Professor Pablo Moscato

Professor Pablo Moscato

ARC Future Fellow

School of Elect Engineering and Computer Science (Computer Science and Software Engineering)

Computer scientists breaking new ground on personalised medicine and data analytics fronts

Professor Pablo Moscato and his University of Newcastle research team are revolutionising how some of medicine's greatest challenges are approached, through the use of computer science and applied mathematics.

Professor Pablo MoscatoProfessor Moscato's development of sophisticated algorithms and innovative mathematical approaches allows complex questions posed by 'big data' to be analysed from new perspectives. This world-leading research enables diseases such as breast cancer to be scrutinised at previously unseen levels, and results in the identification of disease subtypes. These advancements also allow for the identification of key biomarkers capable of tracking the progression of cancer or neurodegeneration.

What physics has been for engineering, the same can be said for computer science to biology and medicine

"This century will see those fields revolutionised by computer science, with personalised medicine being one of the main goals of our Priority Research Centre at the University of Newcastle, Australia."

"Most of the policy that exists today involves patients being given a drug for a disease, where the disease categories and definitions are generally quite broad. New biotechnologies and mathematical classification methods are revealing that they are actually multiple diseases."

"With cancer, for instance, we are already moving away from the approaches that hope for a 'silver bullet' cure. Databases now boast thousands of drugs that can be used to treat cancers."

"Only with sophisticated computer analysis can you screen all of the combinations, and prioritise those that may be relevant for further investigation."

In the near future, Professor Moscato says computer science and novel biotechnologies may allow for the analysis of the molecular profiles of affected tumours, as well as normal cells. This could eventually lead to the automatic determination of which drugs are most effective for individual patients, rather than using the lengthy trial-and-error process.

He says the approach will require the health system to establish itself as an adaptive, "learning from data" business intelligence operation.

"It's compatible to have such business intelligence with customised drug treatments at a personal level, identifying a way to both minimise patient dissatisfaction and reduce government costs," Professor Moscato said.

"It's a new philosophy, which breaks the mould of what medicine has been for the past 1,000 years."

"This way, pharmaceutical companies will also be given an indication as to where a drug is effective, so their next generation of medicines can be perfected to target specific problem areas."

University of Newcastle medical and bioinformatics researchers have successfully worked together on the interpretation of genetic data relating not only to cancer but a range of conditions including melanoma, breast, prostate and brain cancer, Alzheimer's Disease, Parkinson's Disease, multiple sclerosis, and age-related macular degeneration.

"When I came to the University in 2002 there was a lot of strength on the clinical side of medical research but not a lot of work underway in bioinformatics," Professor Moscato said.

"I established the Newcastle Bioinformatics Initiative with the support of the university in 2002. Under my lead, and with ARC support, Newcastle has been the only NSW node associated with the ARC Centre of Excellence in Bioinformatics since 2003."

"Now, in some areas, particularly in GPU-based (Graphics Processing Unit) supercomputing approaches to interrogate these datasets, we are clearly leading this research field in Australia."

Professor Moscato's research collaborations span all of The University of Newcastle's faculties. His most recent activities, involving partnership with the Faculty of Business and Law, have included the analysis of online consumer behaviours and online customer brand engagement. Fuelled by the surge of social media platforms and applications, Professor Moscato has proposed methodology for a new, data-driven way of modelling human behaviour. Results of the proposal were published in the esteemed interdisciplinary journal, PLoS ONE, in July 2014.

"This methodology could be generalised and prove useful for future research in the fields of consumer behaviours using questionnaire data sets or studies investigating other types of human behaviours," Professor Moscato said.

"The method we propose contains five main stages; symbolic regression analysis, graph building, community detection, evaluation of results and finally investigation of directed cycles and common 'feedback' loops."

"We've proposed a way to identify groups of questions that have functional relationships that segregate them from others in a particular way."

Professor Moscato says the data-driven approach has the potential to reveal 'functional' relationships between the variables (i.e. actual interactions between measurement variables relating to behaviours), which can complement other pair-wise correlation studies of associations between variables.

Professor Moscato acknowledges the support of the Australian Research Council, the National Health and Medical Research Council, and both the Cancer Institute and the Cancer Council of NSW. The dedicated researcher is particularly proud of his current donor support for projects in brain cancer and Alzheimer's Disease. "This ongoing community support renews our motivation and commitment," Professor Moscato said.

"The increasing availability of data coming from all fields of science is promising a bright future for data scientists, and will dramatically change our approach to many scientific, commercial and industrial enterprises."

Visit the Centre for Bioinformatics, Biomarker Discovery and Information-Based Medicine website

Visit the HMRI website

Learn more about Pablo and his work:

Professor Pablo Moscato

Computer scientists breaking new ground on personalised medicine and data analytics fronts

Computer scientists breaking new ground on personalised medicine and data analytics fronts

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Career Summary

Biography

Pablo Moscato is the founding co-director of the Priority Research Centre for Bioinformatics, Biomarker Discovery and Information-based Medicine and the funding director of Newcastle Bioinformatics Initiative, a partner group of the Australian Research Council Centre in Bioinformatics. He has been working in Evolutionary Computation since 1988, and in heuristic methods for Operations Research problems since 1985. His papers have been cited more than 8,173 times (data from Google Scholar, August 21, 2016). He is a consistentlly highly cited author. According to Google Scholar his Egghe's g-index is 86, indicating that his 86 most cited publications have been cited more than 7,396 times.

His work and ideas have been highly influential in a large number of scientific and technological fields.

He is one of Australia’s most cited computer scientists. Pablo has held academic and research positions in the United States, Australia, Brazil and Argentina. Pablo Moscato is member of the editorial board of "Journal of Mathematical Modelling and Algorithms", "Memetic Computing", "BMC Journal on Clinical Bioinformatics" and "Journal of Heuristics", and has served as member of the Program Committee of many international conferences in heuristics and optimization (MIC, GECCO, CEC, MAEB, EvoBIO, EvoCOP, PPSN, WOMA, SLS, LION, etc.), and regularly acts as referee for more than 20 international journals. He has reviewed grants for several funding bodies in Australia and Europe and is a Chief Investigator of the ARC Centre of Excellence in Bioinformatics (2008-2010).

Research Expertise
Life Sciences – Molecular and Clinical Biomarker Discovery • Introduced a unifying hallmark of cancer based on the changes of Information Theory quantifiers (“Cancer Biomarker Discovery: The Entropic Hallmark”, PLoS ONE 5(8): e12262. doi:10.1371/journal.pone.0012262). • Proved the validity of our argumentation about the power of our Information Theory driven methodology by applying the technique to the identification of Alzheimer’s Disease biomarkers. (“Uncovering Molecular Biomarkers That Correlate Cognitive Decline with the Changes of Hippocampus' Gene Expression Profiles in Alzheimer's Disease”, PLoS ONE 5(4): e10153. doi:10.1371/journal.pone.0010153). • Founded and organized the Inaugural Biomarker Discovery Meeting @ Shoal Bay, Dec. 6-10, 2010 (the first Australian-based event of this type). • Identified new Multiple Sclerosis susceptibility loci on chromosomes 12 and 20 (Nature Genetics 41, 824 - 828 (2009)) the GWAS supported by an ARC Linkage and Multiple Sclerosis Research Australia, and in collaboration with the Australian–New Zealand Multiple Sclerosis Genetics Consortium that he co-founded. • Led the team that developed the first transcription factor map that can explain most of the gene expression variation observed in the gene expression molecular signatures for Relapse Remitting, Primary Progressive, and Secondary Progressive Multiple Sclerosis • Developed a novel mathematical model, and an associated solution procedure based on combinatorial optimization techniques, to identify optimal drug combinations for cancer therapeutics (PLoS ONE 5(10): e13055. doi:10.1371/journal.pone.0013055) • Using a panel of abundances of 120 signalling proteins on archived plasma samples, developed a novel mathematical method for biomarker discovery that led to the 5-protein biomarker molecular signature for clinical Alzheimer’s disease. Developed classifiers that predicted with 96% total accuracy the onset of the illness (results published in PLoS ONE 3(9): e3111. doi:10.1371/journal.pone.0003111). • Developed a new method for clustering that helped, in a different application, to identify seven well-defined clusters of symptoms that categorized longitudinal radiation-induced rectal toxicity data (Radiother. Oncol. 2009 (Mar.), 90(3): 400-07; Epub 24 Oct. 2008). • Developed the first method to distinguish childhood absence eplilepsy from controls by the analysis of their background EEG (J Neurosci Methods, 13 May 2009). • Transformed The University of Newcastle from an inactive institution in research in bioinformatics to being a leader in NSW and in Australia in translational and clinical bioinformatics (via the establishment of the Newcastle Bioinformatics Initiative in 2002 and the creation of the Priority Research Centre in 2006), two ARC Discovery Projects (as first named Chief Investigator) and by leading the Newcastle node of the ARC Centre of Excelence in Bioinformatics since 2004). Computer Science and Applied Mathematics • “Memetic algorithms”, the field I have championed in the computing literature since my collaboration with M.G. Norman (Caltech Concurrent Computation Program Report 826, 1989), has expanded rapidly and gained worldwide reputation. A web search on Google with “memetic (algorithms OR algorithm)” returns 80 500 hits with pages containing information that refers to this subject. • Springer created, in 2008, the journal Memetic Computing—http://www.springer.com/engineering/journal/12293—and the IEEE has established an Emergent Technologies Task force in Memetic Computing to promote research in Memetic Algorithms. Optimization, Operations Research and Management Science • In recognition of my research outputs and trajectory I was invited to publish a chapter on “Memetic Algorithms” for the planned Encyclopedia of Operations Research and Management Science, published by Wiley (to appear in 2009).

Teaching Expertise
Pablo has taught in four different institutions in three different countries (Brazil, Argentina and Australia). At the University of Newcastle, he has supervised 17 RHD and honour students since July 2006. Three (3) PhD students have successfully completed their PhD Thesis under his supervision (two since his last promotion and both have obtained lecturer positions overseas Al-Ahliyya-Amman University, Amman, Jordan and at Universidad de Santiago de Chile, Chile). I currently have 4 PhD students. In addition, since my last promotion, I was supervisor of eleven honours or final year students; four are current students and the other seven have successfully completed their work, in most of the cases with high distinctions. Among the six students that I have supervised as honour students before July 2006, three are academics (Professor at Universidad Nacional de La Plata, Argentina; Lecturer at University of Granada, Spain and Professor at the University of Nottingham). The others are working in several types of software companies (one in Australia). Dr Elena Prieto was the first PhD student that completed under his supervision at the University of Newcastle. She obtained a second place in the nationwide competition promoted during the Australasian Computer Science Week in 2006 (for the best CS Thesis in Australia of that year). A commendation or first-place award was not given by CORE to any thesis from this university since 1998 and has not been received again. Courses Coordinated and Lectured at UoN: Formal Languages and Automata (2nd year) Theory of Computation (3rd year) Introduction to Algorithmics (3rd year) Data Mining (4th year) The Software Process (2nd year, all aspects of the Software Life Cycle)

Administrative Expertise
Academic and Research Computing Services Committee, 2009 – present. Member of the Research Quality Framework Data Management Advisory Group (reports to the DVC-R; developed a data analysis in collaboration with Research Office of the research profile of academics and a domination-based analysis of Australian universities in preparation for the RQF exercise. Established a working party with the University Strategic Group for the RQF and developed functional design specification for the proposal of the online CV system (Research Portfolio Manager). Aug. 2005 – June 2006. Member of the Faculty Research Committee, Faculty of Engineering and Built Environment, The University of Newcastle, 2003 – present. Research Coordinator for Computer Science and Software Engineering Discipline, University of Newcastle, 2003 – present. Postgraduate Director for Computer Science and Software, Jan. 2003 – Jan. 2005. Representative for the National Collaborative Research Infrastructure Strategy, Capability 5.1 “Evolving biomolecular platforms and informatics Investment Plan”, 2006. School of Electrical Engineering and Computer Science International Students Advisor, 2005 – present. ARC Centre of Excellence in Bioinformatics – Newcastle Coordinator, June 2004 – Dec. 2006.

Collaborations
Prof Moscato has been invited to give presentations and seminars in many countries and different institutions, including (since 1987) in the USA, Canada, UK, France, Spain, Italy, Switzerland, Austria, Denmark, Mexico, Brazil, Argentina, Chile, Peru, and more recently New Zealand and Australia. I have presented seminars of my work in English, Spanish, Portuguese and, in one opportunity, Italian (at Universita di Padova). Since 2006 he has been invited to give talks and collaborated with researchers at: • California Institute of Technology, • University of Colorado at Boulder, • University of Tenneesse and Oak Ridge National Labs, • Western Australian Institute for Medical Research, • Queensland Institute of Medical Research, • Institute for Molecular Bioscience at University of Queensland, • University of Auckland, • University of Málaga (Spain), • Universitat Politecnica de Catalunya (Barcelona, Spain), • University of Sydney, • Hunter Area Pathology Service, John Hunter Hospital, • Universidad de Buenos Aires (Argentina), • Universidad de Sao Paulo (Brazil), • NSW Department of State and Regional Development (Sydney) He has been an Invited Speaker at the “HMRI Conference on Translational Cancer Research: Molecular Mechanisms and Implications for Treatment”, Sep. 20-22, 2006; other invited speakers included Professor Sir David Lane (UK) and Professor Ian Frazer, (Australian of the Year 2006).

Qualifications

  • PhD (Electrical Engineering), Universidade Estadual de Campinas - Brazil
  • Licenciado en Fisica (Equiv Bachelor), Universidad Nacional de la Plata - Argentina

Keywords

  • Bioinformatics
  • Cancer
  • Combinatorial Optimisation
  • Computer Science
  • Data Mining
  • Evolutionary Computation
  • Management Science
  • Mathematics
  • Memetic Algorithms
  • Metaheuristics
  • Operations Research
  • Parallel Computing
  • Scientific Computing
  • Systems Biology

Languages

  • Portuguese (Fluent)
  • Spanish (Fluent)
  • Italian (Fluent)

Fields of Research

Code Description Percentage
080199 Artificial Intelligence and Image Processing not elsewhere classified 30
080299 Computation Theory and Mathematics not elsewhere classified 60
110399 Clinical Sciences not elsewhere classified 10

Professional Experience

UON Appointment

Title Organisation / Department
Professor University of Newcastle
School of Elect Engineering and Computer Science
Australia

Academic appointment

Dates Title Organisation / Department
1/12/2012 -  Fellow ARC

ARC - Discovery - Future Fellowships

University of Newcastle
School of Elect Engineering and Computer Science
Australia
1/01/2011 -  Membership - California Institute of Technology Alumni Association California Institute of Technology Alumni Association
United States
1/01/2011 -  Membership - Australian Stroke Genetics collaboration Australian Stroke Genetics collaboration
Australia
1/01/2011 -  Membership - New South Wales Multiple Sclerosis Research Network New South Wales Multiple Sclerosis Research Network
Australia
1/01/2007 -  Chief Investigator ARC Centre of Excellence in Bioinformatics
Australia
1/01/2007 -  Membership - Australian–New Zealand Multiple Sclerosis Genetics Consortium Australian–New Zealand Multiple Sclerosis Genetics Consortium
Australia
1/01/2006 - 31/12/2013 Membership - Scientific Advisory Board Member of SolveIT Scientific Advisory Board Member of SolveIT
Australia
1/12/2002 -  Director University of Newcaslte, Newcastle Bioinformatics Initiative
Australia
1/07/1996 - 1/01/1997 Visiting Professor Universidade Estadual de Campinas
Faculty of Electrical and Computer Engineering/ Department of Systems Engineering
Brazil
1/08/1995 - 1/07/1996 Visiting Professor Universidad del Centro de la Provincia de Buenos Aires
Department of Systems Engineering- Computer Science
Argentina
1/11/1989 - 1/07/1996 Research Associate Universidad Nacional de La Plata
Centre for Digital and Analogic Techniques (CeTAD)
Argentina
1/06/1989 - 1/10/1989 Research Assistant

Computer Science / Parallel Computing

California Institute of Technology
Caltech Concurrent Computation Program
United States

Membership

Dates Title Organisation / Department
Member of the Editorial Board - Journal of Heuristics Journal of Heuristics
Australia
1/01/2002 -  Member of the Editorial Board Journal of Mathematical Modelling and Algorithms
Australia

Teaching appointment

Dates Title Organisation / Department
1/02/1987 - 1/09/1988 Teaching Assistant

Physics

Universidad Nacional de La Plata
Faculty of Exact Sciences
Argentina

Awards

Research Award

Year Award
2007 Best paper award at the First European Workshop in Evolutionary Computation and Bioinformatics
Unknown

Invitations

Keynote Speaker

Year Title / Rationale
2013 Personalized Information-based Medicine: Huge challenges, massive opportunities and some lessons learned
Organisation: 10th Metaheuristics International Conference Singapore
2011 Bioinformatics and Operations Research
Organisation: 9th Congress of the Chilean Institute of Operations Research (ICHIO)

Participant

Year Title / Rationale
2006 Student Symposium in Bioinformatics
Description: Invited Speaker at the Student Symposium in Bioinformatics, Auckland, NZ, 11-15 July, 2006.
2006 Tutorial on Memetic Algorithms
Organisation: The Unviersity of Vienna Description: Invited Tutorial at 6th Metaheuristics International Conference, MIC'05, Vienna, Austria, August 22-26, 2005. I was invited to present a tutorial on the currently widespread use of Memetic Algorihtms for combinatorial optimization problems. On an interesting note, the conference organizers had also solved the problem of allocating papers to referees via a memetic algorithm and they also provided the first integer programming formalization for this problem. My Tutorial reviewed almost 20 years of work in the area and the international relevance of the subject. Since 2001, I am the only Australian-based researcher who has been on the program committee of this conference.
2006 HMRI Conference on Translational Cancer Research: Molecular Mechanisms and Implications for Treatment
Organisation: Hunter Medical Research Institute Description: Invited Speaker at the HMRI Conference on Translational Cancer Research: Molecular Mechanisms and Implications for Treatment, Sep. 20-22, 2006; other invited speakers included Professor Sir David Lane (UK) and Professor Ian Frazer, (Australian of the Year 2006).
2005 All Hands Meeting of the ARC Centre in Bioinformatics
Organisation: The Unviersity of Queensland Description: Invited Speaker at the All Hands Meeting of the ARC Centre in Bioinformatics April 18, 2005 at the University of Queensland, St. Lucia.

Speaker

Year Title / Rationale
2014 Complex Systems for Complex Problems
Organisation: Department of Computer Science and Statistics, ICMC-USP
2010 Cancer Biomarker Discovery: The Entropic Hallmark
Organisation: Western Australian Institute for Medical Research
2009 Winter School in Mathematical and Computational Biology
Organisation: Queensland Bioscience Precinct, The University of Queensland
2007 Annual Scientific Meeting of the Australian New Zealand Breast Cancer Trials Group
Organisation: Australian New Zealand Breast Cancer Trials Group Description: Invited Guest Speaker at 27th Annual Scientific Meeting of the Australian New Zealand Breast Cancer Trials Group, Perth, Australia, 6-9 July, 2005.
2007 Annual Scientific Meeting of the Australian New Zealand Breast Cancer Trials Group
Organisation: Australian New Zealand Breast Cancer Trials Group Description: Invited Guest Speaker at 27th Annual Scientific Meeting of the Australian New Zealand Breast Cancer Trials Group, Perth, Australia, 6-9 July, 2005.
2006 Mathematical and Computational Biology
Organisation: The University of Queensland Description: 2006 Winter School in Mathematical and Computational Biology, 26-30 June, 2006, Queensland Bioscience Precinct, The University of Queensland.
2006 Microarray Data Analysis Workshop
Organisation: The University of Queensland Description: Two-hours seminar at the Microarray Data Analysis Workshop, IMB-UQ, April 20, 2005, Brisbane.
2005 Memetic Algorithms
Organisation: 6th Metaheuristics International Conference, MIC’05
2004 All Hands Meeting of the ARC Centre in Bioinformatics
Organisation: The University of Queensland, St. Lucia
2004 Australian Mathematical Sciences Institute, Winter School in Mathematics and Computational Biology
Organisation: Institute for Molecular Bioscience
2004 All Hands Meeting of the ARC Centre in Bioinformatics
Organisation: The Unviersity of Queensland Description: Invited Speaker at the All Hands Meeting of the ARC Centre in Bioinformatics May 10 - May 11, 2004 at the University of Queensland, St. Lucia.
2004 Mathematical Sciences Institute,Winter School in Mathematics and Computational Biology
Organisation: The Unviersity of Queensland Description: Invited Lecturer (two lectures of one hour each) Australian Mathematical Sciences Institute,Winter School in Mathematics and Computational Biology co-organized by the International Centre of Excellence for Education in Mathematics (ICE-EM), Institute for Molecular Bioscience, Brisbane, 5-9 July, 2004.
2004 Invited Lecturer at the ICE-EM Summer Symposium in Bioinformatics organized by the International Centre of Excellence for Education in Mathematics, ANU, Canberra
Organisation: The Unviersity of Queensland
2002 Australian Mathematical Society workshop in Statistics and Bioinformatics
Organisation: The University of Newcastle Description: Invited Speaker at the 46th Australian Mathematical Society Meeting for a workshop in Statistics and Bioinformatics Sep. 30 - Oct. 3, Newcastle, NSW, 2002.
2000 Memetic Algorithms: a report on recent progress
Organisation: 7th INFORMS Computer Science Technical Section Conference on Computer Science and Operations Research
2000 Memetic algorithms
Organisation: Departamento de Lenguajes y Sistemas Informaticos
1999 Memetic Algorithms in 60 minutes
Organisation: Instituto Nacional de Pesquisas Espaciais, Ministerio da Ciencia e Tecnologia, São José dos Campos
1998 Analysis of Genetic and Memetic Algorithms: Towards Tight Results
Organisation: 6th INFORMS Computer Science Technical Section Conference on Computer Science and Operations Research: Recent Advances in the Interface
1998 Memetic Algorithms: Past, Present and Future
Organisation: 6th INFORMS Computer Science Technical Section Conference on Computer Science and Operations Research: Recent Advances in the Interface
1998 Local Search Techniques for Scheduling and Timetabling Problems
Organisation: XXX Simposio Brasileiro de Pesquisa Operacional
1998 A Memetic Algorithm with Guided Local Search: A TSP case study
Organisation: XXX Simposio Brasileiro de Pesquisa Operacional
1998 Course on Memetic Algorithms
Organisation: Semana Académica do Curso de Informática, Universidade Federal de Santa Maria
1997 An expert system in PROLOG to benefit from the transformations and reductions between NP optimization problems
Organisation: XXIX Simposio Brasileiro de Pesquisa Operacional
1997 Genetic and Memetic Algorithms and their applications
Organisation: I Congreso Internacional Sur Andino de Ingenieria de Sistemas e Informática
1996 Memetic Algorithms and Combinatorial Optimization
Organisation: Center for Advanced Computing Research, California Institute of Technology
1995 Using L-Systems to generate arbitrarily large instances of the Euclidean Traveling Salesman Problem with known optimal tours
Organisation: XXVII Simposio Brasileiro de Pesquisa Operacional, Vitoria, Brasil
1995 A new hybrid heuristic for large geometric Traveling Salesman Problems based on the Delaunay Triangulation
Organisation: XXVII Simposio Brasileiro de Pesquisa Operacional,
1995 Teaching one artificial neuron can be ‘hard’ and other lessons learned from computational complexity
Organisation: International Centre of Theoretical Physics
1994 Complex Systems for Complex Problems
Organisation: Santa Fe Institute
1992 A ‘Memetic’ Approach for the Traveling Salesman Problem: Implementation of a Computational Ecology for Combinatorial Optimization on Message-Passing Systems
Organisation: International Conference on Parallel Computing and Transputer Applications, PACTA ’92
1992 Blending Heuristics with Computational Ecologies: The Memetic Approach for the Traveling Salesman Problem
Organisation: Department de Matháematiques, Ecole Polytechnique Federale de Lausanne
1992 Population Approaches for Optimization, Genetic and Memetic Algorithms: The role of Hierarchical Cost Functions
Organisation: Edinburgh Parallel Computing Centre
1991 A Competitive and Cooperative Approach to Complex Combinatorial Search
Organisation: JAIIO XX, The 20th Meeting on Informatics and Operations Research
1991 Computational Physics and Physical Computation
Organisation: 20th Informatics and Operations Research Meeting
1987 Numerical Simulation of a Neural Net applied to the solution of the Traveling Salesman Problem
Organisation: Congress of the Argentinean Physics Association, Bariloche, Argentina
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Publications

For publications that are currently unpublished or in-press, details are shown in italics.


Book (2 outputs)

Year Citation Altmetrics Link
2012 Neri F, Cotta C, Moscato PA, Handbook of Memetic Algorithms, Springer, Berlin, Germany, 368 (2012) [A3]
1999 Corne D, Dorigo M, Glover F, New Ideas in Optimization, 493 (1999)

Chapter (27 outputs)

Year Citation Altmetrics Link
2015 Riveros C, Vimieiro R, Holliday EG, Oldmeadow C, Wang JJ, Mitchell P, et al., 'Identification of genome-wide SNP-SNP and SNP-clinical Boolean interactions in Age-related Macular Degeneration', Epistasis: Methods and Protocols, Springer, New York 217-255 (2015) [B1]
DOI 10.1007/978-1-4939-2155-3_12
Citations Scopus - 1
Co-authors John Attia, Liz Holliday, Christopher Oldmeadow, Rodney Scott, Carlos Riveros
2014 Lachiondo JA, Ujaldón M, Berretta R, Moscato P, 'Quantifying the regeneration of bone tissue in biomedical images via Legendre moments', Computational Vision and Medical Image Processing IV, CRC Press, Boca Raton, FL 289-294 (2014) [B1]
DOI 10.1201/b15810-51
Co-authors Regina Berretta
2012 Berretta RE, Cotta C, Moscato PA, 'Memetic algorithms in bioinformatics', Handbook of Memetic Algorithms, Springer, Berlin, Germany 261-271 (2012) [B1]
Co-authors Regina Berretta
2012 Moscato PA, 'Memetic algorithms: The untold story', Handbook of Memetic Algorithms, Springer-Verlag, Berlin 275-309 (2012) [B2]
2011 Moscato PA, Berretta R, Cotta C, 'Memetic Algorithms', Wiley Encyclopedia of Operations Research and Management Science, 8 Volume Set, John Wiley & Sons, . 1-24 (2011)
DOI 10.1002/9780470400531
2011 Moscato PA, Berretta RE, Cotta C, 'Memetic algorithms', , Hoboken, NJ 1-24 (2011) [D1]
Co-authors Regina Berretta
2010 Atkinson RJ, Rosso OA, Figliola A, Serrano E, Moscato PA, Hunter M, Rostas JA, 'Use of the domestic chicken to investigate mechanisms of brain maturation', Translational Neuroscience and Its Advancement of Animal Research Ethics, Nova Science Publishers, Hauppauge 29-53 (2010) [B1]
Co-authors Mick Hunter, John Rostas
2009 Ravetti MG, Berretta RE, Moscato PA, 'Novel biomarkers for prostate cancer revealed by ([alpha, beta]) -k-feature sets', Foundations of Computational Intelligence Volume 5: Functional Approximation and Classification, Springer, Berlin 149-175 (2009) [C2]
DOI 10.1007/978-3-642-01536-6
Citations Scopus - 2
Co-authors Regina Berretta
2008 Mendes ADS, Scott R, Moscato PA, 'Microarrays - Identifying molecular portraits in prostrate tumors with different gleason patterns', Clinical Bioinformatics, Humana Press, New York 131-151 (2008) [B1]
DOI 10.1007/978-1-60327-148-6
Citations Scopus - 15
Co-authors Alexandre Mendes, Rodney Scott
2008 Berretta R, Costa W, Moscato P, 'Combinatorial optimization models for finding genetic signatures from gene expression datasets', 363-377 (2008) [B1]

The aim of this chapter is to present combinatorial optimization models and techniques for the analysis of microarray datasets. The chapter illustrates the application of a novel ... [more]

The aim of this chapter is to present combinatorial optimization models and techniques for the analysis of microarray datasets. The chapter illustrates the application of a novel objective function that guides the search for high-quality solutions for sequential ordering of expression profiles. The approach is unsupervised and a metaheuristic method (a memetic algorithm) is used to provide high-quality solutions. For the problem of selecting discriminative groups of genes, we used a supervised method that has provided good results in a variety of datasets. This chapter illustrates the application of these models in an Alzheimer's disease microarray dataset. © 2008 Humana Press, a part of Springer Science+Business Media, LLC.

DOI 10.1007/978-1-60327-429-6_19
Citations Scopus - 13
Co-authors Regina Berretta
2008 Hourani MA, Berretta RE, Mendes ADS, Moscato PA, 'Genetic signatures for a rodent model of Parkinson's disease using combinatorial optimization methods', Bioinformatics, Humana Press, New York 379-392 (2008) [B1]
DOI 10.1007/978-1-60327-429-6
Citations Scopus - 6
Co-authors Alexandre Mendes, Regina Berretta
2007 Cotta C, Langston M, Moscato PA, 'Combinatorial and algorithmic issues for microarray data analysis', Handbook of Approximation Algorithms and Metaheuristics, Taylor & Francis, London (2007) [B1]
2007 Moscato PA, Cotta C, 'Memetic algorithms', Handbook of Approximation Algorithms and Metaheuristics, Taylor & Francis, London - (2007) [B1]
2004 Cotta C, Moscato PA, 'Evolutionary computation: Challenges and duties', Frontiers of Evolutionary Computation, Kluwer Academic Press, Boston, MA 53-72 (2004) [B1]
2004 Berretta RE, Cotta C, Moscato PA, 'Enhancing the performance of memetic algorithms by using a matching-based recombination algorithm', Metaheuristics: Computer Decision-Making, Kluwer Academic Publishers, The Netherlands 719 (2004) [B1]
Citations Web of Science - 5
Co-authors Regina Berretta
2004 Moscato PA, Cotta C, Mendes ADS, 'Memetic Algorithms', Studies in fuzziness and soft computing - new optimization techniques in engineering, Springer, New York Not Known (2004) [B1]
Co-authors Alexandre Mendes
2004 Moscato PA, Mendes ADS, Linhares A, 'VLSI design: gate matrix layout problem', Studies in fuzziness and soft computing - new optimization techniques in engineering, Springer, New York Not Known (2004) [B1]
Co-authors Alexandre Mendes
2004 Moscato PA, Mendes ADS, Cotta C, 'Scheduling and production & control: MA', Studies in fuzziness and soft computing - new optimization techniques in engineering, Springer, New York Not Known (2004) [B1]
Co-authors Alexandre Mendes
2004 Moscato PA, Cotta C, Mendes A, 'Scheduling, Timetabling and related problems', New Optimization Techniques in Engineering, Springer Science & Business Media, . 655-679 (2004)
2004 Moscato PA, Linhares A, Mendes A, 'Memetic algorithms for VLSI design problems: The gate matrix layout problem', New Optimization Techniques in Engineering, Springer Science & Business Media, . (2004)
2003 Moscato PA, Cotta C, 'A gentle introduction to memetic algorithms', Handbook of Metaheuristics, Kluwer Academic Press, Boston, MA 105-144 (2003) [B1]
2002 Moscato PA, 'Memetic Algorithms', Handbook of Applied Optimization, Oxford University Press on Demand, . .-. (2002)
1999 Moscato PA, 'Memetic algorithms: a short introduction', New Ideas in Optimization, McGraw-Hill Ltd, Berkshire, UK 219-234 (1999)
1999 Moscato PA, Coll P, Duran G, 'On worst-case and comparative analysis as design principles for efficient recombination operators: A graph coloring case study', New Ideas in Optimization, McGraw-HillLtd, Berkshire, UK 279-239 (1999)
1999 Berretta RE, moscato, 'The Number Partitioning Problem, An Open Challenge For Evolutionary Computation?', New Ideas In Optimisation, McGraw-Hill, Maidenhead, UK, England (1999)
Co-authors Regina Berretta
1996 Moscato PA, 'Algoritmos geneticos', Optimizacion Heuristica y Redes Neuronalese Ingenieria, Editorial Paraninfo, Madrid 67-103 (1996)
1996 Moscato PA, Diaz A, 'Recocido simulado', Optimizacion Heuristica y Redes Neuronalese Ingenieria, Editorial Paraninfo, Madrid 37-66 (1996)
Show 24 more chapters

Journal article (88 outputs)

Year Citation Altmetrics Link
2016 Haque MN, Noman N, Berretta R, Moscato P, 'Heterogeneous Ensemble Combination Search Using Genetic Algorithm for Class Imbalanced Data Classification.', PLoS One, 11 e0146116 (2016)
DOI 10.1371/journal.pone.0146116
Co-authors Regina Berretta, Nasimul Noman
2016 Rocha de Paula M, Berretta R, Moscato P, 'A fast meta-heuristic approach for the (a, ß) - k-feature set problem', Journal of Heuristics, 22 199-220 (2016) [C1]

© 2015, Springer Science+Business Media New York.The feature selection problem aims to choose a subset of a given set of features that best represents the whole in a particular a... [more]

© 2015, Springer Science+Business Media New York.The feature selection problem aims to choose a subset of a given set of features that best represents the whole in a particular aspect, preserving the original semantics of the variables on the given samples and classes. In 2004, a new approach to perform feature selection was proposed. It was based on a NP-complete combinatorial optimisation problem called ((Formula presented.))-k-feature set problem. Although effective for many practical cases, which made the approach an important feature selection tool, the only existing solution method, proposed on the original paper, was found not to work well for several instances. Our work aims to cover this gap found on the literature, quickly obtaining high quality solutions for the instances that existing approach can not solve. This work proposes a heuristic based on the greedy randomised adaptive search procedure and tabu search to address this problem; and benchmark instances to evaluate its performance. The computational results show that our method can obtain high quality solutions for both real and the proposed artificial instances and requires only a fraction of the computational resources required by the state of the art exact and heuristic approaches which use mixed integer programming models.

DOI 10.1007/s10732-015-9307-0
Co-authors Regina Berretta
2016 Puthiyedth N, Riveros C, Berretta R, Moscato P, 'Identification of Differentially Expressed Genes through Integrated Study of Alzheimer's Disease Affected Brain Regions.', PLoS One, 11 e0152342 (2016)
DOI 10.1371/journal.pone.0152342
Co-authors Carlos Riveros, Regina Berretta
2016 Casanova R, Varma S, Simpson B, Kim M, An Y, Saldana S, et al., 'Blood metabolite markers of preclinical Alzheimer's disease in two longitudinally followed cohorts of older individuals.', Alzheimers Dement, 12 815-822 (2016)
DOI 10.1016/j.jalz.2015.12.008
Citations Scopus - 1
Co-authors Carlos Riveros
2016 Binder MD, Fox AD, Merlo D, Johnson LJ, Giuffrida L, Calvert SE, et al., 'Common and Low Frequency Variants in MERTK Are Independently Associated with Multiple Sclerosis Susceptibility with Discordant Association Dependent upon HLA-DRB1*15:01 Status', PLoS Genetics, 12 (2016)

© 2016 Binder et al.Multiple Sclerosis (MS) is a chronic inflammatory demyelinating disease of the central nervous system. The risk of developing MS is strongly influenced by gen... [more]

© 2016 Binder et al.Multiple Sclerosis (MS) is a chronic inflammatory demyelinating disease of the central nervous system. The risk of developing MS is strongly influenced by genetic predisposition, and over 100 loci have been established as associated with susceptibility. However, the biologically relevant variants underlying disease risk have not been defined for the vast majority of these loci, limiting the power of these genetic studies to define new avenues of research for the development of MS therapeutics. It is therefore crucial that candidate MS susceptibility loci are carefully investigated to identify the biological mechanism linking genetic polymorphism at a given gene to the increased chance of developing MS. MERTK has been established as an MS susceptibility gene and is part of a family of receptor tyrosine kinases known to be involved in the pathogenesis of demyelinating disease. In this study we have refined the association of MERTK with MS risk to independent signals from both common and low frequency variants. One of the associated variants was also found to be linked with increased expression of MERTK in monocytes and higher expression of MERTK was associated with either increased or decreased risk of developing MS, dependent upon HLA-DRB1*15:01 status. This discordant association potentially extended beyond MS susceptibility to alterations in disease course in established MS. This study provides clear evidence that distinct polymorphisms within MERTK are associated with MS susceptibility, one of which has the potential to alter MERTK transcription, which in turn can alter both susceptibility and disease course in MS patients.

DOI 10.1371/journal.pgen.1005853
2016 Milioli HH, Vimieiro R, Tishchenko I, Riveros C, Berretta R, Moscato P, 'Iteratively refining breast cancer intrinsic subtypes in the METABRIC dataset.', BioData Min, 9 2 (2016) [C1]
DOI 10.1186/s13040-015-0078-9
Citations Scopus - 1Web of Science - 1
Co-authors Inna Tishchenko, Regina Berretta, Carlos Riveros
2015 de Vries NJ, Reis R, Moscato P, 'Clustering Consumers Based on Trust, Confidence and Giving Behaviour: Data-Driven Model Building for Charitable Involvement in the Australian Not-For-Profit Sector', PLOS ONE, 10 e0122133-e0122133 (2015) [C1]
DOI 10.1371/journal.pone.0122133
Citations Scopus - 1
Co-authors Natalie Devries
2015 Noman N, Monjo T, Moscato P, Iba H, 'Evolving robust gene regulatory networks.', PLoS One, 10 e0116258 (2015) [C1]
DOI 10.1371/journal.pone.0116258
Citations Scopus - 2Web of Science - 1
Co-authors Nasimul Noman
2015 Puthiyedth N, Riveros C, Berretta R, Moscato P, 'A New Combinatorial Optimization Approach for Integrated Feature Selection Using Different Datasets: A Prostate Cancer Transcriptomic Study.', PLoS One, 10 e0127702 (2015) [C1]
DOI 10.1371/journal.pone.0127702
Citations Scopus - 1Web of Science - 1
Co-authors Regina Berretta, Carlos Riveros
2015 Riveros C, Ujaldón M, Moscato P, 'GPU Acceleration of an Entropy-based Model to Quantify Epistatic Interactions Between SNPs', Current Bioinformatics, [In Press] 1-8 (2015)
Co-authors Carlos Riveros
2015 Gu BJ, Field J, Dutertre S, Ou A, Kilpatrick TJ, Lechner-Scott J, et al., 'A rare P2X7 variant Arg307Gln with absent pore formation function protects against neuroinflammation in multiple sclerosis.', Human molecular genetics, 24 5644-5654 (2015) [C1]
Citations Scopus - 3Web of Science - 2
Co-authors Rodney Scott
2015 Field J, Shahijanian F, Schibeci S, Johnson L, Gresle M, Laverick L, et al., 'The MS risk allele of CD40 is associated with reduced cell-membrane bound expression in antigen presenting cells: Implications for gene function', PLoS ONE, 10 (2015) [C1]

© 2015 Field et al.Human genetic and animal studies have implicated the costimulatory molecule CD40 in the development of multiple sclerosis (MS). We investigated the cell specif... [more]

© 2015 Field et al.Human genetic and animal studies have implicated the costimulatory molecule CD40 in the development of multiple sclerosis (MS). We investigated the cell specific gene and protein expression variation controlled by the CD40 genetic variant(s) associated with MS, i.e. the T-allele at rs1883832. Previously we had shown that the risk allele is expressed at a lower level in whole blood, especially in people with MS. Here, we have defined the immune cell subsets responsible for genotype and disease effects on CD40 expression at the mRNA and protein level. In cell subsets in which CD40 is most highly expressed, B lymphocytes and dendritic cells, the MS-associated risk variant is associated with reduced CD40 cell-surface protein expression. In monocytes and dendritic cells, the risk allele additionally reduces the ratio of expression of full-length versus truncated CD40 mRNA, the latter encoding secreted CD40. We additionally show that MS patients, regardless of genotype, express significantly lower levels of CD40 cell-surface protein compared to unaffected controls in B lymphocytes. Thus, both genotype-dependent and independent down-regulation of cell-surface CD40 is a feature of MS. Lower expression of a co-stimulator of T cell activation, CD40, is therefore associated with increased MS risk despite the same CD40 variant being associated with reduced risk of other inflammatory autoimmune diseases. Our results highlight the complexity and likely individuality of autoimmune pathogenesis, and could be consistent with antiviral and/or immunoregulatory functions of CD40 playing an important role in protection from MS.

DOI 10.1371/journal.pone.0127080
Citations Scopus - 1
Co-authors Rodney Scott
2015 Milioli HH, Vimieiro R, Riveros C, Tishchenko I, Berretta R, Moscato P, 'The Discovery of Novel Biomarkers Improves Breast Cancer Intrinsic Subtype Prediction and Reconciles the Labels in the METABRIC Data Set.', PLoS One, 10 e0129711 (2015) [C1]
DOI 10.1371/journal.pone.0129711
Citations Scopus - 1Web of Science - 1
Co-authors Carlos Riveros, Regina Berretta, Inna Tishchenko
2014 Arefin AS, Vimieiro R, Riveros C, Craig H, Moscato P, 'An information theoretic clustering approach for unveiling authorship affinities in Shakespearean era plays and poems.', PloS one, 9 e111445 (2014) [C1]
Citations Scopus - 2Web of Science - 1
Co-authors Carlos Riveros, Hugh Craig
2014 Vimieiro R, Moscato P, 'A new method for mining disjunctive emerging patterns in high-dimensional datasets using hypergraphs', INFORMATION SYSTEMS, 40 1-10 (2014) [C1]
DOI 10.1016/j.is.2013.09.001
Citations Scopus - 3Web of Science - 2
2014 Jesus Martin Requena M, Moscato P, Ujaldon M, 'Efficient data partitioning for the GPU computation of moment functions', JOURNAL OF PARALLEL AND DISTRIBUTED COMPUTING, 74 1994-2004 (2014) [C1]
DOI 10.1016/j.jpdc.2013.07.008
2014 Denham JW, Nowitz M, Joseph D, Duchesne G, Spry NA, Lamb DS, et al., 'Impact of androgen suppression and zoledronic acid on bone mineral density and fractures in the Trans-Tasman Radiation Oncology Group (TROG) 03.04 Randomised Androgen Deprivation and Radiotherapy (RADAR) randomized controlled trial for locally advanced prostate cancer', BJU International, 114 344-353 (2014) [C1]

Objective To study the influence of adjuvant androgen suppression and bisphosphonates on incident vertebral and non-spinal fracture rates and bone mineral density (BMD) in men wit... [more]

Objective To study the influence of adjuvant androgen suppression and bisphosphonates on incident vertebral and non-spinal fracture rates and bone mineral density (BMD) in men with locally advanced prostate cancer. Patients and Methods Between 2003 and 2007, 1071 men with locally advanced prostate cancer were randomly allocated, using a 2 × 2 trial design, to 6 months i.m. leuprorelin (androgen suppression [AS]) before radiotherapy alone ± 12 months additional leuprorelin ± 18 months zoledronic acid (ZdA), commencing at randomization. The main endpoint was incident thoraco-lumbar vertebral fractures, which were assessed radiographically at randomization and at 3 years, then reassessed by centralized review. Subsidiary endpoints included incident non-spinal fractures, which were documented throughout follow-up, and BMD, which was measured in 222 subjects at baseline, 2 years and 4 years. Results Incident vertebral fractures at 3 years were observed in 132 subjects. Their occurrence was not increased by 18 months' AS, nor reduced by ZdA. Incident non-spinal fractures occurred in 72 subjects and were significantly related to AS duration but not to ZdA. Osteopenia and osteoporosis prevalence rates at baseline were 23.4 and 1.4%, respectively, at the hip. Treatment for 6 and 18 months with AS caused significant reductions in hip BMD at 2 and 4 years (P < 0.01) and ZdA prevented these losses at both time points. Conclusion In an AS-naïve population, 18 months of ZdA treatment prevented the sustained BMD losses caused by 18 months of AS treatment; however, the study power was insufficient to show that AS duration or ZdA influenced vertebral fracture rates. © 2013 The Authors. BJU International © 2013 BJU International.

DOI 10.1111/bju.12497
Citations Scopus - 8Web of Science - 11
Co-authors Catherine Deste, Allison Steigler, Jim Denham
2014 Filiou MD, Arefin AS, Moscato P, Graeber MB, ''Neuroinflammation' differs categorically from inflammation: transcriptomes of Alzheimer's disease, Parkinson's disease, schizophrenia and inflammatory diseases compared', neurogenetics, (2014) [C1]

'Neuroinflammation' has become a widely applied term in the basic and clinical neurosciences but there is no generally accepted neuropathological tissue correlate. Inflammation, w... [more]

'Neuroinflammation' has become a widely applied term in the basic and clinical neurosciences but there is no generally accepted neuropathological tissue correlate. Inflammation, which is characterized by the presence of perivascular infiltrates of cells of the adaptive immune system, is indeed seen in the central nervous system (CNS) under certain conditions. Authors who refer to microglial activation as neuroinflammation confuse this issue because autoimmune neuroinflammation serves as a synonym for multiple sclerosis, the prototypical inflammatory disease of the CNS. We have asked the question whether a data-driven, unbiased in silico approach may help to clarify the nomenclatorial confusion. Specifically, we have examined whether unsupervised analysis of microarray data obtained from human cerebral cortex of Alzheimer's, Parkinson's and schizophrenia patients would reveal a degree of relatedness between these diseases and recognized inflammatory conditions including multiple sclerosis. Our results using two different data analysis methods provide strong evidence against this hypothesis demonstrating that very different sets of genes are involved. Consequently, the designations inflammation and neuroinflammation are not interchangeable. They represent different categories not only at the histophenotypic but also at the transcriptomic level. Therefore, non-autoimmune neuroinflammation remains a term in need of definition. © 2014 Springer-Verlag Berlin Heidelberg.

DOI 10.1007/s10048-014-0409-x
Citations Scopus - 9Web of Science - 10
2014 Milward EA, Moscato P, Riveros C, Johnstone DM, 'Beyond Statistics: A New Combinatorial Approach to Identifying Biomarker Panels for the Early Detection and Diagnosis of Alzheimer's Disease', JOURNAL OF ALZHEIMERS DISEASE, 39 211-217 (2014) [C1]
DOI 10.3233/JAD-131424
Citations Scopus - 2Web of Science - 2
Co-authors Carlos Riveros, Liz Milward
2014 de Vries NJ, Carlson J, Moscato P, 'A Data-Driven Approach to Reverse Engineering Customer Engagement Models: Towards Functional Constructs', PLoS One, 9 (2014) [C1]
DOI 10.1371/journal.pone.0102768
Citations Scopus - 3Web of Science - 2
Co-authors Jamie Carlson, Natalie Devries
2014 Vimieiro R, Moscato P, 'Disclosed: An efficient depth-first, top-down algorithm for mining disjunctive closed itemsets in high-dimensional data', INFORMATION SCIENCES, 280 171-187 (2014) [C1]
DOI 10.1016/j.ins.2014.04.044
Citations Scopus - 3Web of Science - 4
2014 Shahijanian F, Parnell GP, McKay FC, Gatt PN, Shojoei M, O'Connor KS, et al., 'The CYP27B1 variant associated with an increased risk of autoimmune disease is underexpressed in tolerizing dendritic cells', HUMAN MOLECULAR GENETICS, 23 1425-1434 (2014) [C1]
DOI 10.1093/hmg/ddt529
Citations Web of Science - 9
Co-authors Rodney Scott
2014 Goris A, van Setten J, Diekstra F, Ripke S, Patsopoulos NA, Sawcer SJ, et al., 'No evidence for shared genetic basis of common variants in multiple sclerosis and amyotrophic lateral sclerosis', HUMAN MOLECULAR GENETICS, 23 1916-1922 (2014) [C1]
DOI 10.1093/hmg/ddt574
Citations Web of Science - 4
Co-authors Rodney Scott
2014 Mate K, Riveros C, Weidenhofer J, Goldie B, Scott J, Moscato P, et al., 'Strategies for Enhancing Communication between Students, Academics and Researchers participating in Large-Scale Undergraduate Research Projects', International Journal of Innovation in Science and Mathematics Education, 22 14-29 (2014) [C1]
Co-authors Liz Milward, Karen Mate, Carlos Riveros, Judith Weidenhofer
2013 Lee SH, Harold D, Nyholt DR, Goddard ME, Zondervan KT, Williams J, et al., 'Estimation and partitioning of polygenic variation captured by common SNPs for Alzheimer's disease, multiple sclerosis and endometriosis', HUMAN MOLECULAR GENETICS, 22 832-841 (2013) [C1]
DOI 10.1093/hmg/dds491
Citations Scopus - 61Web of Science - 44
Co-authors Rodney Scott
2013 Cortes A, Field J, Glazov EA, Hadler J, Stankovich J, Brown MA, 'Resequencing and fine-mapping of the chromosome 12q13-14 locus associated with multiple sclerosis refines the number of implicated genes', HUMAN MOLECULAR GENETICS, 22 2283-2292 (2013) [C1]
DOI 10.1093/hmg/ddt062
Citations Scopus - 10Web of Science - 7
Co-authors Rodney Scott
2013 Nunes LF, Galvão LC, Lopes HS, Moscato P, Berretta R, 'An integer programming model for protein structure prediction using the 3D-HP side chain model', Discrete Applied Mathematics, (2013)

© 2015 Elsevier B.V.In spite of the fact that many simplified model variants of protein structure prediction have been widely studied in the past years, few attention has been gi... [more]

© 2015 Elsevier B.V.In spite of the fact that many simplified model variants of protein structure prediction have been widely studied in the past years, few attention has been given to discrete models with side chains, for which there is no specific benchmark. In this paper, we propose an integer programming model for the 3D-HP side chain protein structure prediction problem. The model accounts for the energy resulting from all types of interactions, between pairs of backbone elements, hydrophilic side chains and hydrophobic side chains. Three sets of instances, modified from the literature, were used in the experiments, and the maximum number of non-local hydrophobic contact was found using the ILOG CPLEX optimization package. We offer the optimal solution found for several instances of the benchmark. It is expected that the mathematical model allow further studies of the protein structure prediction with side chains and may, for some cases, provide new optimal values or new bounds that would rekindle the interest to this fascinating problem domain.

DOI 10.1016/j.dam.2015.06.021
Co-authors Regina Berretta
2013 Patsopoulos NA, Barcellos LF, Hintzen RQ, Schaefer C, Van Duijn CM, Noble JA, et al., 'Fine-Mapping the Genetic Association of the Major Histocompatibility Complex in Multiple Sclerosis: HLA and Non-HLA Effects', PLOS GENETICS, 9 (2013)
DOI 10.1371/journal.pgen.1003926
Citations Web of Science - 40
2013 Lin R, Charlesworth J, Stankovich J, Perreau VM, Brown MA, Taylor BV, Moscato P, 'Identity-by-Descent Mapping to Detect Rare Variants Conferring Susceptibility to Multiple Sclerosis', PLOS ONE, 8 (2013) [C1]
DOI 10.1371/journal.pone.0056379
Citations Scopus - 8Web of Science - 6
Co-authors Rodney Scott
2013 Marsden J, Budden D, Craig H, Moscato P, 'Language Individuation and Marker Words: Shakespeare and His Maxwell's Demon', PLOS ONE, 8 (2013) [C1]
DOI 10.1371/journal.pone.0066813
Citations Scopus - 6Web of Science - 5
Co-authors Hugh Craig
2013 Johnstone DM, Riveros C, Heidari M, Graham RM, Trinder D, Berretta R, et al., 'Evaluation of Different Normalization and Analysis Procedures for Illumina Gene Expression Microarray Data Involving Small Changes', Microarrays, 2 131-152 (2013) [C1]
Co-authors Carlos Riveros, Liz Milward, Rodney Scott, Regina Berretta
2012 Delima RD, Riveros RC, Olynyk JK, Scott R, Moscato PA, Milward AE, et al., 'Brain transcriptome perturbations in the Hfe(-/-) mouse model of genetic iron loading', Brain Research, 1448 144-152 (2012) [C1]
Citations Scopus - 9Web of Science - 7
Co-authors Carlos Riveros, Liz Milward, Rodney Scott
2012 Lill CM, Liu T, Schjeide B-MM, Roehr JT, Akkad DA, Damotte V, et al., 'Closing the case of APOE in multiple sclerosis: no association with disease risk in over 29 000 subjects', Journal of Medical Genetics, 49 558-562 (2012) [C1]
Citations Scopus - 14Web of Science - 14
Co-authors Rodney Scott
2012 Cheng YC, Anderson CD, Bione S, Keene K, Maguire JM, Nalls M, et al., 'Are myocardial infarction-associated single-nucleotide polymorphisms associated with ischemic stroke?', Stroke, 43 980-U143 (2012) [C1]
Citations Scopus - 15Web of Science - 12
Co-authors Rodney Scott, Jane Maguire, Lisa Lincz, John Attia, Liz Holliday, Chris Levi
2012 Carmichael O, Xie J, Fletcher E, Singh B, DeCarli C, 'Localized hippocampus measures are associated with Alzheimer pathology and cognition independent of total hippocampal volume', NEUROBIOLOGY OF AGING, 33 (2012) [C1]
DOI 10.1016/j.neurobiolaging.2011.08.016
Citations Scopus - 18
2012 Schott JM, 'Using CSF biomarkers to replicate genetic associations in Alzheimer's disease', NEUROBIOLOGY OF AGING, 33 (2012) [C1]
DOI 10.1016/j.neurobiolaging.2011.02.008
Citations Web of Science - 3
2012 Vimieiro R, Moscato PA, 'Mining disjunctive minimal generators with TitanicOR', Expert Systems with Applications, 39 8228-8238 (2012) [C1]
Citations Scopus - 5Web of Science - 4
2012 Holliday EG, Maguire JM, Evans T-J, Koblar SA, Jannes J, Sturm J, et al., 'Common variants at 6p21.1 are associated with large artery atherosclerotic stroke', Nature Genetics, 44 1147-1153 (2012) [C1]
Citations Scopus - 65Web of Science - 54
Co-authors Wayne Smith, Christopher Oldmeadow, Rodney Scott, Jane Maguire, Mark Mcevoy, Roseanne Peel, Mark Parsons, John Attia, Lisa Lincz, Chris Levi, Liz Holliday
2012 Clark MB, Johnston RL, Inostroza-Ponta M, Fox AH, Fortini E, Moscato PA, et al., 'Genome-wide analysis of long noncoding RNA stability', Genome Research, 22 885-898 (2012) [C1]
Citations Scopus - 144Web of Science - 93
2012 Johnstone DM, Graham RM, Trinder D, Riveros RC, Olynyk JK, Scott R, et al., 'Changes in brain transcripts related to Alzheimer's disease in a model of HFE hemochromatosis are not consistent with increased Alzheimer's disease risk', Journal of Alzheimers Disease, 30 791-803 (2012) [C1]
Citations Scopus - 4Web of Science - 3
Co-authors Rodney Scott, Liz Milward, Carlos Riveros
2012 Yan J, Liu J, Lin CY, Scott R, Lechner-Scott J, Brown MA, et al., 'Interleukin-6 gene promoter-572 C allele may play a role in rate of disease progression in multiple sclerosis', International Journal of Molecular Sciences, 13 13667-13679 (2012) [C1]
Citations Scopus - 6Web of Science - 6
Co-authors Rodney Scott
2012 Arefin AS, Riveros RC, Berretta RE, Moscato PA, 'GPU-FS-kNN: A software tool for fast and scalable kNN computation using GPUs', PLOS One, 7 e44000 (2012) [C1]
Citations Scopus - 18Web of Science - 6
Co-authors Carlos Riveros, Regina Berretta
2012 Arefin AS, Mathieson L, Johnstone DM, Berretta RE, Moscato PA, 'Unveiling clusters of RNA transcript pairs associated with markers of Alzheimer's disease progression', PLOS One, 7 1-25 (2012) [C1]
Citations Scopus - 16Web of Science - 11
Co-authors Luke Mathieson, Regina Berretta
2012 Johnstone DM, Milward AE, Berretta RE, Moscato PA, 'Multivariate protein signatures of pre-clinical Alzheimer's disease in the Alzheimer's disease meuroimaging initiative (ADNI) plasma proteome dataset', PLoS One, 7 e34341 (2012) [C1]
Citations Scopus - 33Web of Science - 19
Co-authors Liz Milward, Regina Berretta
2011 Ritchie ME, Ruijie L, Carvalho BS, Irizarry RA, Bahlo M, Booth DR, et al., 'Comparing genotyping algorithms for Illumina's Infinium whole-genome SNP BeadChips', BMC Bioinformatics, 12 68-79 (2011) [C1]
DOI 10.1186/1471-2105-12-68
Citations Scopus - 17Web of Science - 11
Co-authors Rodney Scott
2011 Patsopoulos NA, De Bakker PIW, Esposito F, Reischl J, Lehr S, Bauer D, et al., 'Genome-wide meta-analysis identifies novel multiple sclerosis susceptibility loci', Annals of Neurology, 70 897-912 (2011) [C1]
DOI 10.1002/ana.22609
Citations Scopus - 144Web of Science - 111
Co-authors Rodney Scott
2011 De Bakker PIW, Kappos L, Polman CH, Chibnik LB, Hafler DA, Matthews PM, et al., 'Modeling the cumulative genetic risk for multiple sclerosis from genome-wide association data', Genome Medicine, 3 1-11 (2011) [C1]
DOI 10.1186/gm217
Citations Scopus - 39
Co-authors Rodney Scott
2011 Inostroza-Ponta M, Berretta RE, Moscato PA, 'QAPgrid: A two level QAP-based approach for large-scale data analysis and visualization', PLoS ONE, 6 e14468 (2011) [C1]
DOI 10.1371/journal.pone.0014468
Citations Scopus - 12Web of Science - 6
Co-authors Regina Berretta
2011 Rocha De Paula M, Gomez Ravetti M, Berretta RE, Moscato PA, 'Differences in abundances of cell-signalling proteins in blood reveal novel biomarkers for early detection of clinical alzheimer's disease', PLoS ONE, 6 e17481 (2011) [C1]
Citations Scopus - 17Web of Science - 10
Co-authors Regina Berretta
2011 Ma GZM, Stankovich J, Kilpatrick TJ, Binder MD, Field J, Bahlo M, et al., 'Polymorphisms in the receptor tyrosine kinase MERTK gene are associated with multiple sclerosis susceptibility', PLoS ONE, 6 1-6 (2011) [C1]
DOI 10.1371/journal.pone.0016964
Citations Scopus - 13Web of Science - 8
Co-authors Rodney Scott
2011 O'Gorman C, Freeman S, Taylor BV, Butzkueven H, Broadley SA, Bahlo M, et al., 'Familial recurrence risks for multiple sclerosis in Australia', Journal of Neurology, Neurosurgery and Psychiatry, 82 1351-1354 (2011) [C1]
DOI 10.1136/jnnp.2010.233064
Citations Scopus - 8Web of Science - 6
Co-authors Rodney Scott
2011 Oldmeadow CJ, Riveros RC, Holliday EG, Scott R, Moscato PA, Wang JJ, et al., 'Sifting the wheat from the chaff: Prioritizing GWAS results by identifying consistency across analytical methods', Genetic Epidemiology, 35 745-754 (2011) [C1]
DOI 10.1002/gepi.20622
Citations Scopus - 6Web of Science - 5
Co-authors Rodney Scott, John Attia, Christopher Oldmeadow, Liz Holliday, Carlos Riveros
2010 Jensen CJ, Stankovich J, Van der Walt A, Bahlo M, Taylor BV, van der Mei IAF, et al., 'Multiple Sclerosis Susceptibility-Associated SNPs Do Not Influence Disease Severity Measures in a Cohort of Australian MS Patients', PLOS ONE, 5 (2010) [C1]
DOI 10.1371/journal.pone.0010003
Citations Scopus - 21Web of Science - 20
Co-authors Rodney Scott
2010 Berretta RE, Moscato PA, 'Cancer biomarker discovery: The entropic hallmark', Plos One, 5 e12262 (2010) [C1]
DOI 10.1371/journal.pone.0012262
Citations Scopus - 26Web of Science - 13
Co-authors Regina Berretta
2010 Cox MB, Cairns MJ, Gandhi KS, Carroll AP, Moscovis CC, Stewart GJ, et al., 'MicroRNAs miR-17 and miR-20a inhibit T cell activation genes and are under-expressed in MS whole blood', Plos One, 5 e12132 (2010) [C1]
DOI 10.1371/journal.pone.0012132
Citations Scopus - 109Web of Science - 93
Co-authors Rodney Scott, Murray Cairns
2010 Mellor D, Prieto-Rodriguez E, Mathieson L, Moscato PA, 'A kernelisation approach for multiple d-hitting set and its application in optimal multi-drug therapeutic combinations', Plos One, 5 1-13 (2010) [C1]
DOI 10.1371/journal.pone.0013055
Citations Scopus - 4Web of Science - 3
Co-authors Luke Mathieson, Elena Prieto
2010 Ravetti MG, Rosso OA, Berretta RE, Moscato PA, 'Uncovering molecular biomarkers that correlate cognitive decline with the changes of hippocampus' gene expression profiles in Alzheimer's disease', Plos One, 5 1-42 (2010) [C1]
DOI 10.1371/journal.pone.0010153
Citations Scopus - 58Web of Science - 43
Co-authors Regina Berretta
2010 Riveros RC, Mellor D, Gandhi KS, McKay FC, Cox MB, Berretta RE, et al., 'A transcription factor map as revealed by a genome-wide gene expression analysis of whole-blood mRNA transcriptome in multiple sclerosis', Plos One, 5 1-28 (2010) [C1]
DOI 10.1371/journal.pone.0014176
Citations Scopus - 26Web of Science - 24
Co-authors Rodney Scott, Regina Berretta, Carlos Riveros
2010 Rizzi R, Mahata P, Mathieson L, Moscato PA, 'Hierarchical clustering using the arithmetic-harmonic cut: Complexity and experiments', Plos One, 5 1-8 (2010) [C1]
DOI 10.1371/journal.pone.0014067
Citations Scopus - 2Web of Science - 1
Co-authors Luke Mathieson
2010 Field J, Browning SR, Johnson LJ, Danoy P, Varney MD, Tait BD, et al., 'A polymorphism in the HLA-DPB1 gene is associated with susceptibility to multiple sclerosis', PLoS ONE, 5 (2010) [C1]

We conducted an association study across the human leukocyte antigen (HLA) complex to identify loci associated with multiple sclerosis (MS). Comparing 1927 SNPs in 1618 MS cases a... [more]

We conducted an association study across the human leukocyte antigen (HLA) complex to identify loci associated with multiple sclerosis (MS). Comparing 1927 SNPs in 1618 MS cases and 3413 controls of European ancestry, we identified seven SNPs that were independently associated with MS conditional on the others (each P=4×10-6). All associations were significant in an independent replication cohort of 2212 cases and 2251 controls (P=0:001) and were highly significant in the combined dataset (P=6 × 10-8). The associated SNPs included proxies for HLA-DRB1*15:01 and HLA-DRB1*03:01, and SNPs in moderate linkage disequilibrium (LD) with HLA-A*02:01, HLA-DRB1*04:01 and HLA-DRB1*13:03. We also found a strong association with rs9277535 in the class II gene HLA-DPB1 (discovery set P = 9 × 10-9, replication set P = 7 × 10-4, combined P=2 × 10-10). HLA-DPB1 is located centromeric of the more commonly typed class II genes HLA-DRB1, -DQA1 and -DQB1. It is separated from these genes by a recombination hotspot, and the association is not affected by conditioning on genotypes at DRB1, DQA1 and DQB1. Hence rs9277535 represents an independent MS-susceptibility locus of genome-wide significance. It is correlated with the HLA-DPB1*03:01 allele, which has been implicated previously in MS in smaller studies. Further genotyping in large datasets is required to confirm and resolve this association. © 2010 Field et al.

DOI 10.1371/journal.pone.0013454
Citations Scopus - 26
Co-authors Rodney Scott
2010 Gandhi KS, McKay FC, Cox MB, Riveros RC, Armstrong N, Heard RN, et al., 'The multiple sclerosis whole blood mRNA transcriptome and genetic associations indicate dysregulation of specific T cell pathways in pathogenesis', Human Molecular Genetics, 19 2134-2143 (2010) [C1]
DOI 10.1093/hmg/ddq090
Citations Scopus - 47Web of Science - 46
Co-authors Rodney Scott, Carlos Riveros
2009 Rosso OA, Mendes ADS, Rostas JA, Hunter M, Moscato PA, 'Distinguishing childhood absence epilepsy patients from controls by the analysis of their background brain electrical activity', Journal of Neuroscience Methods, 177 461-468 (2009) [C1]
DOI 10.1016/j.jneumeth.2008.10.017
Citations Scopus - 8Web of Science - 9
Co-authors Mick Hunter, John Rostas, Alexandre Mendes
2009 Rosso OA, Mendes ADS, Berretta RE, Rostas JA, Hunter M, Moscato PA, 'Distinguishing childhood absence epilepsy patients from controls by the analysis of their background brain electrical activity (II): A combinatorial optimization approach for electrode selection', Journal of Neuroscience Methods, 181 257-267 (2009) [C1]
DOI 10.1016/j.jneumeth.2009.04.028
Citations Scopus - 11Web of Science - 13
Co-authors John Rostas, Regina Berretta, Mick Hunter, Alexandre Mendes
2009 Capp A, Inostroza-Ponta M, Bill D, Moscato PA, Lai C, Christie D, et al., 'Is there more than one proctitis syndrome? A revisitation using data from the TROG 96.01 trial', Radiotherapy and Oncology, 90 400-407 (2009) [C1]
DOI 10.1016/j.radonc.2008.09.019
Citations Scopus - 47Web of Science - 41
Co-authors Jim Denham, Allison Steigler
2009 Rosso OA, Craig DH, Moscato PA, 'Shakespeare and other English Renaissance authors as characterized by Information Theory complexity quantifiers', Physica A: Statistical Mechanics and its Applications, 388 916-926 (2009) [C1]
DOI 10.1016/j.physa.2008.11.018
Citations Scopus - 24Web of Science - 21
Co-authors Hugh Craig
2009 Bahlo M, Booth DR, Broadley SA, Brown MA, Foote SJ, Griffiths LR, et al., 'Genome-wide association study identifies new multiple sclerosis susceptibility loci on chromosomes 12 and 20', Nature Genetics, 41 824-828 (2009) [C1]
DOI 10.1038/ng.396
Citations Scopus - 311Web of Science - 255
Co-authors Rodney Scott
2009 Ikin A, Riveros RC, Moscato PA, Mendes ADS, 'The Gene Interaction Miner: A new tool for data mining contextual information for protein-protein interaction analysis', Bioinformatics, 26 283-284 (2009) [C1]
DOI 10.1093/bioinformatics/btp652
Citations Scopus - 4Web of Science - 4
Co-authors Carlos Riveros, Alexandre Mendes
2008 Ravetti MG, Moscato PA, 'Identification of a 5-protein biomarker molecular signature for predicting Alzheimer's disease', PLoS ONE, 3 e3111 (2008) [C1]
DOI 10.1371/journal.pone.0003111
Citations Scopus - 35Web of Science - 31
2007 Berretta RE, Mendes ADS, Moscato PA, 'Selection of discriminative genes in microarray experiments using mathematical programming', Journal of Research and Practice in Information Technology, 39 287-299 (2007) [C1]
Citations Scopus - 12Web of Science - 7
Co-authors Regina Berretta, Alexandre Mendes
2007 Moscato PA, Mendes ADS, Berretta RE, 'Benchmarking a Memetic Algorithm for Ordering Microarray Data', Biosystems, 88 56-75 (2007) [C1]
DOI 10.1016/j.biosystems.2006.04.005
Citations Scopus - 31Web of Science - 26
Co-authors Alexandre Mendes, Regina Berretta
2005 Franca PM, Gupta JND, Mendes ADS, Moscato PA, Veltink KJ, 'Evolutionary algorithms for scheduling a flowshop manufacturing cell with sequence dependent family setups', Computers & Industrial Engineering, 48 491-506 (2005) [C1]
DOI 10.1016/j.cie.2003.11.004
Citations Scopus - 86Web of Science - 63
Co-authors Alexandre Mendes
2005 Moscato PA, Cotta A, 'Mining genomic data with metaheuristic techniquese', Special Issue on Biomedical InformaticsEuropean Research Consortium, For Informatics and Mathematics Newsletter, 60 (2005)
2004 Cotta C, Moscato P, 'A memetic-aided approach to hierarchical clustering from distance matrices: application to gene expression clustering and phylogeny (vol 72, pg 75, 2003)', BIOSYSTEMS, 77 229-229 (2004)
DOI 10.1016/j.biosystems.2004.08.004
2004 Buriol L, Franca PM, Moscato PA, 'A new memetic algorithm for the asymmetric traveling salesman problem', Journal of Heuristics, 10 483-506 (2004) [C1]
DOI 10.1023/B:HEUR.0000045321.59202.52
Citations Scopus - 65Web of Science - 40
2004 Gomes LDCT, Zuben FJV, Moscato PA, 'A proposal for direct-ordering gene expression data by self-organising maps', Applied Soft Computing, 5 11-21 (2004) [C1]
DOI 10.1016/j.asoc.2004.03.010
Citations Scopus - 2Web of Science - 2
2003 Cotta C, Moscato P, 'The k-Feature Set problem is W[2]-complete', JOURNAL OF COMPUTER AND SYSTEM SCIENCES, 67 686-690 (2003) [C1]
DOI 10.1016/S0022-0000(03)00081-3
Citations Scopus - 21Web of Science - 15
2003 Cotta C, Mendes A, Garcia V, Franca P, Moscato PA, 'Apply Memetic Algorithms to the Analysis of Microarray Data', Lecture Notes in Computer Science, 2611 22-32 (2003) [C1]
DOI 10.1007/3-540-36605-9_3
2003 Moscato PA, Cotta C, 'A memetic-aided approach to hierarchical clustering from distance matrices: application to gene expression clustering and phylogeny', Biosystems, 72 75-97 (2003) [C1]
DOI 10.1016/S0303-2647(03)00136-9
Citations Scopus - 10Web of Science - 7
2003 Cotta C, Moscato P, 'A mixed evolutionary-statistical analysis of an algorithm's complexity', APPLIED MATHEMATICS LETTERS, 16 41-47 (2003) [C1]
DOI 10.1016/S0893-9659(02)00142-8
Citations Scopus - 5Web of Science - 5
2003 Moscato PA, Cotta C, 'Una introduccion a los algoritmos memeticos', Inteligencia Artificial, Revista Iberoamericana de Inteligencia Artificial, 7 131-148 (2003) [C1]
DOI 10.5195/reviberoamer.1984.3948
2002 Mendes AS, Muller FM, Franca PM, Moscato P, 'Comparing meta-heuristic approaches for parallel machine scheduling problems', PRODUCTION PLANNING & CONTROL, 13 143-154 (2002)
DOI 10.1080/09537280110069649
Citations Scopus - 30Web of Science - 24
Co-authors Alexandre Mendes
2002 Mendes AS, Franca PM, Moscato P, 'Fitness landscapes for the total tardiness single machine scheduling problem', Neural Network World, 12 165-180 (2002)

This paper addresses several issues related to the approximate solution of the Single Machine Scheduling problem with sequence-dependent setup times using metaheuristic methods. I... [more]

This paper addresses several issues related to the approximate solution of the Single Machine Scheduling problem with sequence-dependent setup times using metaheuristic methods. Instances with known optimal solution are solved using a memetic algorithm and a multiple start approach. A fitness landscape analysis is also conducted on a subset of instances to understand the behavior of the two approaches during the optimization process. We also present a novel way to create instances with known optimal solutions from the optimally solved asymmetric travelling salesman problem (ATSP) instances. Finally we argue for the test set of instances to be used in future works as a convenient performance benchmark.

Citations Scopus - 7
Co-authors Alexandre Mendes
2001 Franca PM, Mendes A, Moscato P, 'A memetic algorithm for the total tardiness single machine scheduling problem', EUROPEAN JOURNAL OF OPERATIONAL RESEARCH, 132 224-242 (2001)
DOI 10.1016/S0377-2217(00)00140-5
Citations Scopus - 105Web of Science - 88
Co-authors Alexandre Mendes
1998 Moscato P, Norman MG, 'On the performance of heuristics on finite and infinite fractal instances of the Euclidean Traveling Salesman Problem', INFORMS Journal on Computing, 10 121-132 (1998)

We show how, by a constructive process, we can generate arbitrarily large instances of the Traveling Salesman Problem (TSP) using standard fractals such as those of Peano, Koch, o... [more]

We show how, by a constructive process, we can generate arbitrarily large instances of the Traveling Salesman Problem (TSP) using standard fractals such as those of Peano, Koch, or Sierpinski. We show that optimal solutions for these TSPs can be known a priori, and thus, they provide us with new nontrivial TSP instances offering the possibility of testing heuristics well beyond the scope of testbed instances which have been solved by exact numerical methods. Furthermore, instances may be constructed with different features, for example, with different fractal dimensions. To four of these fractal TSPs we apply three standard constructive heuristics, namely Multiple Fragment, Nearest Neighbor, and Farthest Insertion from Convex-Hull, which have efficient general-purpose implementations. The ability of different algorithms to solve these different fractal TSPs gives us significant insight into the nature of TSP heuristics in a way which is complementary to approaches such as worst-case or average-case analysis. © 1998 INFORMS.

Citations Scopus - 4
1995 Moscato PA, Norman MG, 'The Euclidean traveling salesman problem and a space-filling curve', Chaos, Solitons and Fractals, 6 389-397 (1995)
1995 Moscato PA, Mariano A, Norman MG, 'Arbitrarily large planar ETSP instances with known optimal tours', Pesquisa Operacional, 15 91-98 (1995)
1993 Moscato P, 'An introduction to population approaches for optimization and hierarchical objective functions: A discussion on the role of tabu search', Annals of Operations Research, 41 85-121 (1993)

Population approaches suitable for global combinatorial optimization are discussed in this paper. They are composed of a number of distinguishable individuals called "agents", eac... [more]

Population approaches suitable for global combinatorial optimization are discussed in this paper. They are composed of a number of distinguishable individuals called "agents", each one using a particular optimization strategy. Periods of independent search follow phases on which the population is restarted from new configurations. Due to its intrinsic parallelism and the asynchronicity of the method, it is particularly suitable for parallel computers. Results on two test problems are presented in this paper. The individual search optimization strategies for each agent have been chosen having the basic characteristics of tabu search. This has been done in order to avoid mixing the hypothesized properties of these population approaches with those of more elaborate tabu search strategies, but remarking on its main characteristics. A set of four test problem "landscapes" is discussed and their use to improve and benchmark the results by using tabu search as the individual optimization strategy within a population heuristic is suggested and explored. The application of tabu search to new problem areas, like molecular biology, is also investigated. © 1993 J.C. Baltzer AG, Science Publishers.

DOI 10.1007/BF02022564
Citations Scopus - 36
1990 MOSCATO P, FONTANARI JF, 'STOCHASTIC VERSUS DETERMINISTIC UPDATE IN SIMULATED ANNEALING', PHYSICS LETTERS A, 146 204-208 (1990)
DOI 10.1016/0375-9601(90)90166-L
Citations Scopus - 37Web of Science - 34
Show 85 more journal articles

Conference (100 outputs)

Year Citation Altmetrics Link
2015 Harris M, Berretta R, Inostroza-Ponta M, Moscato P, 'A Memetic Algorithm for the Quadratic Assignment Problem with parallel local search', 2015 IEEE Congress on Evolutionary Computation, CEC 2015 - Proceedings (2015) [E1]

© 2015 IEEE.The Quadratic Assignment Problem (QAP) is a well-studied, NP-Hard combinatorial optimization problem with practical applications in timetabling, scheduling, logistics... [more]

© 2015 IEEE.The Quadratic Assignment Problem (QAP) is a well-studied, NP-Hard combinatorial optimization problem with practical applications in timetabling, scheduling, logistics, circuit design and data visualisation, to name a few. In this paper a Memetic Algorithm is described, which utilises a ternary tree structure for its population and uses a Tabu Search as its local improvement strategy. The Tabu Search is also run in parallel, significantly reducing the running time of the algorithm. The ternary tree not only stores the individuals within the population, but the inherent structure within this tree also determines parent selection for crossover. A small number of rules, which include fitness and diversity-based rules, govern whether a newly produced solution remains within the population, or whether it is discarded. These key features are tested against a basic Memetic Algorithm using the instances from the QAP library, QAPLIB, and have shown to significantly improve the performance in terms of both time and solution quality. The best version of the Memetic Algorithm is shown to perform competitively with some of the state-of-the-art algorithms for the QAP from the literature, with grid-based and real-life instances shown to be solved very efficiently and effectively by the presented algorithms.

DOI 10.1109/CEC.2015.7256978
Co-authors Regina Berretta
2015 Milioli H, Tishchenko I, Riveros C, Berretta R, Moscato P, 'BASAL-LIKE BREAST CANCER SUBGROUPS UNCOVERED BY GENOMIC AND TRANSCRIPTOMIC PROFILES AND OVERALL SURVIVAL OUTCOMES', ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY (2015) [E3]
Co-authors Regina Berretta, Inna Tishchenko
2015 Tishchenko I, Milioli H, Riveros C, Moscato P, 'HOW INTRINSIC ARE LUMINAL BREAST CANCER SUBTYPES?', ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY (2015) [E3]
Co-authors Carlos Riveros, Inna Tishchenko
2015 Tishchenko I, Riveros C, Moscato P, 'REVISION OF MOLECULAR BREAST CANCER SUBTYPES', ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY (2015) [E3]
Co-authors Inna Tishchenko
2015 Arefin AS, Riveros C, Berretta R, Moscato P, 'The MST-kNN with paracliques', Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (2015) [E1]

© Springer International Publishing Switzerland 2015.In this work, we incorporate new edges from a paracliqueidentification approach to the output of theMST-kNN graph partitionin... [more]

© Springer International Publishing Switzerland 2015.In this work, we incorporate new edges from a paracliqueidentification approach to the output of theMST-kNN graph partitioning method. We present a statistical analysis of the results on a dataset originated from a computational linguistic study of 84 Indo-European languages. We also present results from a computational stylistic study of 168 plays of the Shakespearean era. For the latter, results of the Kruskal- Wallis test 1 (observed vs. all permutations) showed a p-value of a 1.62E- 11 and a Wilcoxon test a p-value of 8.1E-12. Overall, our results clearly show in both cases that the modified approach provides statistically more significant results than the use of the MST-kNN alone, thus providing a highly-scalable alternative and statistically sound approach for data clustering.

Co-authors Carlos Riveros, Regina Berretta
2015 Zaher AA, Berretta RE, Arefin AS, Moscato P, 'FSMEC: A Feature Selection Method based on the Minimum Spanning Tree and Evolutionary Computation', Conferences in Research and Practice in Information Technology (CRPIT) (2015) [E1]
Co-authors Regina Berretta
2015 Arefin AS, Berretta RE, Moscato P, 'On Ranking Nodes using kNN Graphs, Shortest-paths and GPUs', Conferences in Research and Practice in Information Technology (CRPIT) (2015) [E1]
Co-authors Regina Berretta
2015 Milioli HH, Tishchenko I, Riveros C, Berretta R, Moscato P, 'Molecular classification of basal-like breast cancer subtypes based on predictive survival markers', ANNALS OF ONCOLOGY (2015) [E3]
DOI 10.1093/annonc/mdv117.11
Co-authors Inna Tishchenko, Carlos Riveros, Regina Berretta
2015 Milioli HH, Tishchenko I, Riveros C, Sakoff J, Berretta R, Moscato P, 'Consensus on breast cancer cell lines classification for an effective and efficient clinical decision-making', ANNALS OF ONCOLOGY (2015) [E3]
DOI 10.1093/annonc/mdv121.8
Co-authors Inna Tishchenko, Jennette Sakoff, Carlos Riveros, Regina Berretta
2015 Milioli HH, Vimieiro R, Tishchenko I, Riveros C, Berretta R, Moscato P, 'Refining the breast cancer molecular subtypes in the METABRIC data set' (2015) [O1]
Co-authors Inna Tishchenko, Regina Berretta
2015 Puthiyedth N, Riveros C, Berretta R, Moscato P, 'A NOVEL COMBINATORIAL OPTIMISATION APPROACH FOR FEATURE SELECTION VIA INTEGRATION OF INFORMATION FROM MULTIPLE DATASETS', ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY (2015) [E3]
Co-authors Carlos Riveros, Regina Berretta
2015 Moslemi Naeni L, Moscato PA, Berretta RE, 'MA-Net: A Reliable Memetic Algorithm for Community Detection by Modularity Optimization', Proceedings of the 18th Asia Pacific Symposium on Intelligent and Evolutionary Systems, Volume 1 (2015) [E1]
DOI 10.1007/978-3-319-13359-1_25
Co-authors Regina Berretta
2014 Warren CFA, Ashton KA, Vilain RE, Braye SG, Moscato P, Bowden NA, 'Association of BCL-2B expression with increased survival and response to stress in melanoma suggests a functional role for this previously uncharacterised isoform.', Keystone Symposia on Molecular and Cellular Biology (2014) [E3]
Co-authors Nikola Bowden, Katie Ashton
2014 Riveros C, Ujaldon M, Moscato P, 'Entropy-based High Performance Computation of Boolean SNP-SNP Interactions Using GPUs', PROCEEDINGS IWBBIO 2014: INTERNATIONAL WORK-CONFERENCE ON BIOINFORMATICS AND BIOMEDICAL ENGINEERING, VOLS 1 AND 2 (2014) [E1]
Co-authors Carlos Riveros
2014 Warren CFA, Ashton KA, Vilain RE, Braye SG, Moscato P, Bowden NA, 'A functional role in cellular stress response and melanoma pathology for the previously uncharacterised isoform, Bcl-2B.', Proceedings of the Inaugural EMBL Australia PhD Symposium (2014) [E3]
Co-authors Katie Ashton, Nikola Bowden
2014 Riveros C, Milioli H, Vimieiro R, Berretta R, Moscato P, 'Discovery of gene interactions by GPU-enabled computation of pairwise expression level metafeatures', International Conference in Bioinformatics InCoB2014 (2014) [E3]
Co-authors Carlos Riveros, Regina Berretta
2014 Milioli HH, Vimieiro R, Riveros C, Berretta R, Moscato P, 'Meta-features as predictors of breast cancer intrinsic subtypes in the METABRIC gene expression dataset', International Conference in Bioinformatics InCoB2014 (2014)
Co-authors Regina Berretta
2014 Ackland SP, Scott RJ, Moscato P, Ovchinkova L, 'A PLATFORM FOR PHARMACOGENOMIC ANALYSIS OF ADVERSE DRUG REACTIONS IN CANCER', ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY (2014) [E3]
Co-authors Stephen Ackland, Rodney Scott
2014 Warren C, Ashton KA, Vilain RE, Braye SG, Moscato P, Bowden NA, 'A FUNCTIONAL ROLE IN MELANOMA PATHOLOGY AND CELLULAR RESPONSE TO STRESS FOR THE PREVIOUSLY UNCHARACTERISED ISOFORM, BCL2B', ASIA-PACIFIC JOURNAL OF CLINICAL ONCOLOGY (2014) [E3]
Co-authors Katie Ashton, Nikola Bowden
2014 Warren C, Ashton KA, Vilain RE, Braye SG, Moscato P, Bowden NA, 'The expression of the previously uncharacterised isoform, Bcl-2B is associated with increased survival in melanoma.', ASMR Satellite scientific meeting proceedings (2014) [E3]
Co-authors Katie Ashton, Nikola Bowden
2014 Moslemi Naeni L, de Vries N, Reis R, Arefin AS, Berretta R, Moscato P, 'Identifying Communities of Trust and Confidence in the Charity and Not-for-Profit Sector: A Memetic Algorithm Approach', Proceedings IEEE Fourth International Conference on Big Data and Cloud Computing (BdCloud) 2014 (2014) [E1]
DOI 10.1109/BDCloud.2014.83
Co-authors Regina Berretta, Natalie Devries
2014 Lucas B, Arefin AS, de Vries NJD, Berretta R, Carlson J, Moscato P, 'Engagement in Motion: Exploring Short Term Dynamics in Page-Level Social Media Metrics', Proceedings of the 2014 IEEE Fourth International Conference on Big Data and Cloud Computing (2014) [E1]
DOI 10.1109/BDCloud.2014.56
Co-authors Jamie Carlson, Natalie Devries, Regina Berretta
2014 de Vries NJ, Arefin AS, Moscato P, 'Gauging Heterogeneity in Online Consumer Behaviour Data: A Proximity Graph Approach', Proceedings the Fourth IEEE International Conference on Big Data and Cloud Computing (BdCloud) (2014) [E1]
DOI 10.1109/BDCloud.2014.23
Co-authors Natalie Devries
2013 Arefin AS, Berretta R, Moscato P, 'A GPU-based Method for Computing Eigenvector Centrality of Gene-expression Networks', Proceedings of the Eleventh Australasian Symposium on Parallel and Distributed Computing (AusPDC 2013) (2013) [E1]
Co-authors Regina Berretta
2013 Milward E, Heidari M, Acikyol B, Graham R, Chua A, Delima R, et al., 'IRON ACCUMULATION IN THE CHOROID PLEXUS AND OTHER BRAIN BARRIER COMPONENTS IN MOUSE MODELS OF HEMOCHROMATOSIS', AMERICAN JOURNAL OF HEMATOLOGY (2013) [E3]
Co-authors Liz Milward
2012 Vimieiro R, Riveros C, Moscato P, 'Mining frequent itemset patterns in age-related macular degeneration' (2012)
Co-authors Carlos Riveros
2012 Riveros C, Vimieiro R, Moscato P, 'Cross-association of epistatic interactions in age-related macular degeneration' (2012)
Co-authors Carlos Riveros
2012 Arefin AS, Riveros RC, Berretta RE, Moscato PA, 'Computing large-scale distance matrices on GPU', Proceedings of 2012 7th International Conference on Computer Science & Education (2012) [E1]
Co-authors Carlos Riveros, Regina Berretta
2012 Arefin AS, Riveros RC, Berretta RE, Moscato PA, 'kNN-MST-Agglomerative: A fast and scalable graph-based data clustering approach on GPU', Proceedings of 2012 7th International Conference on Computer Science & Education (2012) [E1]
Citations Scopus - 8
Co-authors Carlos Riveros, Regina Berretta
2012 Galvao LC, Nunes LF, Lopes HS, Moscato P, 'A new greedy heuristic for 3DHP protein struture prediction with side chain', Proceedings - 2012 IEEE International Conference on Bioinformatics and Biomedicine Workshops, BIBMW 2012 (2012) [E1]
DOI 10.1109/BIBMW.2012.6470229
2012 Arefin AS, Riveros RC, Berretta RE, Moscato PA, 'kNN-Boruvka-GPU: A fast and scalable MST construction from kNN graphs on GPU', Lecture Notes in Computer Science (2012) [E1]
Citations Scopus - 3Web of Science - 3
Co-authors Regina Berretta, Carlos Riveros
2012 Roselli SM, Moscato PA, Scott R, Hondermarck H, 'Breast cancer proteomics: Integrating the data with genomics and histology towards clinical applications', 18th Proteomics Symposium. Delegate Handbook (2012) [E3]
Co-authors Hubert Hondermarck, Rodney Scott
2011 Maguire JM, Holliday EG, Sturm J, Golledge J, Lewis M, Koblar S, et al., 'Australian stroke genetics collaborative: Genetic associations with ischaemic stroke functional outcome', International Journal of Stroke (2011) [E3]
Co-authors Jane Maguire, Lisa Lincz, Rodney Scott, Mark Parsons, John Attia, Liz Holliday, Chris Levi
2011 Ahammed F, Moscato PA, 'Evolving L-systems as an intelligent design approach to find classes of difficult-to-solve traveling salesman problem instances', Applications of Evolutionary Computation: EvoApplications 2011 Proceedings, Part I (2011) [E1]
Citations Web of Science - 1
2011 Arefin AS, Inostroza-Ponta M, Mathieson L, Berretta RE, Moscato PA, 'Clustering nodes in large-scale biological networks using external memory algorithms', Algorithms and Architectures for Parallel Processing (2011) [E1]
DOI 10.1007/978-3-642-24669-2_36
Citations Scopus - 4Web of Science - 4
Co-authors Regina Berretta, Luke Mathieson
2011 Johnstone DM, Acikyol B, Graham R, House M, Trinder D, Olynyk J, et al., 'Gene expression studies in four different mouse models support the case for brain perturbations in iron overload disorders', Program Book: Fourth Congress of the International BioIron Society (IBIS) (2011) [E3]
Co-authors Liz Milward
2011 Johnstone DM, Zandvakili S, Graham R, Trinder D, Scott R, Olynyk J, et al., 'Molecular changes relevant to motor neuron disease in the HFE-/- mouse model of hemochromatosis', Program Book: Fourth Congress of the International BioIron Society (IBIS) (2011) [E3]
Co-authors Liz Milward, Rodney Scott
2010 Arefin AS, Berretta RE, Moscato PA, 'An external memory approach for clustering of large-scale biological networks', Biomarker Discovery Conference (2010) [E3]
Co-authors Regina Berretta
2010 Mellor D, Prieto-Rodriguez E, Mathieson L, Moscato PA, 'Uncovering combinations: Using graph theory to find multi-drug therapies', Biomarker Discovery Conference. Poster Program (2010) [E3]
Co-authors Luke Mathieson, Elena Prieto
2010 Kutmon C, Moscato PA, 'Feature Ranking using a novel statistical scoring system to analyse Prostate Cancer disease progression', Biomarker Discovery Conference. Poster Program (2010) [E3]
2010 Arefin AS, Berretta RE, Moscato P, 'A systematic analysis of 1,881,012 ratios and differences of the gene expression values on hippocampus in Alzheimer¿s Disease patients reveals pairs of protein-coding and noncoding RNAs that are highly correlated with the Mini-Mental State Examination values' (2010)
Co-authors Regina Berretta
2010 Milward, Ravetti M, Rosso O, Berretta RE, Johnstone D, Moscato P, 'A new approach to tracking progression of molecular pathogenesis in Alzheimer¿s disease identifies hippocampla iron dyshomeostasis as a novel potential biomarker' (2010)
Co-authors Regina Berretta, Liz Milward
2010 Dinger M, Arefin A, Berretta RE, Moscato P, 'The hippocampal expression of 31 noncoding RNAs is upregulated in Alzheimer¿s Disease patients and three positively correlate with MMSE results and other biomarkers of disease progression' (2010)
Co-authors Regina Berretta
2010 Moscato P, Ravetti M, Rosso O, Berretta RE, 'Towards a multi-marker molecular signature that identifies biomarkers that correlate with cognitive decline in Alzheimer¿s Disease: The Entropic Perspective' (2010)
Co-authors Regina Berretta
2009 Johnstone DM, Ravetti MG, Riveros C, Moscato PA, Hersey P, Scott R, Milward AE, 'Genome-wide microarray analysis of melanoma reveals unexpected anomalies in iron-related gene expression', 2009 International Biolron Society Meeting: Program Book (2009) [E3]
Co-authors Liz Milward, Carlos Riveros, Rodney Scott
2009 Johnstone DM, Ravetti MG, Moscato PA, Hersey P, Scott R, Milward AE, 'Metabolic gene expression in advanced melanoma', ASMR XVII NSW Scientific Meeting: Programme and Abstracts (2009) [E3]
Co-authors Liz Milward, Rodney Scott
2009 Moscato PA, Machado M, Merode S, Ritt M, Buriol L, 'A new supervised approach to feature selection in microarray datasets', Proceedings of III ERPOSul 2009 Encontro Regional de Pesquisa Operacional da Região Sul (2009)
2009 Milward AE, Johnstone DM, Ravetti MG, Berretta RE, Hersey P, Scott R, Moscato PA, 'The relationship between Parkinson's disease and melanoma: Insights from microarray analysis of genome-wide gene expression changes in melanoma', ASMR National Scientific Conference 2009. Proceedings of The Australian Society for Medical Research, 48th National Scientific Conference (2009) [E3]
Co-authors Liz Milward, Rodney Scott, Regina Berretta
2008 Johnstone DM, Riveros C, Moscato P, Milward EA, 'Effects of different normalisation and analysis procedures on illumina gene expression microarray data' (2008)
Co-authors Carlos Riveros, Liz Milward
2008 Cheung LM, Do Carmo Nicoletti M, Da Silva FH, Moscato PA, 'An effective mutation-based measure for evaluating the suitability of parental sequences to undergo DNA shuffling experiments', Proceedings of the 2008 IEEE Congress on Evolutionary Computation, CEC 2008 (2008) [E1]
DOI 10.1109/cec.2008.4630882
Citations Scopus - 1Web of Science - 1
2007 Cox M, Bowden NA, Moscato PA, Berretta RE, Scott R, 'Memetic algorithms as a new method to interpret gene expression profiles in multiple sclerosis', Multiple Sclerosis (Abstracts of the 23rd Congress of the European Committee for Treatment and Research in Multiple Sclerosis and the 12th Annual Conference of Rehabilitation in Multiple Sclerosis) (2007) [E3]
Citations Web of Science - 2
Co-authors Nikola Bowden, Regina Berretta, Rodney Scott
2007 Hourani MA, Mendes ADS, Berretta RE, Moscato PA, 'Genetic biomarkers for brain hemisphere differentiation in Parkinson's Disease', Computational Models for Life Sciences (CMLS '07): 2007 International Symposium. Conference Proceedings (2007) [E1]
Citations Scopus - 2Web of Science - 2
Co-authors Regina Berretta, Alexandre Mendes
2007 Inostroza-Ponta M, Mendes ADS, Berretta RE, Moscato PA, 'An integrated QAP-based approach to visualize patterns of gene expression similarity', Progress in Artificial Life (2007) [E1]
DOI 10.1007/978-3-540-76931-6_14
Citations Scopus - 2Web of Science - 8
Co-authors Alexandre Mendes, Regina Berretta
2006 Mahata P, Costa WE, Cotta C, Moscato PA, 'Hierarchical clustering, languages and cancer', Lecture Notes in Computer Science (Applications of Evolutionary Computing: EvoWorkshops 2006: EvoBIO, EvoCOMNET, EvoHOT, EvoIASP, EvoINTERACTION, EvoMUSART, and EvoSTOC Proceedings) (2006) [E1]
Citations Scopus - 3Web of Science - 4
2006 Garcia VJ, Franca PM, Mendes ADS, Moscato PA, 'A Parallel Memetic Algorithm Applied to the Total Tardiness Machine Scheduling Problem', IPDPS 2006, 20th International Parallel and Distributed Processing Symposium, 2006 (2006) [E1]
DOI 10.1109/IPDPS.2006.1639514
Co-authors Alexandre Mendes
2006 Inostroza-Ponta M, Berretta RE, Mendes ADS, Moscato PA, 'An automatic graph layout procedure to visualize correlated data', Artificial Intelligence in Theory and Practice (2006) [E1]
Citations Scopus - 7Web of Science - 7
Co-authors Alexandre Mendes, Regina Berretta
2005 Berretta RE, Mendes ADS, Moscato PA, 'Integer Programming Models and Algorithms for Molecular Classification of Cancer from Microarray Data', Proceedings of the twenty eighth Australasian Computer Science Conference (ACSC 2005) Newcastle, Australia, January, 2005 (2005) [E1]
Citations Scopus - 1
Co-authors Regina Berretta, Alexandre Mendes
2005 Moscato PA, Mathieson L, Mendes ADS, Berretta RE, 'The Electronic Primaries: Predicting the U.S. Presidency Using Feature Selection with Safe Data Reduction', Proceedings of the twenty eighth Australasian Computer Science Conference (ACSC 2005) Newcastle, Australia, January, 2005 (2005) [E1]
Citations Scopus - 1
Co-authors Alexandre Mendes, Luke Mathieson, Regina Berretta
2005 Moscato PA, Berretta RE, Hourani MA, Mendes ADS, Cotta C, 'Genes related with Alzheimer's disease: A comparison of evolutionary search, statistical and integer programming approaches', Applications on Evolutionary Computing: EvoWorkkshops 2005: EvoBIO, EvoCOMNET, EvoHOT, EvoIASP, EvoMUSART, and EvoSTOC (2005) [E1]
Citations Scopus - 7Web of Science - 10
Co-authors Regina Berretta, Alexandre Mendes
2005 Berretta RE, Cotta C, Hourani MA, Mendes ADS, Moscato PA, 'Hacia una Mejor Compresion del Perfil Genetico de la Enfermedad de Alzheimer a Traves de Metaheuristicas', Proceedings of the MAEB2005 (2005) [E2]
Co-authors Regina Berretta, Alexandre Mendes
2005 Mendes ADS, Cotta C, Garcia V, Franca P, Moscato PA, 'Gene Ordering in Microarray Data Using Parallel Memetic Algorithms', International Conference Workshops on Parallel Processing, 2005. ICPP 2005 Workshops (2005) [E1]
Citations Scopus - 2Web of Science - 5
Co-authors Alexandre Mendes
2005 Moscato PA, Mendes A, Cotta C, Garcia V, Franca P, 'Parallel memetic algorithms for gene ordering in microarray data', IEEE Computer Society Press (2005)
2005 Moscato PA, Berretta RE, Mendes ADS, 'A New Memetic Algorithm for Ordering Datasets: Applications in Microarray Analysis', Proceedings of MIC2005 (2005) [E2]
Co-authors Alexandre Mendes, Regina Berretta
2005 Cotta C, Moscato PA, 'The Parameterized Complexity of Multiparent Recombination', Proceedings of the MIC2005 (2005) [E1]
2004 Cotta C, Sloper C, Moscato PA, 'Evolutionary search of thresholds for robust feature set selection: application to the analysis of microarray data', Proceedings of The EvoWorkshops 2004 (2004) [E1]
Citations Scopus - 17Web of Science - 21
2003 Cotta C, Mendes A, Garcia V, Franca P, Moscato PA, 'Applying memetic algorithms to the analysis of microarray data', Applications of Evolutionay Computing: EvpWorkshops 2003, EvoBIO, EvoCOP, EvoIASP, EvoMUSART, EvoROB and EvoSTIM: Proceedings (2003) [E1]
Citations Scopus - 9Web of Science - 10
Co-authors Alexandre Mendes
2002 Mendes A, Franca P, Moscato PA, Garcia V, 'Population Studies for the Gate Matrix Layout Problem', Lecture Notes in Computer Science (2002) [C1]
Citations Web of Science - 1
Co-authors Alexandre Mendes
2002 Moscato PA, Gomes L, Von Zuben F, 'Ordering microarray gene expression data using a self-organising neural network', 4th International Conference on Recent Advances in Soft Computing (RASC2002) (2002)
2002 Moscato PA, Buriol L, Cotta C, 'On the analysis of data derived from mitochondrial DNA: Kolmogorov and a traveling salesman give their opinion', Advances in Nature Inspired Computation: the PPSN VII Workshops (2002)
2002 Moscato PA, Gomes L, Von Zuben F, 'Ordering gene expression data using one-dimensional self-organizing maps', I Brazilian Workshop on Bioinformatics (2002)
2002 Moscato PA, Mendes A, Franca P, Garcia V, 'Population studies for the gate matrix layout problem', Proceedings of IBERAMIA2002 - 8th Iberoamerican Conference on Artificial Intelligence (2002)
2002 Cotta C, Moscato P, 'Inferring phylogenetic trees using evolutionary algorithms', Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) (2002)

© Springer-Verlag Berlin Heidelberg 2002.We consider the problem of estimating the evolutionary history of a collection of organisms in terms of a phylogenetic tree. This is a ha... [more]

© Springer-Verlag Berlin Heidelberg 2002.We consider the problem of estimating the evolutionary history of a collection of organisms in terms of a phylogenetic tree. This is a hard combinatorial optimization problem for which different EA approaches are proposed and evaluated. Using two problem instances of different sizes, it is shown that an EA that directly encodes trees and uses ad-hoc operators performs better than several decoder-based EAs, but does not scale well with the problem size. A greedy-decoder EA provides the overall best results, achieving near 100%-success at a lower computational cost than the remaining approaches.

Citations Scopus - 17
2001 Moscato PA, Mendes A, Franca P, 'NP-Opt: An optimization framework for NP problems', Proceedings of POM2001, the International Conference of the Production and Operations Management Society (2001)
2001 Moscato PA, Blesa M, Xhafa F, 'A memetic algorithm for the minimum weighted k-cardinality tree subgraph problem', Proceedings of the 4th Metaheuristic International Conference (2001)
2001 Moscato PA, Berretta R, Cotta C, 'Forma analysis and new heuristic ideas for the number partitioning problem', Proceedings of the 4th Metaheuristic International Conference (2001)
2001 Berretta RE, Moscato P, Cotta C, 'Forma Analysis and New Heuristic Ideas for the Number Partitioning Problem' (2001)
Co-authors Regina Berretta
2000 Moscato PA, Buriol P, Franca P, 'Algoritmo memetico para resolucao do problema do caixeiro viajante assimetrico', Anais da Primeira Oficina de Planejamento e Controle da Producao em Sistemas de Manufatura (2000)
2000 Moscato PA, Franca P, Mendes A, Muller F, 'Memetic algorithms applied to the single machine and parallel machine scheduling problems', Anais da Primeira Oficina de Planejamento e Controle da Producao em Sistemas de Manufatura (2000)
2000 Moscato PA, Franca P, Gupta J, Mendes A, Klass J, Veltink J, 'Evolutionary algorithms for the pure flowshop manufacturing cell problem', Anais da Segunda Oficina de Planejamento e Controle da Producao em Sistemas de Manufatura (2000)
2000 Moscato PA, 'Reduccoes entre problemas: Uma volta aos inicios?', Anais da Segunda Oficina de Planejamento e Controle da Produccao em Sistemas de Manufatura (2000)
2000 Moscato PA, Buriol L, Franca P, 'Algoritmo memetico para o problema do caixeiro viajante', Anais do XXXI Simposio Brasileiro de Pesquisa Operacional (2000)
2000 Moscato PA, Franca P, Gupta J, Mendes A, Veltick K, 'Metaheuristic approaches for the pure flowshop manufacturing cell problem', Proceedings of PMS2000 ¿ 7th International Workshop on Project Management and Scheduling (2000)
2000 Moscato PA, Mendes A, Fran P, 'Fuzzy-evolutionary algorithms applied to scheduling problems', Proceedings of POM2000, First World Conference on Production and Operations Management (2000)
2000 Moscato PA, Buriol L, Franca P, 'New heuristic results for the asymmetric traveling salesman problem', Proceedings of the 4th International Conference on Operations Research Optimization (2000)
1999 Moscato PA, Franca P, Gupta J, Mendes A, Veltink K, 'Novos resultados para o problema de flowshop com familias de tarefas e tempos de preparacao', Anais do XXXI Simposio Brasileiro de Pesquisa Operacional (1999)
1999 Moscato PA, Mendes A, Muller F, Franca P, 'Comparing meta-heuristic approaches for parallel machine scheduling problems with sequence-dependent setup times', Proceedings of CARSFOF¿99, 15th Conference on CAD/CAM Robotics Factories of the Future (1999)
1999 Moscato PA, Franca P, Mendes A, 'Memetic algorithms to minimize tardiness on a single machine scheduling with sequence-dependent setup times', Proceedings of the 5th International Conference of the Decision Sciences Institute (1999)
1995 NORMAN MG, MOSCATO P, 'THE EUCLIDEAN TRAVELING SALESMAN PROBLEM AND A SPACE-FILLING CURVE', CHAOS SOLITONS & FRACTALS (1995)
DOI 10.1016/0960-0779(95)80046-J
Citations Scopus - 14Web of Science - 12
1995 Moscato PA, Krasnogor N, Norman MG, 'A new hybrid heuristic for large geometric traveling salesman problems based on the Delaunay triangulation', . (1995)
1995 Moscato PA, Duran G, Coll PE, 'A discussion on some design principles for efficient crossover operators for graph coloring problems', . (1995)
1995 Moscato PA, Mariano A, Norman MG, 'Using L-Systems to generate arbitrarily large instances of the Euclidean traveling salesman problem with known optimal tours', . (1995)
1994 Moscato PA, Krasnogor N, 'Semidynamic-point sets for polynomial-time learning', . (1994)
1992 MOSCATO P, NORMAN MG, 'A memetic approach for the travelling salesman problem implementation of a computational ecology for combinatorial optimization on message-passing systems', Parallel computing and transputer Applications, Pts 1 & 2 (1992)
Citations Web of Science - 53
1992 Moscato PA, Carrizo J, Tinetti FG, 'A computational ecology for the quadratic assignment problem', . (1992)
1992 Moscato PA, Carrizo J, Tinetti FG, 'A computational ecology for the quadratic assignment problem', . (1992)
1991 Moscato PA, 'The REM-sleep alterations in chronic alcoholism: Its relation with a limit-cycle mutual interaction model for REM-NREM transition', . (1991)
1991 Moscato PA, Figueroa R, Safar F, 'Un algoritmo detector de bordes basado en un mecanismo adaptativo de reconocimiento de patrones y logica de umbral', . (1991)
1991 Moscato PA, Carrizo J, Tinetti FJ, 'Heuristicas para balance de carga computacional y el problema de asignacion cuadratica', . (1991)
1991 Moscato PA, Guerri D, Tinetti FG, 'Algoritmos memeticos para problemas de optimizacion combinatoria', . (1991)
1991 Moscato PA, 'A competitive and cooperative approach to complex combinatorial search', . (1991)
Show 97 more conferences

Report (4 outputs)

Year Citation Altmetrics Link
1992 Moscato PA, Tinetti F, 'Blending Heuristics with a Population-based Approach: A Memetic Algorithm for the Traveling Salesman Problem', . (1992)
1989 Moscato PA, 'On Evolution, Search, Optimization, Genetic Algorithms and Martial Arts: Towards Memetic Algorithms', . (1989)
1989 Moscato PA, Riveros C, 't-expansion and the Mathieu equation', . (1989)
Co-authors Carlos Riveros
1988 Moscato PA, 't-expansion at low orders: Ground State Calculations of Lattice Systems', . (1988)
Show 1 more report
Edit

Grants and Funding

Summary

Number of grants 51
Total funding $13,794,349

Click on a grant title below to expand the full details for that specific grant.


20153 grants / $136,786

New methods for the identification of brain cancer subtypes: A data-driven approach for drug repositioning, therapy response, network pharmacology and novel computer methods for survivability$100,000

Funding body: Maitland Cancer Appeal Committee

Funding body Maitland Cancer Appeal Committee
Project Team Professor Pablo Moscato
Scheme Research Project
Role Lead
Funding Start 2015
Funding Finish 2017
GNo G1500107
Type Of Funding Donation - Aust Non Government
Category 3AFD
UON Y

Bioinformatics analyses of longitudinal plasma metabolomics data$33,041

Funding body: NIH National Institutes of Health

Funding body NIH National Institutes of Health
Project Team Professor Pablo Moscato, Dr Madhav Thambisetty, Dr Cristina Quigley, Associate Professor Ramon Casanova, Dr Sudir Varma, Dr Yang An
Scheme Research Tender
Role Lead
Funding Start 2015
Funding Finish 2015
GNo G1401199
Type Of Funding International - Competitive
Category 3IFA
UON Y

Thelxinoe: erasmus euro-oceanian smart city network$3,745

Funding body: European Commission, European Union

Funding body European Commission, European Union
Project Team Professor Pablo Moscato
Scheme Erasmus Mundus Programme
Role Lead
Funding Start 2015
Funding Finish 2015
GNo G1401505
Type Of Funding International - Competitive
Category 3IFA
UON Y

20143 grants / $458,000

Unleashing the power of a supernetwork-driven approach for bioinformatics$348,000

Funding body: ARC (Australian Research Council)

Funding body ARC (Australian Research Council)
Project Team Professor Pablo Moscato, Associate Professor Regina Berretta
Scheme Discovery Projects
Role Lead
Funding Start 2014
Funding Finish 2016
GNo G1300392
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

Computational prediction and functional clarification of novel drug combination strategies for the treatment of brain tumours$100,000

Funding body: Hunter Medical Research Institute

Funding body Hunter Medical Research Institute
Project Team Professor Pablo Moscato, Associate Professor Regina Berretta
Scheme Project Grant
Role Lead
Funding Start 2014
Funding Finish 2016
GNo G1400454
Type Of Funding Grant - Aust Non Government
Category 3AFG
UON Y

An Investigation on the Consensus Between Different Genomic and Transcriptomic Results in Breast Cancer$10,000

Funding body: Hunter Medical Research Institute

Funding body Hunter Medical Research Institute
Project Team Ms Heloisa Milioli, Professor Pablo Moscato, Doctor Jennette Sakoff, Associate Professor Regina Berretta
Scheme Jennie Thomas Medical Research Travel Grant
Role Lead
Funding Start 2014
Funding Finish 2014
GNo G1401334
Type Of Funding Grant - Aust Non Government
Category 3AFG
UON Y

20136 grants / $2,452,937

THELXINOE: Erasmus Euro-Oceanian Smart City Network$1,814,027

"THELXINOE: Erasmus Euro-Oceanian Smart City Network"is an Erasmus Mundus Action-2 Strand-2 (EMA2/S2) project funded by the European Union. The project has a duration of 48 months, starting in July 2013 and finishing in July 2017.

THELXINOE is based on a partnership composed of 10 universities (6 from Europe + 4 from Australia / New Zealand) and 8 associate
d institutions. The main objective of the project is offering scholarships/fellowships at Doctorate, Postdoc and Staff (Academic /Administrative) levels (Undergraduate and Master are NOT supported) to pursue study/research/teaching in the fields of Engineering, Technology, Mathematics, Informatics. More precisely, the project is focused on the specific field of "smart cities".

Funding body: European Commission, European Union

Funding body European Commission, European Union
Scheme Erasmus Mundus Programme
Role Investigator
Funding Start 2013
Funding Finish 2017
GNo
Type Of Funding International - Competitive
Category 3IFA
UON N

HMRI MRSP Infrastructure (12-16) - IBM (Information Based Medicine Program)$228,910

Funding body: Hunter Medical Research Institute

Funding body Hunter Medical Research Institute
Project Team Professor Rodney Scott, Professor Pablo Moscato
Scheme NSW MRSP Infrastructure Grant
Role Investigator
Funding Start 2013
Funding Finish 2016
GNo G1300874
Type Of Funding Other Public Sector - State
Category 2OPS
UON Y

The integration of bioinformatics, chemoinformatics, and toxicogenomics methods: a new approach for the identification of combination tailored therapies and novel drug targets in breast cancer$210,000

Funding body: Cancer Institute NSW

Funding body Cancer Institute NSW
Project Team Professor Pablo Moscato, Doctor Jennette Sakoff, Associate Professor Regina Berretta
Scheme NSW Premier's Awards for Outstanding Cancer Research: "Big Data, Big Impact" Grant
Role Lead
Funding Start 2013
Funding Finish 2015
GNo G1300826
Type Of Funding Other Public Sector - State
Category 2OPS
UON Y

Towards an early detection of clinical symptoms of Alzheimer's disease$120,000

Funding body: Hunter Medical Research Institute

Funding body Hunter Medical Research Institute
Project Team Professor Pablo Moscato
Scheme Project Grant
Role Lead
Funding Start 2013
Funding Finish 2015
GNo G1300891
Type Of Funding Grant - Aust Non Government
Category 3AFG
UON Y

DVC(R) Research Support for Future Fellow (FT12)$60,000

Funding body: University of Newcastle

Funding body University of Newcastle
Project Team Professor Pablo Moscato
Scheme Future Fellowship Support
Role Lead
Funding Start 2013
Funding Finish 2016
GNo G1201105
Type Of Funding Internal
Category INTE
UON Y

Solving challenging combinatorial optimization problems in bioinformatics by designing high-performance metaheuristics in GPU-CPU supercomputers$20,000

Funding body: University of Newcastle

Funding body University of Newcastle
Project Team Professor Pablo Moscato, Associate Professor Regina Berretta, Associate Professor Carlos Cotta, Dr Michael Langston, Professor Fred Glover, Mr Manuel Ujaldon Martinez
Scheme Near Miss Grant
Role Lead
Funding Start 2013
Funding Finish 2013
GNo G1300461
Type Of Funding Internal
Category INTE
UON Y

20125 grants / $1,651,923

Memetic algorithms for multiobjective optimisation problems in bioinformatics$854,468

Funding body: ARC (Australian Research Council)

Funding body ARC (Australian Research Council)
Project Team Professor Pablo Moscato
Scheme Future Fellowships
Role Lead
Funding Start 2012
Funding Finish 2016
GNo G1101095
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

Memetic algorithms and adaptive memory metaheuristics for large scale combinatorial optimisation problems arising in biomarker discovery $320,000

Funding body: ARC (Australian Research Council)

Funding body ARC (Australian Research Council)
Project Team Professor Pablo Moscato, Associate Professor Regina Berretta, Associate Professor Carlos Cotta, Dr Michael Langston, Professor Fred Glover
Scheme Discovery Projects
Role Lead
Funding Start 2012
Funding Finish 2014
GNo G1100292
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

Project EVA: an environmentally responsible facility for interdisciplinary supercomputing applications$263,000

Funding body: University of Newcastle

Funding body University of Newcastle
Project Team Professor Pablo Moscato, Laureate Professor Jon Borwein, Conjoint Professor Keith Jones, Conjoint Professor Chris Levi, Professor Mark Parsons, Professor Michael Ostwald, Professor Hugh Craig, Conjoint Professor Peter Greer, Associate Professor Stephan Chalup, Associate Professor Regina Berretta
Scheme Equipment Grant
Role Lead
Funding Start 2012
Funding Finish 2012
GNo G1100627
Type Of Funding Internal
Category INTE
UON Y

HMRI MRSP Infrastructure (11-12)- IBM$114,455

Funding body: Hunter Medical Research Institute

Funding body Hunter Medical Research Institute
Project Team Professor Pablo Moscato, Professor Rodney Scott
Scheme NSW MRSP Infrastructure Grant
Role Lead
Funding Start 2012
Funding Finish 2012
GNo G1101138
Type Of Funding Other Public Sector - State
Category 2OPS
UON Y

MRSP Infrastructure (11-12)- IBM Fellow - HMRI Bioinformatics Fellowship$100,000

Funding body: Hunter Medical Research Institute

Funding body Hunter Medical Research Institute
Project Team Professor Pablo Moscato
Scheme NSW MRSP Infrastructure Grant
Role Lead
Funding Start 2012
Funding Finish 2012
GNo G1200516
Type Of Funding Other Public Sector - State
Category 2OPS
UON Y

20114 grants / $293,233

HMRI MRSP Infrastructure Grant (10-11) - IBM$115,480

Funding body: NSW Office for Science & Medical Research

Funding body NSW Office for Science & Medical Research
Project Team Professor Rodney Scott, Professor Pablo Moscato
Scheme Medical Research Support Program
Role Investigator
Funding Start 2011
Funding Finish 2011
GNo G1001066
Type Of Funding Other Public Sector - State
Category 2OPS
UON Y

Assessment of rectal and urinary toxicity from the RADAR prostate radiotherapy trial – dosimetric constraints for novel symptom clustering, derivation of radiobiological parameters and assessment of$100,753

Funding body: NHMRC (National Health & Medical Research Council)

Funding body NHMRC (National Health & Medical Research Council)
Project Team Professor Pablo Moscato, Associate Professor Martin Ebert, Conjoint Professor Jim Denham, Professor David Joseph, Associate Professor Kerwyn Foo, Associate Professor Annette Haworth
Scheme Project Grant
Role Lead
Funding Start 2011
Funding Finish 2013
GNo G1100992
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

Computational prediction and functional clarification of novel drug combination strategies for the treatment of brain tumours$50,000

Funding body: Maitland Cancer Appeal Committee

Funding body Maitland Cancer Appeal Committee
Project Team Professor Pablo Moscato, Dr DAN Johnstone, Associate Professor Regina Berretta, Doctor Luke Mathieson, Professor Manuel Graeber, Doctor Jennette Sakoff
Scheme Research Project
Role Lead
Funding Start 2011
Funding Finish 2011
GNo G1100275
Type Of Funding Donation - Aust Non Government
Category 3AFD
UON Y

The Pierre and Marie Curie GPU computing servers$27,000

Funding body: NHMRC (National Health & Medical Research Council)

Funding body NHMRC (National Health & Medical Research Council)
Project Team Professor Pablo Moscato, Conjoint Professor Peter Greer, Associate Professor Regina Berretta, Dr CARLOS Riveros
Scheme Equipment Grant
Role Lead
Funding Start 2011
Funding Finish 2011
GNo G1100032
Type Of Funding Other Public Sector - Commonwealth
Category 2OPC
UON Y

20106 grants / $1,931,427

Building capacity in pharmacogenomics across NSW: PRIME (Pharmacogenomic Research for Individualised Medicine)$1,498,668

Funding body: The Cancer Council NSW

Funding body The Cancer Council NSW
Project Team

Susan Henshall

Scheme Project Grant
Role Lead
Funding Start 2010
Funding Finish 2014
GNo
Type Of Funding Other Public Sector - State
Category 2OPS
UON N

Genetic associations of early retinal pathologic phenotypes: Data pooling and meta-analyses of multiple populations$182,438

Funding body: NHMRC (National Health & Medical Research Council)

Funding body NHMRC (National Health & Medical Research Council)
Project Team Associate Professor Jie Wang, Professor Eric Boerwinkle, Dr Gerald Liew, Professor Pablo Moscato, Dr Shyong Tai, Dr Alexander Hewitt, Professor John Attia, Associate Professor Yik Teo, Professor Ronald Klein, Doctor Patrick McElduff
Scheme Project Grant
Role Investigator
Funding Start 2010
Funding Finish 2012
GNo G1101153
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

Genetic associations of early retinal pathologic phenotypes: Subproject$108,719

Funding body: NHMRC (National Health & Medical Research Council)

Funding body NHMRC (National Health & Medical Research Council)
Project Team Professor Pablo Moscato
Scheme Project Grant
Role Lead
Funding Start 2010
Funding Finish 2012
GNo GS150006
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

HMRI MRSP Infrastructure Grant 09/10 - IBM$94,604

Funding body: Hunter Medical Research Institute

Funding body Hunter Medical Research Institute
Project Team Professor Rodney Scott, Professor Pablo Moscato
Scheme NSW MRSP Infrastructure Grant
Role Investigator
Funding Start 2010
Funding Finish 2010
GNo G1000560
Type Of Funding Contract - Aust Non Government
Category 3AFC
UON Y

Identification of novel biomarkers for pre-clinical Alzheimer's disease$24,998

Funding body: Hunter Medical Research Institute

Funding body Hunter Medical Research Institute
Project Team Professor Pablo Moscato, Associate Professor Liz Milward, Doctor Martin Ravetti, Dr DAN Johnstone, Dr M Guillemin, Associate Professor Regina Berretta
Scheme Project Grant
Role Lead
Funding Start 2010
Funding Finish 2010
GNo G0900149
Type Of Funding Contract - Aust Non Government
Category 3AFC
UON Y

Sir Ronald Fisher GPU computing cluster $22,000

Funding body: NHMRC (National Health & Medical Research Council)

Funding body NHMRC (National Health & Medical Research Council)
Project Team Professor Pablo Moscato, Conjoint Professor Chris Levi, Associate Professor Regina Berretta
Scheme Equipment Grant
Role Lead
Funding Start 2010
Funding Finish 2010
GNo G1000054
Type Of Funding Other Public Sector - Commonwealth
Category 2OPC
UON Y

20094 grants / $1,678,000

Australian stroke genetics collaborative - Genome-wide association study in ischaemic stroke$1,108,000

Funding body: NHMRC (National Health & Medical Research Council)

Funding body NHMRC (National Health & Medical Research Council)
Project Team Conjoint Professor Chris Levi, Conjoint Associate Professor Jonathan Sturm, Professor John Attia, Professor Rodney Scott, Doctor Lisa Lincz, Dr Simon Koblar, Professor Pablo Moscato
Scheme Project Grant
Role Investigator
Funding Start 2009
Funding Finish 2011
GNo G0188856
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

First Australian Workshop on Bioinformatics for Biomarker Discovery$25,000

Funding body: University of Newcastle

Funding body University of Newcastle
Project Team Professor Pablo Moscato, Professor Rodney Scott
Scheme Special Project Grant
Role Lead
Funding Start 2009
Funding Finish 2009
GNo G0190622
Type Of Funding Internal
Category INTE
UON Y

20082 grants / $948,537

Genes and environment in the risk of early age-related macular degeneration: a population-based case-control study$701,224

Funding body: NHMRC (National Health & Medical Research Council)

Funding body NHMRC (National Health & Medical Research Council)
Project Team Professor John Attia, Conjoint Professor Wayne Smith, Professor Pablo Moscato
Scheme Project Grant
Role Investigator
Funding Start 2008
Funding Finish 2010
GNo G0189168
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

ARC Centre of Excellence for Bioinformatics - UQ$247,313

Funding body: ARC (Australian Research Council)

Funding body ARC (Australian Research Council)
Project Team Professor Pablo Moscato
Scheme ARC Centres of Excellence
Role Lead
Funding Start 2008
Funding Finish 2010
GNo G0188370
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

20074 grants / $903,867

HMRI Emerging Research program - Information based medicine$624,044

Funding body: Hunter Medical Research Institute

Funding body Hunter Medical Research Institute
Project Team Professor Rodney Scott, Professor Pablo Moscato
Scheme NSW MRSP Infrastructure Grant
Role Investigator
Funding Start 2007
Funding Finish 2009
GNo G0187945
Type Of Funding Other Public Sector - State
Category 2OPS
UON Y

Application of novel exact combinatorial optimisation techniques and metaheuristic methods for problems in cancer research$238,291

Funding body: ARC (Australian Research Council)

Funding body ARC (Australian Research Council)
Project Team Professor Pablo Moscato, Professor Rodney Scott, Dr Michael Langston
Scheme Discovery Projects
Role Lead
Funding Start 2007
Funding Finish 2009
GNo G0186327
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

(8) PRC - Priority Research Centre for Bioinformatics, Biomarker Discovery & Information-Based Medicine (CIBM)$21,532

Funding body: University of Newcastle

Funding body University of Newcastle
Project Team Professor Rodney Scott, Professor Pablo Moscato
Scheme Publication Performance Grant
Role Investigator
Funding Start 2007
Funding Finish 2007
GNo G0187968
Type Of Funding Internal
Category INTE
UON Y

Healthy Airways and Obstructive Lung Disease (HAROLD)$20,000

Funding body: Hunter Medical Research Institute

Funding body Hunter Medical Research Institute
Project Team Conjoint Professor Wayne Smith, Associate Professor Lisa Wood, Professor John Attia, Associate Professor Regina Berretta, Professor Pablo Moscato
Scheme Project Grant
Role Investigator
Funding Start 2007
Funding Finish 2007
GNo G0187246
Type Of Funding Contract - Aust Non Government
Category 3AFC
UON Y

20064 grants / $710,139

Predispositions to Multiple Sclerosis in different populations$60,000

Funding body: Multiple Sclerosis Research Australia Limited

Funding body Multiple Sclerosis Research Australia Limited
Project Team

J. Lechner-Scott

Scheme Unknown
Role Lead
Funding Start 2006
Funding Finish 2007
GNo
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON N

Application of novel parameterized complexity techniques to problems in functional genomics$19,946

Funding body: University of Newcastle

Funding body University of Newcastle
Project Team Professor Pablo Moscato, Professor Rodney Scott
Scheme Near Miss Grant
Role Lead
Funding Start 2006
Funding Finish 2006
GNo G0186046
Type Of Funding Internal
Category INTE
UON Y

Identification of single nucleotide polymorphisms that are associated with an increased risk of colectoral cancer$9,050

Funding body: University of Newcastle

Funding body University of Newcastle
Project Team Professor Rodney Scott, Professor Robyn Ward, Assoc. Prof Nicholas Hawkins, Professor John Attia, Conjoint Professor David Sibbritt, Professor Pablo Moscato
Scheme Near Miss Grant
Role Investigator
Funding Start 2006
Funding Finish 2006
GNo G0186073
Type Of Funding Internal
Category INTE
UON Y

20054 grants / $243,500

Evolutionary algorithms for problems in functional genomics data analysis$218,000

Funding body: ARC (Australian Research Council)

Funding body ARC (Australian Research Council)
Project Team Professor Pablo Moscato, Professor Rodney Scott, Associate Professor Regina Berretta
Scheme Discovery Projects
Role Lead
Funding Start 2005
Funding Finish 2007
GNo G0184416
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

The Australian EEG Database - Infrastructure Support$20,000

Funding body: Hunter Medical Research Institute

Funding body Hunter Medical Research Institute
Project Team Emeritus Professor Patricia Michie, Conjoint Associate Professor Mick Hunter, Emeritus Professor John Rostas, Conjoint Associate Professor David Williams, Professor Pablo Moscato, Associate Professor Frans Henskens
Scheme HMRI Brain and Mental Health Research Program
Role Investigator
Funding Start 2005
Funding Finish 2005
GNo G0185719
Type Of Funding Not Known
Category UNKN
UON Y

Australasian Computer Science Week (ACSW'05)$3,000

Funding body: University of Newcastle

Funding body University of Newcastle
Project Team Associate Professor Regina Berretta, Doctor Michael Hannaford, Associate Professor Frans Henskens, Professor Pablo Moscato, Dr Richard Webber
Scheme Conference Establishment Grant
Role Investigator
Funding Start 2005
Funding Finish 2005
GNo G0184971
Type Of Funding Internal
Category INTE
UON Y

The 6th Metaheuristics International Conference (MIC 2005), 22-26 August 2005$2,500

Funding body: University of Newcastle

Funding body University of Newcastle
Project Team Professor Pablo Moscato
Scheme Travel Grant
Role Lead
Funding Start 2005
Funding Finish 2005
GNo G0185581
Type Of Funding Internal
Category INTE
UON Y

20042 grants / $400,000

Centre for Bioinformatics - UQ$390,000

Funding body: ARC (Australian Research Council)

Funding body ARC (Australian Research Council)
Project Team Professor Pablo Moscato, Professor Michael Fellows
Scheme ARC Centres of Excellence
Role Lead
Funding Start 2004
Funding Finish 2006
GNo G0185393
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

Australian Bioinformatics Grid Network$10,000

Funding body: Australian Research Council

Funding body Australian Research Council
Project Team

Pablo Moscato

Scheme ARC Network
Role Lead
Funding Start 2004
Funding Finish 2004
GNo
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON N

20033 grants / $556,000

Newcastle Bioinformatics Initiative$500,000

Funding body: University of Newcastle

Funding body University of Newcastle
Project Team

PABLO MOSCATO

Scheme Unknown
Role Lead
Funding Start 2003
Funding Finish 2005
GNo
Type Of Funding Internal
Category INTE
UON N

Approximate proximity for applications in data mining and visualization$46,000

Funding body: ARC (Australian Research Council)

Funding body ARC (Australian Research Council)
Project Team Professor Michael Fellows, Professor Pablo Moscato
Scheme Discovery Projects
Role Investigator
Funding Start 2003
Funding Finish 2004
GNo G0185110
Type Of Funding Aust Competitive - Commonwealth
Category 1CS
UON Y

Application of metaheuristics and evolutionary computation methods to large-scale optimisation problems in bioinformatics$10,000

Funding body: University of Newcastle

Funding body University of Newcastle
Project Team Professor Pablo Moscato
Scheme New Staff Grant
Role Lead
Funding Start 2003
Funding Finish 2003
GNo G0182753
Type Of Funding Internal
Category INTE
UON Y

20011 grants / $1,430,000

Techniques and advanced concepts of computing and intelligent systems for the treatment of Bioinformatics problems$1,430,000

Funding body: Brazilean Government

Funding body Brazilean Government
Project Team

Prof. F. Von Zuben

Scheme National Program in Biotechnology and Genetic Resources (Brazil)
Role Investigator
Funding Start 2001
Funding Finish 2003
GNo
Type Of Funding External
Category EXTE
UON N
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Research Supervision

Number of supervisions

Completed13
Current13

Total current UON EFTSL

PhD6.29

Current Supervision

Commenced Level of Study Research Title / Program / Supervisor Type
2016 PhD Mining Social Media as a Measure of Equity Market Sentiment
PhD (Accounting & Finance), Faculty of Business and Law, The University of Newcastle
Co-Supervisor
2015 PhD A New Feature Selection Approach Based on Minimum Spanning Tree Using Evolutionary Computation
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Co-Supervisor
2015 PhD MADOC - Memetic Algorithm for Detecting Overlapping Communities
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Co-Supervisor
2014 PhD Improving generalisation in structure-learning of boolean networks
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2014 PhD Multiobjective Quadratic Assignment Problem for Functional Genomics Analysis in Oncology and Neuroscience
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2014 PhD The Multiobjective (a,B)-k-Feature Set Problem Using Memetic Algorithms
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2014 PhD Do Iron Abnormalities Exacerbate Alzheimers Disease? Investigations in Novel Mouse Models
PhD (Medical Genetics), Faculty of Health and Medicine, The University of Newcastle
Co-Supervisor
2013 PhD Expression of the Uncharacterised BCL-2 Isoform, BCL2-B in Melanoma
PhD (Medical Genetics), Faculty of Health and Medicine, The University of Newcastle
Co-Supervisor
2013 PhD Biomarker Discovery in Breast Cancer
PhD (Biological Sciences), Faculty of Science and Information Technology, The University of Newcastle
Principal Supervisor
2012 PhD Combinatorial Optimization Methods for Selecting Features with Applications in Bioinformatics
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2012 PhD Community Detection in Large-Scale Biological Networks
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2012 PhD A Novel Feature Selection Approach for Data Integration Analysis: Applications to Transcriptomics Study
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2012 PhD Genetic Algorithm-Based Ensemble Method for Large-Scale Biological Data Classification
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor

Past Supervision

Year Level of Study Research Title / Program / Supervisor Type
2013 PhD An Integrated, Fast and Scalable Approach for Large-Scale Biological Network Analysis
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2013 PhD Efficient Methods of Feature Selection Based on Combinatorial Optimization Motivated by the Analysis of Large Biological Datasets
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2012 PhD Mining Disjunctive Patterns in Biomedical Data Sets
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2011 PhD Microarray Studies of Genome-Wide Changes in Brain and Heart Gene Expression in Mouse Models of Iron Overload
PhD (Medical Genetics), Faculty of Health and Medicine, The University of Newcastle
Co-Supervisor
2008 PhD An Integrated and Scalable Approach Based on Combinatorial Optimization Techniques for the Analysis of Microarray Data
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2007 PhD Principled Computational Data Mining Methods for Biomarker Discovery Using Microarray Technologies
PhD (Software Engineering), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2007 Honours Off-line alpha-numerical character recognition
Computr Sc Not Elswhere Class, Universidad Nacional de La Plata
Co-Supervisor
2007 Unknown Metaheuristics for combinatorial optimisation problems
Accounting, Universidad Nacional de La Plata
Co-Supervisor
2005 PhD Systematic Kernelization in FPT Algorithm Design
PhD (Computer Science), Faculty of Engineering and Built Environment, The University of Newcastle
Principal Supervisor
2005 Honours Inferring genetic regulatory networks in breast cancer patients using PROSPECT; a visually interactive tool for gene exploration.
Computr Sc Not Elswhere Class, University of Newcastle
Principal Supervisor
1999 Honours Metaheuristics based on memetic algorithms for large instances of the traveling salesman problem
Computr Sc Not Elswhere Class, Unknown
Co-Supervisor
1998 Honours Fast heuristics for the 2D Euclidean TSP based on Delaunay Triangulation and its subgraphs
Computr Sc Not Elswhere Class, Universidad Nacional de La Plata
Co-Supervisor
1998 Honours A co-evolutionary metaheuristic for the traveling salemsna problem
Computr Sc Not Elswhere Class, Universidad Nacional de La Plata
Co-Supervisor
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Research Collaborations

The map is a representation of a researchers co-authorship with collaborators across the globe. The map displays the number of publications against a country, where there is at least one co-author based in that country. Data is sourced from the University of Newcastle research publication management system (NURO) and may not fully represent the authors complete body of work.

Country Count of Publications
Australia 113
Brazil 22
United Kingdom 20
Spain 19
United States 15
More...
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News

Power of the Humanities Publication

September 18, 2015

The Power of the Humanities publication, launched by the Hon Christopher Pyne MP, Minister for Education and Training, has profiled University of Newcastle (UON) excellence in interdisciplinary research.

Pablo Moscato

Pablo Moscato: From bioinformatics to Shakespeare

February 23, 2015

Why does an eminent computer scientist team up with a Renaissance literature expert? To design a study using information theory and computer science methods and determine the authorship of plays and poems where that authorship is unknown or disputed, including some of the works of William Shakespeare.

Pablo Moscato

Unlocking the power of personalised medicine

September 18, 2014

The University of Newcastle's (UON) Professor Pablo Moscato is leading the revolution of how some of medicine's greatest challenges, including Alzheimer's Disease and cancer, are approached.

Letters and Numbers

Letters and numbers

May 15, 2014

The director of the Centre for Literary and Linguistic Computing at the University of Newcastle knows it's not every English scholar's cup of Twinings, but he does love his stats.

The Conversation

Shakespeare and cancer diagnoses: how bard can it be?

July 22, 2013

By Pablo Moscato, University of Newcastle; David Budden, University of Melbourne; Hugh Craig, University of Newcastle, and John W. Marsden, University of Newcastle

Shakespeare's plays and cancer: two seemingly unrelated topics with an underlying common thread.

Blood test for Alzheimers

Newcastle scientists step closer to Alzheimer's blood test

April 3, 2012

An interdisciplinary team of scientists at the University of Newcastle has shown the potential of a simple blood-based test to identify people in the early stages of Alzheimer's disease, before any symptoms appear.

Professor Pablo Moscato

Position

ARC Future Fellow
School of Elect Engineering and Computer Science
Faculty of Engineering and Built Environment

Focus area

Computer Science and Software Engineering

Contact Details

Email pablo.moscato@newcastle.edu.au
Phone (02) 492 16056 (02) 4042 0510
Fax (02) 492 16929

Office

Room ES231
Building Engineering Science - D.W. George
Location Callaghan
University Drive
Callaghan, NSW 2308
Australia
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