M, Riello M, Serena E, Masi G, Barzon L, Di Camillo B, Elvassore N. Confined 3D microenvironment regulates early differentiation in human pluripotent stem cells. Biotechnol Bioeng 2012
- Eduati F, De Las Rivas J, Di Camillo B, Toffolo G, Saez-Rodriguez J. Integrating literature-constrained and data-driven inference of signaling networks. Bioinformatics 2012
- Sambo F, Montes de Oca M, Di Camillo B, Toffolo G, and Stützle T. More: Mixed optimization for reverse engineering. an application to modeling biological networks response via sparse systems of nonlinear differential equations. IEEE/ACM Transactions on Computational Biology and Bioinformatics 2012
- Badaloni S, Di Camillo B, and Sambo F. Qualitative reasoning for biological network inference from systematic perturbation experiments. IEEE/ACM Computational Biology and Bioinformatics 2012
- Sambo F, Trifoglio E, Di Camillo B, Toffolo G, and Cobelli C. Bag of naïve bayes: biomarker selection and classification from genome-wide snp data. BMC Bioinformatics 2012
- Finotello F, Lavezzo E, Fontana P, Peruzzo D, Albiero A, Barzon L, Falda M, Di Camillo B, and Toppo S. Comparative analysis of algorithms for whole-genome assembly of pyrosequencing data. Briefings in Bioinformatics 2012
- Finotello F, Lavezzo E, Barzon L, Fontana P, Si-Ammour A, Toppo S, Di Camillo B. RNA sequencing data: biases and normalization. Erik Bongcam-Rudloff editor. EMBnet Journal Vol 18(A). BITS 2012. EMBnet 2012
- Zycinski G, Squillario M, Barla A, Sanavia T, Verri A and Di Camillo B. Discriminant functional gene groups identification with machine learning and prior knowledge. In Michel Verleysen editor. ESANN 2012 proceedings, European Symposium on Artificial Neural Networks, Computational Intelligence and Machine Learning. Louvain-la-Neuve, Belgium Ciaco – i6doc.com 2012
- Falda M, Toppo S, Pescarolo A, Lavezzo E, Di Camillo B, Facchinetti A, Cilia E, Velasco R, Fontana P. Argot2: a large scale function prediction tool relying on semantic similarity of weighted Gene Ontology terms. BMC Bioinformatics 2012
- Sanavia T, Aiolli F, Da San Martino G, Bisognin A, and Di Camillo B. Improving biomarker list stability by integration of biological knowledge in the learning process. BMC Bioinformatics 2012
- Di Camillo B, Falda M, Toffolo G, Cobelli C. SimBioNeT: A Simulator of Biological Network Topology. IEEE/ACM Computational Biology and Bioinformatics 2012
- Di Camillo B, Sanavia T, Martini M, Jurman G, Sambo F, Barla A, Squillario M, Furlanello C, Toffolo G, and Cobelli C. Effect of Size and Heterogeneity of Samples on Biomarker Discovery: Synthetic and Real Data Assessment. PloS one 2012
- Di Camillo B, Irving B A, Schimke J, Sanavia T, Toffolo G, Cobelli C, and Nair K S. Function-Based Discovery of Significant Transcriptional Temporal Patterns in Insulin Stimulated Muscle Cells. PloS one 2012
- Martínez MR, Corradin A, Klein U, Álvareza MJ, Toffolo GM, Di Camillo B, Califano A, Stolovitzky GA. Quantitative modeling of the terminal differentiation of B cells and mechanisms of lymphomagenesis. Proc Natl Acad Sci 2012
- Eduati F, Di Camillo B, Karbiener M, Scheideler M, Corà D, Caselle M, and Toffolo G. Dynamic Modeling of miRNA-mediated Feed-Forward Loops. Journal of Computational Biology 2012
- Sambo F and Di Camillo B. Minimizing time when applying bootstrap to contingency tables analysis of genome-wide data. In Youssef Hamadi and Marc Schoenauer, editors. Learning and Intelligent Optimization. Lecture Notes in Computer Science. Springer 2012
- Trojani A, Di Camillo B, Tedeschi A, Lodola M, Montesano S, Ricci F, Vismara E, Greco A, Veronese S, Orlacchio A, Martino S, Colombo C, Mura MA, Nichelatti M, Colosimo A, Scarpati B, Montillo M, Morra E. Gene Expression Profiling Identifies ARSD as a New Marker of Disease Progression in Chronic Lymphocytic Leukemia. Cancer Biomarkers 2012
Before 2011
- De Palo G, Eduati F, Zampieri M, Di Camillo B, Toffolo G, and Altafini C. Adaptation as a genome-wide autoregulatory principle in the stress response of yeast. Systems Biology, IET 2011
- Guerra S, Boscari F, Avogaro A, Di Camillo B., Sparacino G, De Kreutzenberg SV. Haemodynamics Assessed Via Approximate Entropy Analysis Of Impedance Cardiography Time Series: Effect Of Metabolic Syndrome. American Journal of Physiology 2011
- Corradin A, Di Camillo B, Ciminale V, Toffolo G, Cobelli C. Sensitivity analysis of retrovirus HTLV-1 transactivation. Journal of Computational Biology 2011
- Sambo F and Di Camillo B. Qualitative reasoning on systematic gene perturbation experiments. In Riccardo Rizzo and Paulo Lisboa, editors. Computational Intelligence Methods for Bioinformatics and Biostatistics Lecture Notes in Computer Science. Springer Berlin / Heidelberg 2011
- Di Camillo B, Sanavia T, Iori E, Bronte V, Roncaglia E, Maran A, Avogaro A, Toffolo G, and Cobelli C. The Transcriptional Response in Human Umbilical Vein Endothelial Cells Exposed to Insulin: A Dynamic Gene Expression Approach. PloS one 2010
- Eduati F, Corradin A, Di Camillo B, and Toffolo G. A Boolean Approach to Linear Prediction for Signaling Network Modeling. PloS one 2010
- Lavezzo E, Toppo S, Barzon L, Cobelli C, Di Camillo B, Finotello F, Franchin E, Peruzzo D, Toffolo GM, Trevisan M, and Palù G. Draft genome sequences of two Neisseria meningitidis serogroup C clinical isolates. Journal of bacteriology 2010
- Bogner-Strauss Jg, Prokesch A, Sanchez-Cabo F, Rieder D, Hackl H, Duszka K, Krogsdam A, Di Camillo B., Walenta E, Klatzer A, Lass A, Pinent M, Wong Wc, Eisenhaber F, Trajanoski Z. Reconstruction of gene association network reveals a transmembrane protein required for adipogenesis and targeted by PPARgamma. Cellular and Molecular Life Sciences 2010
- Nasso S, Silvestri F, Tisiot F, Di Camillo B., Pietracaprina A, Toffolo G. An Optimized Data Structure for High Throughput 3D Proteomics Data: mzRTree. Journal of Proteomics 2010
- Corradin A, Di Camillo B, Rende F, Ciminale V, Toffolo GM, Cobelli C. Retrovirus HTLV-1 gene circuit: a potential oscillator for eukaryotes. World Scientific editor Biocomputing 2010 Pacific Symposium World Scientific 2010
- Sambo F, Montes de Oca M A, Di Camillo B and Stützle T On the difficulty of inferring gene regulatory networks: A study of the fitness landscape generated by relative squared error In Collet, P., Monmarché, N., Legrand, P., Schoenauer, M., Lutton, E., editors Artificial Evolution Lecture Notes in Computer Science Springer Berlin / Heidelberg 2010
- Di Camillo B, Toffolo G, Cobelli C. A Gene Network Simulator to Assess Reverse Engineering Algorithms. Annals of the New York Academy of Sciences 2009
- Di Camillo B, Toffolo G, S K Nair, Greenlund L J, Cobelli, C. Significance analysis of microarray transcript levels in time series experiments. BMC Bioinformatics 2007
- Di Camillo B, Sanchez-Cabo F, Toffolo G, Nair Sk, Trajanoski Z, Cobelli C. A quantization method based on threshold optimization for microarray short time series. BMC Bioinformatics 2005
- Basu R, Di Camillo B, Toffolo G, Basu A, Shah P, Vella A, Rizza R, Cobelli C. Use of a Novel Triple-Tracer Approach to Assess Postprandial Glucose Metabolism. Amer J of Physiology: Endocrinology and Metabolism 2003