Giovanni Stracquadanio, Ph.D. - Publications

Affiliations: 
2006-2010 Dipartimento di Matematica e Informatica Universita di Catania 
 2010-2014 Department of Biomedical Engineering Johns Hopkins University, Baltimore, MD 
 2014- Ludwig Institute for Cancer Research University of Oxford, Oxford, United Kingdom 
Area:
Computational Biology

41 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2017 Richardson SM, Mitchell LA, Stracquadanio G, Yang K, Dymond JS, DiCarlo JE, Lee D, Huang CL, Chandrasegaran S, Cai Y, Boeke JD, Bader JS. Design of a synthetic yeast genome. Science (New York, N.Y.). 355: 1040-1044. PMID 28280199 DOI: 10.1126/science.aaf4557  1
2017 Mitchell LA, Wang A, Stracquadanio G, Kuang Z, Wang X, Yang K, Richardson S, Martin JA, Zhao Y, Walker R, Luo Y, Dai H, Dong K, Tang Z, Yang Y, et al. Synthesis, debugging, and effects of synthetic chromosome consolidation: synVI and beyond. Science (New York, N.Y.). 355. PMID 28280154 DOI: 10.1126/science.aaf4831  1
2017 Shen Y, Wang Y, Chen T, Gao F, Gong J, Abramczyk D, Walker R, Zhao H, Chen S, Liu W, Luo Y, Müller CA, Paul-Dubois-Taine A, Alver B, Stracquadanio G, et al. Deep functional analysis of synII, a 770-kilobase synthetic yeast chromosome. Science (New York, N.Y.). 355. PMID 28280153 DOI: 10.1126/science.aaf4791  1
2017 Wu Y, Li BZ, Zhao M, Mitchell LA, Xie ZX, Lin QH, Wang X, Xiao WH, Wang Y, Zhou X, Liu H, Li X, Ding MZ, Liu D, Zhang L, ... ... Stracquadanio G, et al. Bug mapping and fitness testing of chemically synthesized chromosome X. Science (New York, N.Y.). 355. PMID 28280152 DOI: 10.1126/science.aaf4706  1
2017 Xie ZX, Li BZ, Mitchell LA, Wu Y, Qi X, Jin Z, Jia B, Wang X, Zeng BX, Liu HM, Wu XL, Feng Q, Zhang WZ, Liu W, Ding MZ, ... ... Stracquadanio G, et al. "Perfect" designer chromosome V and behavior of a ring derivative. Science (New York, N.Y.). 355. PMID 28280151 DOI: 10.1126/science.aaf4704  1
2017 Agmon N, Tang Z, Yang K, Sutter B, Ikushima S, Cai Y, Caravelli K, Martin JA, Sun X, Choi WJ, Zhang A, Stracquadanio G, Hao H, Tu BP, Fenyo D, et al. Low escape-rate genome safeguards with minimal molecular perturbation of Saccharomyces cerevisiae. Proceedings of the National Academy of Sciences of the United States of America. PMID 28174266 DOI: 10.1073/pnas.1621250114  1
2016 Stracquadanio G, Yang K, Boeke JD, Bader JS. BioPartsDB: a synthetic biology workflow web-application for education and research. Bioinformatics (Oxford, England). PMID 27412090 DOI: 10.1093/bioinformatics/btw394  1
2016 Stracquadanio G, Wang X, Wallace MD, Grawenda AM, Zhang P, Hewitt J, Zeron-Medina J, Castro-Giner F, Tomlinson IP, Goding CR, Cygan KJ, Fairbrother WG, Thomas LF, Sætrom P, Gemignani F, et al. The importance of p53 pathway genetics in inherited and somatic cancer genomes. Nature Reviews. Cancer. 16: 251-65. PMID 27009395 DOI: 10.1038/nrc.2016.15  1
2016 Stracquadanio G, Greco O, Conca P, Cutello V, Pavone M, Nicosia G. Packing equal disks in a unit square: An immunological optimization approach International Workshop On Artificial Immune Systems, Ais 2015/Icsi3 2015 - Systems Immunology, Immunoinformatics and Immune-Computation: Immunology Without Borders, Proceedings. DOI: 10.1109/AISW.2015.7469239  1
2015 Yang K, Stracquadanio G, Luo J, Boeke JD, Bader JS. BioPartsBuilder: a synthetic biology tool for combinatorial assembly of biological parts. Bioinformatics (Oxford, England). PMID 26568632 DOI: 10.1093/bioinformatics/btv664  1
2015 Shen Y, Stracquadanio G, Wang Y, Yang K, Mitchell LA, Xue Y, Cai Y, Chen T, Dymond JS, Kang K, Gong J, Zeng X, Zhang Y, Li Y, Feng Q, et al. SCRaMbLE generates designed combinatorial stochastic diversity in synthetic chromosomes. Genome Research. PMID 26566658 DOI: 10.1101/gr.193433.115  1
2015 Agmon N, Mitchell LA, Cai Y, Ikushima S, Chuang J, Zheng A, Choi WJ, Martin JA, Caravelli K, Stracquadanio G, Boeke JD. Yeast Golden Gate (yGG) for the Efficient Assembly of S. cerevisiae Transcription Units. Acs Synthetic Biology. 4: 853-9. PMID 25756291 DOI: 10.1021/sb500372z  1
2015 Cai Y, Agmon N, Choi WJ, Ubide A, Stracquadanio G, Caravelli K, Hao H, Bader JS, Boeke JD. Intrinsic biocontainment: multiplex genome safeguards combine transcriptional and recombinational control of essential yeast genes. Proceedings of the National Academy of Sciences of the United States of America. 112: 1803-8. PMID 25624482 DOI: 10.1073/pnas.1424704112  1
2015 Lin Q, Jia B, Mitchell LA, Luo J, Yang K, Zeller KI, Zhang W, Xu Z, Stracquadanio G, Bader JS, Boeke JD, Yuan YJ. RADOM, an efficient in vivo method for assembling designed DNA fragments up to 10 kb long in Saccharomyces cerevisiae. Acs Synthetic Biology. 4: 213-20. PMID 24895839 DOI: 10.1021/sb500241e  1
2015 Conca P, Stracquadanio G, Nicosia G. Automatic tuning of algorithms through sensitivity minimization Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 9432: 14-25. DOI: 10.1007/978-3-319-27926-8_2  1
2014 Annaluru N, Muller H, Mitchell LA, Ramalingam S, Stracquadanio G, Richardson SM, Dymond JS, Kuang Z, Scheifele LZ, Cooper EM, Cai Y, Zeller K, Agmon N, Han JS, Hadjithomas M, et al. Total synthesis of a functional designer eukaryotic chromosome. Science (New York, N.Y.). 344: 55-8. PMID 24674868 DOI: 10.1126/science.1249252  1
2014 Annaluru N, Muller H, Mitchell LA, Ramalingam S, Stracquadanio G, Richardson SM, Dymond JS, Kuang Z, Scheifele LZ, Cooper EM, Cai Y, Zeller K, Agmon N, Han JS, Hadjithomas M, et al. Total synthesis of a functional designer eukaryotic chromosome (Science (2014) 344, 6179 (55-58)) Science. 344. DOI: 10.1126/science.1254596  1
2014 Pappalardo E, Stracquadanio G. Designing groundwater supply systems using the mesh adaptive basin hopping algorithm Optimization in Science and Engineering: in Honor of the 60th Birthday of Panos M. Pardalos. 407-421. DOI: 10.1007/978-1-4939-0808-0_21  1
2013 Carapezza G, Umeton R, Costanza J, Angione C, Stracquadanio G, Papini A, Lió P, Nicosia G. Efficient behavior of photosynthetic organelles via Pareto optimality, identifiability, and sensitivity analysis. Acs Synthetic Biology. 2: 274-88. PMID 23654280 DOI: 10.1021/sb300102k  1
2013 Stracquadanio G, Romano V, Nicosia G. Semiconductor device design using the BiMADS algorithm Journal of Computational Physics. 242: 304-320. DOI: 10.1016/j.jcp.2013.01.025  1
2013 Angione C, Occhipinti A, Stracquadanio G, Nicosia G. Bose-Einstein condensation in satisfiability problems European Journal of Operational Research. 227: 44-54. DOI: 10.1016/j.ejor.2012.11.039  1
2012 Umeton R, Stracquadanio G, Papini A, Costanza J, Liò P, Nicosia G. Identification of sensitive enzymes in the photosynthetic carbon metabolism. Advances in Experimental Medicine and Biology. 736: 441-59. PMID 22161345 DOI: 10.1007/978-1-4419-7210-1_26  1
2012 Stracquadanio G, Pappalardo E, Pardalos PM. A Mesh Adaptive Basin Hopping Method for the Design of Circular Antenna Arrays Journal of Optimization Theory and Applications. 155: 1008-1024. DOI: 10.1007/s10957-012-0112-8  1
2011 Stracquadanio G, Nicosia G. Computational energy-based redesign of robust proteins Computers and Chemical Engineering. 35: 464-473. DOI: 10.1016/j.compchemeng.2010.04.005  1
2011 Stracquadanio G, Umeton R, Costanza J, Annibali V, Mechelli R, Pavone M, Zammataro L, Nicosia G. Large scale agent-based modeling of the humoral and cellular immune response Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 6825: 15-29. DOI: 10.1007/978-3-642-22371-6_2  1
2011 Stracquadanio G, La Ferla A, De Felice M, Nicosia G. Design of robust space trajectories Res. and Dev. in Intelligent Syst. Xxviii: Incorporating Applications and Innovations in Intel. Sys. Xix - Ai 2011, 31st Sgai Int. Conf. On Innovative Techniques and Applications of Artificial Intel.. 341-354. DOI: 10.1007/978-1-4471-2318-7-26  1
2011 Umeton R, Stracquadanio G, Sorathiya A, Papini A, Liò P, Nicosia G. Design of robust metabolic pathways Proceedings - Design Automation Conference. 747-752.  1
2010 Stracquadanio G, Drago C, Romano V, Nicosia G. Multi-objective optimization of doping profile in semiconductor design GECCO track: Real world applications Proceedings of the 12th Annual Genetic and Evolutionary Computation Conference, Gecco '10. 1243-1250. DOI: 10.1145/1830483.1830707  1
2010 Cutello V, Nicosia G, Pavone M, Stracquadanio G. Entropic divergence for population based optimization algorithms 2010 Ieee World Congress On Computational Intelligence, Wcci 2010 - 2010 Ieee Congress On Evolutionary Computation, Cec 2010. DOI: 10.1109/CEC.2010.5586044  1
2010 Stracquadanio G, Drago C, Romano V, Nicosia G. Effective design of semiconductor devices using evolutionary-based derivative free optimization 2010 Ieee World Congress On Computational Intelligence, Wcci 2010 - 2010 Ieee Congress On Evolutionary Computation, Cec 2010. DOI: 10.1109/CEC.2010.5585990  1
2010 Narzisi G, Nicosia G, Stracquadanio G. Robust bio-active peptide prediction using multi-objective optimization 2010 International Conference On Biosciences, Biosciencesworld 2010. 44-50. DOI: 10.1109/BioSciencesWorld.2010.13  1
2010 Stracquadanio G, Umeton R, Papini A, Lio P, Nicosia G. Analysis and optimization of C3 photosynthetic carbon metabolism 10th Ieee International Conference On Bioinformatics and Bioengineering 2010, Bibe 2010. 44-51. DOI: 10.1109/BIBE.2010.17  1
2010 Stracquadanio G, Drago C, Romano V, Nicosia G. An immunological algorithm for doping profile optimization in semiconductors design Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 6209: 213-222. DOI: 10.1007/978-3-642-14547-6_17  1
2010 Cutello V, Nicosia G, Pavone M, Stracquadanio G. An information-theoretic approach for clonal selection algorithms Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 6209: 144-157. DOI: 10.1007/978-3-642-14547-6_12  1
2009 Stracquadanio G, Drago C, Romano V, Nicosia G. Doping profile optimization in semiconductor design 2009 16th Ieee International Conference On Electronics, Circuits and Systems, Icecs 2009. 255-258. DOI: 10.1109/ICECS.2009.5410984  1
2009 Conca P, Nicosia G, Stracquadanio G, Timmis J. Nominal-yield-area tradeoff in automatic synthesis of analog circuits: A genetic programming approach using immune-inspired operators Proceedings - 2009 Nasa/Esa Conference On Adaptive Hardware and Systems, Ahs 2009. 399-406. DOI: 10.1109/AHS.2009.32  1
2009 Nicosia G, Stracquadanio G. A design-for-yield algorithm to assess and improve the structural and energetic robustness of proteins and drugs Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 5526: 245-256. DOI: 10.1007/978-3-642-02011-7_23  1
2008 Nicosia G, Stracquadanio G. Generalized pattern search algorithm for Peptide structure prediction. Biophysical Journal. 95: 4988-99. PMID 18487293 DOI: 10.1529/biophysj.107.124016  1
2008 Ciccazzo A, Halfmann T, Marotta A, Nicosia G, Rinaudo S, Stracquadanio G, Venturi A. New coupled EM and circuit simulation flow for integrated spiral inductor by introducing symbolic simplified expressions Ieee International Symposium On Industrial Electronics. 1203-1208. DOI: 10.1109/ISIE.2008.4677177  1
2008 Ciccazzo A, Conca P, Nicosia G, Stracquadanio G. An advanced clonal selection algorithm with ad-hoc network-based hypermutation operators for synthesis of topology and sizing of analog electrical circuits Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 5132: 60-70. DOI: 10.1007/978-3-540-85072-4_6  1
2007 Nicosia G, Stracquadanio G. Generalized pattern search and mesh adaptive direct search algorithms for protein structure prediction Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 4645: 183-193.  1
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