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ORCIDAlex Zelikovsky
Alexander Zelikovsky
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- affiliation: Georgia State University, Department of Computer Science
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2020 – today
- 2025
[j96]Filipp Rondel, Hafsa Farooq
, Roya Hosseini, Akshay Juyal, Sergey Knyazev, Serghei Mangul, Artem S. Rogovskyy, Alexander Zelikovsky:
Estimating Enzyme Expression and Metabolic Pathway Activity in Borreliella-Infected and Uninfected Mice. J. Comput. Biol. 32(2): 188-197 (2025)- [e12]Mukul S. Bansal, Wei Chen, Yury Khudyakov, Ion I. Mandoiu, Marmar Moussa, Murray Patterson, Sanguthevar Rajasekaran, Pavel Skums, Sharma V. Thankachan, Alexander Zelikovsky:
Computational Advances in Bio and Medical Sciences - 12th International Conference, ICCABS 2023, Norman, OK, USA, December 11-13, 2023, Revised Selected Papers. Lecture Notes in Computer Science 14548, Springer 2025, ISBN 978-3-031-82767-9 [contents] - 2024
- [j95]Zhipeng Cai, Alexander Zelikovsky:
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 21(5): 1141-1142 (2024) - [c141]Bikram Sahoo, Nikita Jinna, Padmashree Rida, Zandra Pinnix, Alex Zelikovsky:
Machine Learning-Driven Discovery of Quadruple-Negative Breast Cancer Subtypes from Gene Expression Data. ISBRA (1) 2024: 182-195 - [c140]Fatemeh Mohebbi, Alexander Zelikovsky, Serghei Mangul, Gerardo Chowell, Pavel Skums:
Community Structure and Temporal Dynamics of Viral Epistatic Networks Allow for Early Detection of Emerging Variants with Altered Phenotypes. RECOMB 2024: 356-359 - 2023
- [j94]Mukul S. Bansal, Ion I. Mandoiu, Marmar Moussa, Murray Patterson, Sanguthevar Rajasekaran, Pavel Skums, Alexander Zelikovsky:
Special Issue: 11th International Computational Advances in Bio and Medical Sciences (ICCABS 2021). J. Comput. Biol. 30(4): 363-365 (2023) - [j93]Bikram Sahoo, Zandra Pinnix, Seth Sims, Alex Zelikovsky:
Identifying Biomarkers Using Support Vector Machine to Understand the Racial Disparity in Triple-Negative Breast Cancer. J. Comput. Biol. 30(4): 502-517 (2023) - [j92]Zhipeng Cai, Pavel Skums, Alexander Zelikovsky:
Special Issue, Part I 18th International Symposium on Bioinformatics Research and Applications (ISBRA 2022). J. Comput. Biol. 30(8): 829-830 (2023) - [j91]Akshay Juyal, Roya Hosseini, Daniel Novikov, Mark Grinshpon, Alex Zelikovsky:
Reconstruction of Viral Variants via Monte Carlo Clustering. J. Comput. Biol. 30(9): 1009-1018 (2023) - [j90]Sarwan Ali, Bikram Sahoo, Muhammad Asad Khan, Alexander Zelikovsky, Imdad Ullah Khan, Murray Patterson:
Efficient Approximate Kernel Based Spike Sequence Classification. IEEE ACM Trans. Comput. Biol. Bioinform. 20(6): 3376-3388 (2023) - [c139]Akshay Juyal, Zahra Tayebi, Alexander Zelikovsky, Mauricio Soto Gomez, Simone Ciccolella, Gianluca Della Vedova, Murray Patterson:
Plastic: An Easy to Use and Modular Tool for Benchmarking Tumor Phylogeny Reconstruction Pipelines. ICCABS 2023: 82-93 - [c138]Bikram Sahoo, Nikita Jinna, Padmashree Rida, Zandra Pinnix, Alex Zelikovsky:
Decoding Heterogeneity in Quadruple-Negative Breast Cancer: A Data-driven Clustering Approach. ICCABS 2023: 203-217 - [c137]Hossein Saghaian, Pavel Skums, Yurij Ionov, Alex Zelikovsky:
Graph-Based Motif Discovery in Mimotope Profiles of Serum Antibody Repertoire. ISBRA 2023: 214-226 - [c136]Hafsa Farooq, Daniel Novikov, Akshay Juyal, Alexander Zelikovsky:
Genetic Algorithm with Evolutionary Jumps. ISBRA 2023: 453-463 - [c135]Bikram Sahoo, Temitope Adeyeha, Zandra Pinnix, Alex Zelikovsky:
Exploring Racial Disparities in Triple-Negative Breast Cancer: Insights from Feature Selection Algorithms. ISBRA 2023: 487-497 - [c134]Bikram Sahoo, Zandra Pinnix, Alex Zelikovsky:
Deep Learning Reveals Biological Basis of Racial Disparities in Quadruple-Negative Breast Cancer. ISBRA 2023: 498-508 - [c133]Zahra Tayebi, Akshay Juyal, Alexander Zelikovsky, Murray Patterson:
Simulating Tumor Evolution from scDNA-Seq as an Accumulation of both SNVs and CNAs. ISBRA 2023: 530-540 - [e11]Xuan Guo, Serghei Mangul, Murray Patterson, Alexander Zelikovsky:
Bioinformatics Research and Applications - 19th International Symposium, ISBRA 2023, Wrocław, Poland, October 9-12, 2023, Proceedings. Lecture Notes in Computer Science 14248, Springer 2023, ISBN 978-981-99-7073-5 [contents] - 2022
- [j89]Zhipeng Cai, Pavel Skums, Alexander Zelikovsky:
17th International Symposium on Bioinformatics Research and Applications (ISBRA 2021). J. Comput. Biol. 29(10): 1059-1060 (2022) - [j88]Fengpan Zhao, Pavel Skums, Alex Zelikovsky, Eric L. Sevigny, Monica Haavisto Swahn, Sheryl M. Strasser, Yan Huang, Yubao Wu:
Computational Approaches to Detect Illicit Drug Ads and Find Vendor Communities Within Social Media Platforms. IEEE ACM Trans. Comput. Biol. Bioinform. 19(1): 180-191 (2022) - [c132]Akshay Juyal, Roya Hosseini, Daniel Novikov, Mark Grinshpon, Alex Zelikovsky:
Entropy Based Clustering of Viral Sequences. ISBRA 2022: 369-380 - [e10]Mukul S. Bansal, Ion I. Mandoiu, Marmar Moussa, Murray Patterson, Sanguthevar Rajasekaran, Pavel Skums, Alexander Zelikovsky:
Computational Advances in Bio and Medical Sciences: 11th International Conference, ICCABS 2021, Virtual Event, December 16-18, 2021, Revised Selected Papers. Lecture Notes in Computer Science 13254, Springer International Publishing 2022, ISBN 978-3-031-17530-5 [contents] - [i12]Sarwan Ali, Bikram Sahoo, Muhammad Asad Khan, Alexander Zelikovsky, Imdad Ullah Khan, Murray Patterson:
Efficient Approximate Kernel Based Spike Sequence Classification. CoRR abs/2209.04952 (2022) - 2021
- [j87]Sergey Knyazev, Lauren Hughes, Pavel Skums, Alexander Zelikovsky:
Epidemiological data analysis of viral quasispecies in the next-generation sequencing era. Briefings Bioinform. 22(1): 96-108 (2021) - [j86]Ion I. Mandoiu, T. M. Murali, Giri Narasimhan, Sanguthevar Rajasekaran, Pavel Skums, Alexander Zelikovsky:
Special Issue: 9th International Computational Advances in Bio and Medical Sciences (ICCABS 2019). J. Comput. Biol. 28(2): 115-116 (2021) - [j85]Zhipeng Cai, Pavel Skums, Yuri Porozov, Alexander Zelikovsky:
Special Issue: 16th International Symposium on Bioinformatics Research and Applications (ISBRA 2020). J. Comput. Biol. 28(7): 636 (2021) - [j84]Zhipeng Cai, Pavel Skums, Yuri Porozov, Alexander Zelikovsky:
Special Issue: 16th International Symposium on Bioinformatics Research and Applications (ISBRA 2020). J. Comput. Biol. 28(8): 745-746 (2021) - [j83]Filipp Rondel, Roya Hosseini, Bikram Sahoo, Sergey Knyazev, Igor Mandric, Frank Stewart, Ion I. Mandoiu, Bogdan Pasaniuc, Yuri Porozov, Alexander Zelikovsky:
Pipeline for Analyzing Activity of Metabolic Pathways in Planktonic Communities Using Metatranscriptomic Data. J. Comput. Biol. 28(8): 842-855 (2021) - [j82]Sumit Kumar Jha, Ion I. Mandoiu, Sanguthevar Rajasekaran, Pavel Skums, Alexander Zelikovsky:
Special Issue: 10th International Computational Advances in Bio and Medical Sciences (ICCABS 2020). J. Comput. Biol. 28(11): 1033-1034 (2021) - [j81]Andrew Melnyk, Fatemeh Mohebbi, Sergey Knyazev, Bikram Sahoo, Roya Hosseini, Pavel Skums, Alex Zelikovsky, Murray Patterson:
From Alpha to Zeta: Identifying Variants and Subtypes of SARS-CoV-2 Via Clustering. J. Comput. Biol. 28(11): 1113-1129 (2021) - [j80]Daniel Novikov, Sergey Knyazev, Mark Grinshpon, Pelin B. Icer, Pavel Skums, Alex Zelikovsky:
Scalable Reconstruction of SARS-CoV-2 Phylogeny with Recurrent Mutations. J. Comput. Biol. 28(11): 1130-1141 (2021) - [c131]Bikram Sahoo, Seth Sims, Alexander Zelikovsky:
An SVM Based Approach to Study the Racial Disparity in Triple-Negative Breast Cancer. ICCABS 2021: 163-175 - [c130]Sergey Knyazev, Daniel Novikov, Mark Grinshpon, Harman Singh, Ram Ayyala, Varuni Sarwal, Roya Hosseini, Pelin Icer Baykal, Pavel Skums, Ellsworth Campbell, Serghei Mangul, Alex Zelikovsky:
A Novel Network Representation of SARS-CoV-2 Sequencing Data. ISBRA 2021: 165-175 - [e9]Sumit Kumar Jha, Ion I. Mandoiu, Sanguthevar Rajasekaran, Pavel Skums, Alex Zelikovsky:
Computational Advances in Bio and Medical Sciences - 10th International Conference, ICCABS 2020, Virtual Event, December 10-12, 2020, Revised Selected Papers. Lecture Notes in Computer Science 12686, Springer 2021, ISBN 978-3-030-79289-3 [contents] - 2020
- [j79]Zhipeng Cai, Pavel Skums, Alexander Zelikovsky:
Preface Special Issue: 15th International Symposium on Bioinformatics Research and Applications (ISBRA 2019). J. Comput. Biol. 27(2): 131-132 (2020) - [j78]Viachaslau Tsyvina, Alex Zelikovsky, Sagi Snir, Pavel Skums:
Inference of mutability landscapes of tumors from single cell sequencing data. PLoS Comput. Biol. 16(11) (2020) - [c129]Keith Mitchell, Jaqueline J. Brito, Igor Mandric, Qiaozhen Wu, Sergey Knyazev, Sei Chang, Lana S. Martin, Aaron Karlsberg, Ekaterina Gerasimov, Russell Littman, Brian L. Hill, Nicholas C. Wu, Harry (Taegyun) Yang, Kevin Hsieh, Linus Chen, Eli Littman, Taylor Shabani, German Enik, Douglas Yao, Ren Sun, Jan Schroeder, Eleazar Eskin, Alex Zelikovsky, Pavel Skums, Mihai Pop, Serghei Mangul:
Benchmarking of computational error-correction methods for next-generation sequencing data. BCB 2020: 63:1 - [c128]Andrew Melnyk, Fatemeh Mohebbi, Sergey Knyazev, Bikram Sahoo, Roya Hosseini, Pavel Skums, Alex Zelikovsky, Murray Patterson:
Clustering Based Identification of SARS-CoV-2 Subtypes. ICCABS 2020: 127-141 - [c127]Filipp Rondel, Akram Sadat Hosseini, Bikram Sahoo, Sergey Knyazev, Igor Mandric, Frank Stewart, Ion I. Mandoiu, Bogdan Pasaniuc, Alex Zelikovsky:
Estimating Enzyme Participation in Metabolic Pathways for Microbial Communities from RNA-seq Data. ISBRA 2020: 335-343 - [e8]Ion I. Mandoiu, T. M. Murali, Giri Narasimhan, Sanguthevar Rajasekaran, Pavel Skums, Alexander Zelikovsky:
Computational Advances in Bio and Medical Sciences - 9th International Conference, ICCABS 2019, Miami, FL, USA, November 15-17, 2019, Revised Selected Papers. Lecture Notes in Computer Science 12029, Springer 2020, ISBN 978-3-030-46164-5 [contents]
2010 – 2019
- 2019
- [j77]Pavel Skums, Viachaslau Tsyvina, Alex Zelikovsky:
Inference of clonal selection in cancer populations using single-cell sequencing data. Bioinform. 35(14): i398-i407 (2019) - [j76]Zhipeng Cai, Pavel Skums, Alexander Zelikovsky:
Preface: 14th International Symposium on Bioinformatics Research and Applications (ISBRA 2018). J. Comput. Biol. 26(8): 767-768 (2019) - [j75]Ion I. Mandoiu, Pavel Skums, Alexander Zelikovsky:
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 16(4): 1362-1363 (2019) - [c126]Yury Khudyakov, Ion I. Mandoiu, Pavel Skums, Alexander Zelikovsky:
Workshop on Computational Advances in Molecular Epidemiology. BCB 2019: 561 - [c125]Fengpan Zhao, Pavel Skums, Alex Zelikovsky, Eric L. Sevigny, Monica Haavisto Swahn, Sheryl M. Strasser, Yubao Wu:
Detecting Illicit Drug Ads in Google+ Using Machine Learning. ISBRA 2019: 171-179 - [i11]David Laehnemann, Johannes Köster, Ewa Szczurek, Davis J. McCarthy, Stephanie C. Hicks, Mark D. Robinson, Catalina A. Vallejos, Niko Beerenwinkel, Kieran R. Campbell, Ahmed Mahfouz, Luca Pinello, Pavel Skums, Alexandros Stamatakis, Camille Stephan-Otto Attolini, Samuel Aparicio, Jasmijn A. Baaijens, Marleen Balvert, Buys de Barbanson, Antonio Cappuccio, Giacomo Corleone, Bas E. Dutilh, Maria Florescu, Victor Guryev, Rens Holmer, Katharina Jahn, Thamar Jessurun Lobo, Emma M. Keizer, Indu Khatri, Szymon M. Kielbasa, Jan O. Korbel, Alexey M. Kozlov, Tzu-Hao Kuo, Boudewijn P. F. Lelieveldt, Ion I. Mandoiu, John C. Marioni, Tobias Marschall, Felix Mölder, Amir Niknejad, Lukasz Raczkowski, Marcel J. T. Reinders, Jeroen de Ridder, Antoine-Emmanuel Saliba, Antonios Somarakis, Oliver Stegle, Fabian J. Theis, Huan Yang, Alex Zelikovsky, Alice C. McHardy, Benjamin J. Raphael, Sohrab P. Shah, Alexander Schönhuth:
12 Grand Challenges in Single-Cell Data Science. PeerJ Prepr. 7: e27885 (2019) - 2018
- [j74]Pavel Skums, Alex Zelikovsky, Rahul Singh, Walker Gussler, Zoya Dimitrova, Sergey Knyazev, Igor Mandric, Sumathi Ramachandran, David S. Campo, Deeptanshu Jha, Leonid Bunimovich, Elizabeth Costenbader, Connie Sexton, Siobhán O'Connor, Guo-liang Xia, Yury Khudyakov:
QUENTIN: reconstruction of disease transmissions from viral quasispecies genomic data. Bioinform. 34(1): 163-170 (2018) - [j73]Igor Mandric, Sergey Knyazev, Alex Zelikovsky:
Repeat-aware evaluation of scaffolding tools. Bioinform. 34(15): 2530-2537 (2018) - [j72]Seth Sims, Atkinson G. Longmire, David S. Campo, Sumathi Ramachandran, Magdalena Medrzycki, Lilia Ganova-Raeva, Yulin Lin, Amanda Sue, Hong Thai, Alexander Zelikovsky, Yury Khudyakov:
Automated quality control for a molecular surveillance system. BMC Bioinform. 19-S(11): 358:1-358:15 (2018) - [j71]Viachaslau Tsyvina, David S. Campo, Seth Sims, Alex Zelikovsky, Yury Khudyakov, Pavel Skums:
Fast estimation of genetic relatedness between members of heterogeneous populations of closely related genomic variants. BMC Bioinform. 19-S(11): 360:1-360:10 (2018) - [j70]Zhipeng Cai, Pavel Skums, Alexander Zelikovsky:
Special IssuePreface: 13th International Symposium on BioinformaticsResearch and Applications (ISBRA 2017). J. Comput. Biol. 25(3): 251-252 (2018) - [c124]Yury Khudyakov, Ion I. Mandoiu, Pavel Skums, Alexander Zelikovsky:
ACM-BCB 2018 Computational Advances in Molecular Epidemiology (CAME) Chairs' Welcome. BCB 2018: 574 - [c123]Kwangsoo Han, Andrew B. Kahng, Christopher Moyes, Alex Zelikovsky:
A study of optimal cost-skew tradeoff and remaining suboptimality in interconnect tree constructions. SLIP@DAC 2018: 2:1-2:8 - [c122]Yubao Wu, Pavel Skums, Alex Zelikovsky, David Stiven Campo Rendon, Xueting Liao:
Predicting Opioid Epidemic by Using Twitter Data. ISBRA 2018: 314-318 - [p3]Andrew B. Kahng, Ion I. Mandoiu, Alexander Zelikovsky:
Practical Approximations of Steiner Trees in Uniform Orientation Metrics. Handbook of Approximation Algorithms and Metaheuristics (1) 2018: 657-669 - [p2]Ion I. Mandoiu, Alex Olshevsky, Alexander Zelikovsky:
QoS Multimedia Multicast Routing. Handbook of Approximation Algorithms and Metaheuristics (2) 2018 - [e7]Donghyun Kim, R. N. Uma, Alexander Zelikovsky:
Combinatorial Optimization and Applications - 12th International Conference, COCOA 2018, Atlanta, GA, USA, December 15-17, 2018, Proceedings. Lecture Notes in Computer Science 11346, Springer 2018, ISBN 978-3-030-04650-7 [contents] - 2017
- [j69]Igor Mandric, Yvette Temate-Tiagueu, Tatiana Shcheglova, Sahar Al Seesi, Alex Zelikovsky, Ion I. Mandoiu:
Fast bootstrapping-based estimation of confidence intervals of expression levels and differential expression from RNA-Seq data. Bioinform. 33(20): 3302-3304 (2017) - [j68]Ekaterina Gerasimov, Alex Zelikovsky, Ion I. Mandoiu, Yurij Ionov:
Identification of cancer-specific motifs in mimotope profiles of serum antibody repertoire. BMC Bioinform. 18(8): 244:1-244:6 (2017) - [j67]Alexander Artyomenko, Nicholas C. Wu, Serghei Mangul, Eleazar Eskin, Ren Sun, Alex Zelikovsky:
Long Single-Molecule Reads Can Resolve the Complexity of the Influenza Virus Composed of Rare, Closely Related Mutant Variants. J. Comput. Biol. 24(6): 558-570 (2017) - [j66]Robert W. Harrison, Ion I. Mandoiu, Alexander Zelikovsky:
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 14(3): 576-577 (2017) - [c121]Yury Khudyakov, Ion I. Mandoiu, Pavel Skums, Alexander Zelikovsky:
CAME 2017: 6th Workshop on Computational Advances in Molecular Epidemiology. BCB 2017: 775 - [c120]Sunitha Basodi, Pelin Burcak Icer, Pavel Skums, Yury Khudyakov, Alexander Zelikovsky, Yi Pan:
Classification of HCV infections through sequence image normalization. ICCABS 2017: 1 - [c119]Pelin Icer Baykal, Alexander Artyomenko, Sumathi Ramachandran, Yury Khudyakov, Alex Zelikovsky, Pavel Skums:
Assessment of HCV infection stage as recent or chronic using multi-parameter analysis and machine learning. ICCABS 2017: 1 - [c118]Viachaslau Tsyvina, David S. Campo, Seth Sims, Alex Zelikovsky, Yury Khudyakov, Pavel Skums:
Efficient filtering algorithm for detection of genetic similarity between large genomic datasets. ICCABS 2017: 1 - [c117]Igor Mandric, Sergey Knyazev, Cory Padilla, Frank Stewart, Ion I. Mandoiu, Alex Zelikovsky:
Metabolic Analysis of Metatranscriptomic Data from Planktonic Communities. ISBRA 2017: 396-402 - [c116]Alexander Artyomenko, Pelin B. Icer, Pavel Skums, Sumathi Ramachandran, Yury Khudyakov, Alex Zelikovsky:
Agent-Based in Silico Evolution of HCV Quasispecies. ISBRA 2017: 420-424 - [c115]Deeptanshu Jha, Pavel Skums, Alex Zelikovsky, Yury Khudyakov, Rahul Singh:
Modeling the Spread of HIV and HCV Infections Based on Identification and Characterization of High-Risk Communities Using Social Media. ISBRA 2017: 425-430 - 2016
- [j65]Zhipeng Cai, Alexander Zelikovsky:
Computing and Combinatorics. Algorithmica 76(4): 865-866 (2016) - [j64]Zhipeng Cai, Alexander Zelikovsky:
Special issue on Computing and Combinatorics Conference. Theor. Comput. Sci. 609: 515 (2016) - [c114]Serghei Mangul, Harry (Taegyun) Yang, Farhad Hormozdiari, Elizabeth Tseng, Alex Zelikovsky, Eleazar Eskin:
HapIso: An Accurate Method for the Haplotype-Specific Isoforms Reconstruction from Long Single-Molecule Reads. ISBRA 2016: 80-92 - [c113]Alexander Artyomenko, Nicholas C. Wu, Serghei Mangul, Eleazar Eskin, Ren Sun, Alex Zelikovsky:
Long Single-Molecule Reads Can Resolve the Complexity of the Influenza Virus Composed of Rare, Closely Related Mutant Variants. RECOMB 2016: 164-175 - [e6]Anu G. Bourgeois, Pavel Skums, Xiang Wan, Alex Zelikovsky:
Bioinformatics Research and Applications - 12th International Symposium, ISBRA 2016, Minsk, Belarus, June 5-8, 2016, Proceedings. Lecture Notes in Computer Science 9683, Springer 2016, ISBN 978-3-319-38781-9 [contents] - 2015
- [j63]Pavel Skums, Alexander Artyomenko, Olga Glebova, Sumathi Ramachandran, Ion I. Mandoiu, David S. Campo, Zoya Dimitrova, Alex Zelikovsky, Yuri Khudyakov:
Computational framework for next-generation sequencing of heterogeneous viral populations using combinatorial pooling. Bioinform. 31(5): 682-690 (2015) - [j62]Igor Mandric, Alex Zelikovsky:
ScaffMatch: scaffolding algorithm based on maximum weight matching. Bioinform. 31(16): 2632-2638 (2015) - [j61]Xiaojun Ding, Jianxin Wang, Alex Zelikovsky, Xuan Guo, Minzhu Xie, Yi Pan:
Searching High-Order SNP Combinations for Complex Diseases Based on Energy Distribution Difference. IEEE ACM Trans. Comput. Biol. Bioinform. 12(3): 695-704 (2015) - [c112]Alexander Artyomenko, Nicholas C. Wu, Serghei Mangul, Eleazar Eskin, Ren Sun, Alex Zelikovsky:
2SNV: Quasispecies reconstruction from PacBio reads. ICCABS 2015: 1 - [c111]Ekaterina Nenastyeva, Alex Zelikovsky, Yurij Ionov, Ion I. Mandoiu:
Identification of cancer-specific motifs in mimotope profiles of serum antibody repertoire. ICCABS 2015: 1 - [c110]Pavel Skums, Olga Glebova, David S. Campo, Nana Li, Zoya Dimitrova, Seth Sims, Leonid Bunimovich, Alex Zelikovsky, Yury Khudyakov:
Algorithms for prediction of viral transmission using analysis of intra-host viral populations. ICCABS 2015: 1 - [c109]Ning Yu, Xuan Guo, Alexander Zelikovsky, Yi Pan:
GaussianCpG: A Gaussian model for detection of human CpG island. ICCABS 2015: 1 - [c108]Igor Mandric, Alex Zelikovsky:
ScaffMatch: Scaffolding Algorithm Based on Maximum Weight Matching. RECOMB 2015: 222-223 - 2014
- [j60]Serghei Mangul, Nicholas C. Wu, Nicholas Mancuso, Alex Zelikovsky, Ren Sun, Eleazar Eskin:
Accurate viral population assembly from ultra-deep sequencing data. Bioinform. 30(12): 329-337 (2014) - [j59]James Lindsay, Hamed Salooti, Ion I. Mandoiu, Alexander Zelikovsky:
ILP-based maximum likelihood genome scaffolding. BMC Bioinform. 15(S-9): S9 (2014) - [c107]Alexander Artyomenko, Serghei Mangul, Nicholas C. Wu, Eleazar Eskin, Ren Sun, Alex Zelikovsky:
Reconstruction of influenza a virus variants from PacBio reads. ICCABS 2014: 1 - [c106]Adrian Caciula, Olga Glebova, Alexander Artyomenko, Serghei Mangul, James Lindsay, Ion I. Mandoiu, Alex Zelikovsky:
Deterministic regression algorithm for transcriptome frequency estimation. ICCABS 2014: 1 - [c105]Igor Mandric, James Lindsay, Ion I. Mandoiu, Alex Zelikovsky:
SILP3: Maximum likelihood approach to scaffolding. ICCABS 2014: 1 - [c104]Serghei Mangul, Nicholas C. Wu, Nicholas Mancuso, Alex Zelikovsky, Ren Sun, Eleazar Eskin:
VGA: A method for viral quasispecies assembly from ultra-deep sequencing data. ICCABS 2014: 1 - [c103]Pavel Skums, Alexander Artyomenko, Olga Glebova, Alex Zelikovsky, David S. Campo, Zoya Dimitrova, Yuri Khudyakov:
Detection of genetic relatedness between viral samples using EM-based clustering of next-generation sequencing data. ICCABS 2014: 1 - [e5]Zhipeng Cai, Alex Zelikovsky, Anu G. Bourgeois:
Computing and Combinatorics - 20th International Conference, COCOON 2014, Atlanta, GA, USA, August 4-6, 2014. Proceedings. Lecture Notes in Computer Science 8591, Springer 2014, ISBN 978-3-319-08782-5 [contents] - 2013
- [j58]Pavel Skums, Nicholas Mancuso, Alexander Artyomenko, Bassam Tork, Ion I. Mandoiu, Yuri Khudyakov, Alex Zelikovsky:
Reconstruction of viral population structure from next-generation sequencing data using multicommodity flows. BMC Bioinform. 14(S-9): S2 (2013) - [j57]Thamer Alsulaiman, Sushil K. Prasad, Alexander Zelikovsky:
Distributed Algorithms for TDMA Link Scheduling in Sensor Networks. Int. J. Netw. Comput. 3(1): 55-74 (2013) - [j56]Ion I. Mandoiu, Jianxin Wang, Alexander Zelikovsky:
Guest Editors' introduction to the special section on bioinformatics research and applications. IEEE ACM Trans. Comput. Biol. Bioinform. 10(6): 1345-1346 (2013) - [c102]Alexander Artyomenko, Nicholas Mancuso, Alex Zelikovsky, Pavel Skums, Ion I. Mandoiu:
kGEM: An EM-based algorithm for local reconstruction of viral quasispecies. ICCABS 2013: 1 - [c101]Adrian Caciula, Alex Zelikovsky, Serghei Mangul, James Lindsay, Ion I. Mandoiu:
Monte-Carlo Regression algorithm for isoform frequency estimation from RNA-Seq data. ICCABS 2013: 1 - [c100]Gabriel Ilie, Alex Zelikovsky, Ion I. Mandoiu:
Reference assisted nucleic acid sequence reconstruction from mass spectrometry data. ICCABS 2013: 1 - [c99]Nicholas Mancuso, Alexander Artyomenko, Alex Zelikovsky, Pavel Skums, Ion I. Mandoiu:
Estimation of viral population structure from amplicon-based reads. ICCABS 2013: 1 - [c98]Serghei Mangul, Sahar Al Seesi, Ion I. Mandoiu, Adrian Caciula, Alex Zelikovsky, Dumitru Brinza:
Transcriptome assembly and quantification from Ion Torrent RNA-Seq data. ICCABS 2013: 1 - [c97]Pavel Skums, Olga Glebova, Alex Zelikovsky, Ion I. Mandoiu, Yuri Khudyakov:
Optimizing pooling strategies for the massive next-generation sequencing of viral samples. ICCABS 2013: 1 - [c96]Pavel Skums, Olga Glebova, Alex Zelikovsky, Zoya Dimitrova, David Stiven Campo Rendon, Lilia Ganova-Raeva, Yuri Khudyakov:
Alignment of DNA Mass-Spectral Profiles Using Network Flows. ISBRA 2013: 149-160 - 2012
- [j55]Gruia Calinescu, Cristina G. Fernandes, Hemanshu Kaul, Alexander Zelikovsky:
Maximum Series-Parallel Subgraph. Algorithmica 63(1-2): 137-157 (2012) - [j54]Jianer Chen, Ion I. Mandoiu, Raj Sunderraman, Jianxin Wang, Alexander Zelikovsky:
Guest Editors' Introduction. BMC Bioinform. 13(S-10): S1 (2012) - [j53]Pavel Skums, Zoya Dimitrova, David S. Campo, Gilberto Vaughan, Livia Rossi, Joseph C. Forbi, Jonny Yokosawa, Alex Zelikovsky, Yuri Khudyakov:
Efficient error correction for next-generation sequencing of viral amplicons. BMC Bioinform. 13(S-10): S6 (2012) - [j52]Serghei Mangul, Adrian Caciula, Dumitru Brinza, Ion I. Mandoiu, Alex Zelikovsky:
TRIP: a method for novel transcript reconstruction from paired-end RNA-seq reads. BMC Bioinform. 13(S-18): A11 (2012) - [j51]Nicholas Mancuso, Bassam Tork, Pavel Skums, Lilia Ganova-Raeva, Ion I. Mandoiu, Alex Zelikovsky:
Reconstructing viral quasispecies from NGS amplicon reads. Silico Biol. 11(5-6): 237-249 (2012) - [j50]Serghei Mangul, Adrian Caciula, Olga Glebova, Ion I. Mandoiu, Alex Zelikovsky:
Improved transcriptome quantification and reconstruction from RNA-Seq reads using partial annotations. Silico Biol. 11(5-6): 251-261 (2012) - [j49]Jianer Chen, Alexander Zelikovsky:
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 9(4): 1002-1003 (2012) - [c95]James Lindsay, Hamed Salooti, Alexander Zelikovsky, Ion I. Mandoiu:
Scalable genome scaffolding using integer linear programming. BCB 2012: 377-383 - [c94]James Lindsay, Ion I. Mandoiu, Hamed Salooti, Alexander Zelikovsky:
Poster: Accurate scaffolding of large genomes using integer programming and Non-Serial Dynamic Programming. ICCABS 2012: 1 - [c93]Nicholas Mancuso, Bassam Tork, Pavel Skums, Lilia Ganova-Raeva, Ion I. Mandoiu, Alexander Zelikovsky:
Workshop: A maximum likelihood method for quasispecies spectrum assembly. ICCABS 2012: 1 - [c92]Serghei Mangul, Adrian Caciula, Ion I. Mandoiu, Alexander Zelikovsky:
Workshop: Novel transcript reconstruction from paired-end RNA-Seq reads using fragment length distribution. ICCABS 2012: 1 - [c91]Rachel J. O'Neill, Ion I. Mandoiu, Mazhar I. Khan, Craig Obergfell, Hongjun Wang, Andrew Bligh, Bassam Tork, Nicholas Mancuso, Alexander Zelikovsky:
Workshop: Bioinformatics methods for reconstruction of Infectious Bronchitis Virus quasispecies from next generation sequencing data. ICCABS 2012: 1 - [c90]Thamer Alsulaiman, Sushil K. Prasad, Alexander Zelikovsky:
Distributed Algorithms for TDMA Link Scheduling in Sensor Networks. IPDPS Workshops 2012: 839-847 - 2011
- [j48]Marius Nicolae, Serghei Mangul, Ion I. Mandoiu, Alex Zelikovsky:
Estimation of alternative splicing isoform frequencies from RNA-Seq data. Algorithms Mol. Biol. 6: 9 (2011) - [j47]Irina Astrovskaya, Bassam Tork, Serghei Mangul, Kelly Westbrooks, Ion I. Mandoiu, Peter Balfe, Alex Zelikovsky:
Inferring viral quasispecies spectra from 454 pyrosequencing reads. BMC Bioinform. 12(S-6): S1 (2011) - [j46]Qiong Cheng, Alexander Zelikovsky:
Combinatorial Optimization Algorithms for Metabolic Networks Alignments and Their Applications. Int. J. Knowl. Discov. Bioinform. 2(1): 1-23 (2011) - [j45]Bogdan Pasaniuc, Robert S. Garfinkel, Ion I. Mandoiu, Alexander Zelikovsky:
Optimal Testing of Digital Microfluidic Biochips. INFORMS J. Comput. 23(4): 518-529 (2011) - [j44]Mark Borodovsky, Teresa M. Przytycka, Sanguthevar Rajasekaran, Alexander Zelikovsky:
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 8(4): 865-866 (2011) - [c89]Nicholas Mancuso, Bassam Tork, Pavel Skums, Ion I. Mandoiu, Alexander Zelikovsky:
Viral quasispecies reconstruction from amplicon 454 pyrosequencing reads. BIBM Workshops 2011: 94-101 - [c88]Serghei Mangul, Adrian Caciula, Ion I. Mandoiu, Alexander Zelikovsky:
RNA-Seq based discovery and reconstruction of unannotated transcripts in partially annotated genomes. BIBM Workshops 2011: 118-123 - [c87]Alexander Zelikovsky:
Invited: Metabolic network alignments. ICCABS 2011: 12 - [c86]Irina Astrovskaya, Bassam Tork, Serghei Mangul, Kelly Westbrooks, Ion I. Mandoiu, Peter Balfe, Alexander Zelikovsky:
Poster: ViSpA: Viral spectrum assembling method. ICCABS 2011: 234 - [c85]James Lindsay, J. Zhang, T. Farnham, Y. Wu, Ion I. Mandoiu, Rachel J. O'Neill, Hamed Salooti, E. Bullwinkel, Alexander Zelikovsky:
Poster: Scaffolding draft genomes using paired sequencing data. ICCABS 2011: 252 - [c84]Serghei Mangul, Alexander Zelikovsky:
Poster: Haplotype discovery from high-throughput sequencing data. ICCABS 2011: 255 - [c83]Lei Shi, Wen-Zhan Song, Mingsen Xu, Alex Zelikovsky, Li Yu:
Collaborative Topology Control for Lifetime Maximization. MSN 2011: 182-189 - [c82]Serghei Mangul, Irina Astrovskaya, Marius Nicolae, Bassam Tork, Ion I. Mandoiu, Alexander Zelikovsky:
Maximum Likelihood Estimation of Incomplete Genomic Spectrum from HTS Data. WABI 2011: 213-224 - [e4]Jianer Chen, Jianxin Wang, Alexander Zelikovsky:
Bioinformatics Research and Applications - 7th International Symposium, ISBRA 2011, Changsha, China, May 27-29, 2011. Proceedings. Lecture Notes in Computer Science 6674, Springer 2011, ISBN 978-3-642-21259-8 [contents] - 2010
- [c81]Qiong Cheng, Mitsunori Ogihara, Jinpeng Wei, Alexander Zelikovsky:
WS-GraphMatching: a web service tool for graph matching. CIKM 2010: 1949-1950 - [c80]Qiong Cheng, Jinpeng Wei, Alexander Zelikovsky, Mitsunori Ogihara:
Fixed-Parameter Tractable Combinatorial Algorithms for Metabolic Networks Alignments. ICDM Workshops 2010: 679-686 - [c79]Qiong Cheng, Piotr Berman, Robert W. Harrison, Alexander Zelikovsky:
Efficient Alignments of Metabolic Networks with Bounded Treewidth. ICDM Workshops 2010: 687-694 - [c78]Piotr Berman, Marek Karpinski, Alexander Zelikovsky:
A 3/2-Approximation Algorithm for Generalized Steiner Trees in Complete Graphs with Edge Lengths 1 and 2. ISAAC (1) 2010: 15-24 - [c77]Marius Nicolae, Serghei Mangul, Ion I. Mandoiu, Alexander Zelikovsky:
Estimation of Alternative Splicing isoform Frequencies from RNA-Seq Data. WABI 2010: 202-214 - [i10]Marius Nicolae, Serghei Mangul, Ion I. Mandoiu, Alex Zelikovsky:
Estimation of alternative splicing isoform frequencies from RNA-Seq data. Structure Discovery in Biology: Motifs, Networks & Phylogenies 2010
2000 – 2009
- 2009
- [j43]Qiong Cheng, Robert W. Harrison, Alexander Zelikovsky:
MetNetAligner: a web service tool for metabolic network alignments. Bioinform. 25(15): 1989-1990 (2009) - [j42]Ion I. Mandoiu, Yi Pan, Raj Sunderraman, Alexander Zelikovsky:
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 6(2): 178-179 (2009) - [c76]Xiaojun Cao, Yichuan Wang, Alex Zelikovsky:
Scheduling Bursts Using Interval Graphs in Optical Burst Switching Networks. GLOBECOM 2009: 1-6 - [c75]Stefan Gremalschi, Gulsah Altun, Irina Astrovskaya, Alexander Zelikovsky:
Mean Square Residue Biclustering with Missing Data and Row Inversions. ISBRA 2009: 28-39 - [c74]Piotr Berman, Marek Karpinski, Alexander Zelikovsky:
1.25-Approximation Algorithm for Steiner Tree Problem with Distances 1 and 2. WADS 2009: 86-97 - [c73]Irina Astrovskaya, Alexander Zelikovsky:
Genotype Tagging with Limited Overfitting. BSB 2009: 1-12 - [r5]Alexander Zelikovsky:
Bottleneck Steiner Tree Problems. Encyclopedia of Optimization 2009: 311-313 - 2008
- [j41]Dumitru Brinza, Alexander Zelikovsky:
Design and Validation of Methods Searching for Risk Factors in Genotype Case-Control Studies. J. Comput. Biol. 15(1): 81-90 (2008) - [j40]Dumitru Brinza, Alexander Zelikovsky:
2SNP: Scalable Phasing Method for Trios and Unrelated Individuals. IEEE ACM Trans. Comput. Biol. Bioinform. 5(2): 313-318 (2008) - [j39]Ion I. Mandoiu, Yi Pan, Alexander Zelikovsky:
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 5(3): 321-322 (2008) - [c72]Qiong Cheng, Piotr Berman, Robert W. Harrison, Alexander Zelikovsky:
Fast Alignments of Metabolic Networks. BIBM 2008: 147-152 - [c71]Kelly Westbrooks, Irina Astrovskaya, David S. Campo, Yuri Khudyakov, Piotr Berman, Alexander Zelikovsky:
HCV Quasispecies Assembly Using Network Flows. ISBRA 2008: 159-170 - [e3]Ion I. Mandoiu, Raj Sunderraman, Alexander Zelikovsky:
Bioinformatics Research and Applications, Fourth International Symposium, ISBRA 2008, Atlanta, GA, USA, May 6-9, 2008. Proceedings. Lecture Notes in Computer Science 4983, Springer 2008, ISBN 978-3-540-79449-3 [contents] - [r4]Gabriel Robins, Alexander Zelikovsky:
Minimum Steiner Tree Construction. Handbook of Algorithms for Physical Design Automation 2008 - [i9]Piotr Berman, Marek Karpinski, Alexander Zelikovsky:
1.25 Approximation Algorithm for the Steiner Tree Problem with Distances One and Two. CoRR abs/0810.1851 (2008) - [i8]Piotr Berman, Marek Karpinski, Alexander Zelikovsky:
A Factor 3/2 Approximation for Generalized Steiner Tree Problem with Distances One and Two. CoRR abs/0812.2137 (2008) - [i7]Piotr Berman, Marek Karpinski, Alexander Zelikovsky:
1.25 Approximation Algorithm for the Steiner Tree Problem with Distances One and Two. Electron. Colloquium Comput. Complex. TR08 (2008) - 2007
- [j38]Réka Albert, Bhaskar DasGupta, Riccardo Dondi, Sema Kachalo, Eduardo D. Sontag, Alexander Zelikovsky, Kelly Westbrooks:
A Novel Method for Signal Transduction Network Inference from Indirect Experimental Evidence. J. Comput. Biol. 14(7): 927-949 (2007) - [j37]Gruia Calinescu, Ion I. Mandoiu, Alexander Zelikovsky, Marius Zimand:
Selected Papers from the 1st ACIS International Workshop on Self-Assembling Wireless Networks. J. Univers. Comput. Sci. 13(1): 1-3 (2007) - [j36]Nisar Hundewale, Sunsook Jung, Alexander Zelikovsky:
Energy Efficient Node Caching and Load Balancing Enhancement of Reactive Ad Hoc Routing Protocols. J. Univers. Comput. Sci. 13(1): 110-132 (2007) - [j35]Charles C. Chiang, Andrew B. Kahng, Subarna Sinha, Xu Xu, Alexander Zelikovsky:
Fast and Efficient Bright-Field AAPSM Conflict Detection and Correction. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 26(1): 115-126 (2007) - [j34]Andrew B. Kahng, Ion I. Mandoiu, Xu Xu, Alexander Zelikovsky:
Enhanced Design Flow and Optimizations for Multiproject Wafers. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 26(2): 301-311 (2007) - [j33]Ion I. Mandoiu, Yi Pan, Alexander Zelikovsky:
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. IEEE ACM Trans. Comput. Biol. Bioinform. 4(4): 513-514 (2007) - [c70]Dumitru Brinza, Alexander Zelikovsky:
Discrete Methods for Association Search and Status Prediction in Genotype Case-Control Studies. BIBE 2007: 270-277 - [c69]Qiong Cheng, Robert W. Harrison, Alexander Zelikovsky:
Homomorphisms of Multisource Trees into Networks with Applications to Metabolic Pathways. BIBE 2007: 350-357 - [c68]Dumitru Brinza, Alexander Zelikovsky:
Risk Factor Searching Heuristics for SNP Case-Control Studies. BIBM 2007: 282-287 - [c67]Réka Albert, Bhaskar DasGupta, Riccardo Dondi, Sema Kachalo, Eduardo D. Sontag, Alexander Zelikovsky, Kelly Westbrooks:
A Novel Method for Signal Transduction Network Inference from Indirect Experimental Evidence. WABI 2007: 407-419 - [e2]Ion I. Mandoiu, Alexander Zelikovsky:
Bioinformatics Research and Applications, Third International Symposium, ISBRA 2007, Atlanta, GA, USA, May 7-10, 2007, Proceedings. Lecture Notes in Computer Science 4463, Springer 2007, ISBN 978-3-540-72030-0 [contents] - [r3]Ion I. Mandoiu, Andrew B. Kahng, Christoph Albrecht, Alexander Zelikovsky:
Multicommodity Flow Algorithms for Buffered Global Routing. Handbook of Approximation Algorithms and Metaheuristics 2007 - [r2]Ion I. Mandoiu, Andrew B. Kahng, Alexander Zelikovsky:
Practical Approximations of Steiner Trees in Uniform Orientation Metrics. Handbook of Approximation Algorithms and Metaheuristics 2007 - [r1]Ion I. Mandoiu, Alex Olshevsky, Alexander Zelikovsky:
QoS Multimedia Multicast Routing. Handbook of Approximation Algorithms and Metaheuristics 2007 - [i6]Charles C. Chiang, Andrew B. Kahng, Subarna Sinha, Xu Xu, Alexander Zelikovsky:
Bright-Field AAPSM Conflict Detection and Correction. CoRR abs/0710.4661 (2007) - 2006
- [j32]Dumitru Brinza, Alexander Zelikovsky:
2SNP: scalable phasing based on 2-SNP haplotypes. Bioinform. 22(3): 371-373 (2006) - [j31]Jingwu He, Alexander Zelikovsky:
MLR-tagging: informative SNP selection for unphased genotypes based on multiple linear regression. Bioinform. 22(20): 2558-2561 (2006) - [j30]Andrew B. Kahng, Ion I. Mandoiu, Sherief Reda, Xu Xu, Alexander Zelikovsky:
Computer-Aided Optimization of DNA Array Design and Manufacturing. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 25(2): 305-320 (2006) - [j29]Ernst Althaus, Gruia Calinescu, Ion I. Mandoiu, Sushil K. Prasad, N. Tchervenski, Alexander Zelikovsky:
Power Efficient Range Assignment for Symmetric Connectivity in Static Ad Hoc Wireless Networks. Wirel. Networks 12(3): 287-299 (2006) - [c66]Piotr Berman, Martin Fürer, Alexander Zelikovsky:
Applications of the Linear Matroid Parity Algorithm to Approximating Steiner Trees. CSR 2006: 70-79 - [c65]Jingwu He, Alex Zelikovsky:
Multiple Linear Regression for Index SNP Selection on Unphased Genotypes. EMBC 2006: 5759-5762 - [c64]Dumitru Brinza, Jingwu He, Alexander Zelikovsky:
Combinatorial Search Methods for Multi-SNP Disease Association. EMBC 2006: 5802-5805 - [c63]Weidong Mao, Dumitru Brinza, Nisar Hundewale, Stefan Gremalschi, Alexander Zelikovsky:
Genotype susceptibility and integrated risk factors for complex diseases. GrC 2006: 754-757 - [c62]Jingwu He, Jun Zhang, Gulsah Altun, Alexander Zelikovsky, Yanqing Zhang:
Haplotype tagging using support vector machines. GrC 2006: 758-761 - [c61]Gulsah Altun, Hae-Jin Hu, Dumitru Brinza, Robert W. Harrison, Alexander Zelikovsky, Yi Pan:
Hybrid SVM Kernels for Protein Secondary Structure Prediction. GrC 2006: 762-765 - [c60]Jingwu He, Alexander Zelikovsky:
Tag SNP Selection Based on Multivariate Linear Regression. International Conference on Computational Science (2) 2006: 750-757 - [c59]Dumitru Brinza, Alexander Zelikovsky:
Phasing of 2-SNP Genotypes Based on Non-random Mating Model. International Conference on Computational Science (2) 2006: 767-774 - [c58]Andrew B. Kahng, Puneet Sharma, Alexander Zelikovsky:
Fill for shallow trench isolation CMP. ICCAD 2006: 661-668 - [c57]Dumitru Brinza, Alexander Zelikovsky:
DEEPS: Deterministic Energy-Efficient Protocol for Sensor networks. SNPD 2006: 261-266 - [c56]Akshaye Dhawan, Chinh T. Vu, Alexander Zelikovsky, Yingshu Li, Sushil K. Prasad:
Maximum Lifetime of Sensor Networks with Adjustable Sensing Range. SNPD 2006: 285-289 - [c55]Dumitru Brinza, Alexander Zelikovsky:
Combinatorial Methods for Disease Association Search and Susceptibility Prediction. WABI 2006: 286-297 - [p1]Qiong Cheng, Yanqing Zhang, Xiaolin Hu, Nisar Hundewale, Alexander Zelikovsky:
Routing Using Messengers in Sparse and Disconnected Mobile Sensor Networks. Advances in Web Intelligence and Data Mining 2006: 31-40 - 2005
- [j28]Marek Karpinski, Ion I. Mandoiu, Alexander Olshevsky, Alexander Zelikovsky:
Improved Approximation Algorithms for the Quality of Service Multicast Tree Problem. Algorithmica 42(2): 109-120 (2005) - [j27]Dumitru Brinza, Jingwu He, Weidong Mao, Alexander Zelikovsky:
Family trio phasing and missing data recovery. Int. J. Bioinform. Res. Appl. 1(2): 221-229 (2005) - [j26]Jingwu He, Kelly Westbrooks, Alexander Zelikovsky:
Linear reduction method for predictive and informative tag SNP selection. Int. J. Bioinform. Res. Appl. 1(3): 249-260 (2005) - [j25]Gruia Calinescu, Alexander Zelikovsky:
The Polymatroid Steiner Problems. J. Comb. Optim. 9(3): 281-294 (2005) - [j24]Gabriel Robins, Alexander Zelikovsky:
Tighter Bounds for Graph Steiner Tree Approximation. SIAM J. Discret. Math. 19(1): 122-134 (2005) - [j23]Yu Chen, Andrew B. Kahng, Gabriel Robins, Alexander Zelikovsky, Yuhong Zheng:
Compressible area fill synthesis. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 24(8): 1169-1187 (2005) - [c54]Charles C. Chiang, Andrew B. Kahng, Subarna Sinha, Xu Xu, Alexander Zelikovsky:
Bright-Field AAPSM Conflict Detection and Correction. DATE 2005: 908-913 - [c53]Dumitru Brinza, Jingwu He, Weidong Mao, Alexander Zelikovsky:
Phasing and Missing Data Recovery in Family Trios. International Conference on Computational Science (2) 2005: 1011-1019 - [c52]Dumitru Brinza, Gruia Calinescu, Sutep Tongngam, Alexander Zelikovsky:
Energy-efficient continuous and event-driven monitoring. MASS 2005 - [c51]Sunsook Jung, Nisar Hundewale, Alexander Zelikovsky:
GKM over large MANET. SNPD 2005: 484-490 - [c50]Sunsook Jung, Nisar Hundewale, Alex Zelikovsky:
Node caching enhancement of reactive ad hoc routing protocols [MANET]. WCNC 2005: 1970-1975 - [e1]Corrado Priami, Alexander Zelikovsky:
Transactions on Computational Systems Biology II. Lecture Notes in Computer Science 3680, Springer 2005, ISBN 3-540-29401-5 [contents] - [i5]Christoph Albrecht, Andrew B. Kahng, Ion I. Mandoiu, Alexander Zelikovsky:
Multicommodity Flow Algorithms for Buffered Global Routing. CoRR abs/cs/0508045 (2005) - 2004
- [j22]Andrew B. Kahng, Ion I. Mandoiu, Pavel A. Pevzner, Sherief Reda, Alexander Zelikovsky:
Scalable Heuristics for Design of DNA Probe Arrays. J. Comput. Biol. 11(2/3): 429-447 (2004) - [j21]Gruia Calinescu, Ion I. Mandoiu, Peng-Jun Wan, Alexander Zelikovsky:
Selecting Forwarding Neighbors in Wireless Ad Hoc Networks. Mob. Networks Appl. 9(2): 101-111 (2004) - [c49]Yu Chen, Andrew B. Kahng, Gabriel Robins, Alexander Zelikovsky, Yuhong Zheng:
Evaluation of the new OASIS format for layout fill compression. ICECS 2004: 377-382 - [c48]Gruia Calinescu, Alexander Zelikovsky:
The Polymatroid Steiner Problems. ISAAC 2004: 234-245 - [c47]Andrew B. Kahng, Ion I. Mandoiu, Qinke Wang, Xu Xu, Alexander Zelikovsky:
Multi-project reticle floorplanning and wafer dicing. ISPD 2004: 70-77 - [c46]Sushil K. Prasad, Vijay K. Madisetti, Shamkant B. Navathe, Raj Sunderraman, Erdogan Dogdu, Anu G. Bourgeois, Michael Weeks, Bing Liu, Janaka Balasooriya, Arthi Hariharan, Wanxia Xie, Praveen Madiraju, Srilaxmi Malladi, Raghupathy Sivakumar, Alexander Zelikovsky, Yanqing Zhang, Yi Pan, Saeid Belkasim:
SyD: A Middleware Testbed for Collaborative Applications over Small Heterogeneous Devices and Data Stores. Middleware 2004: 352-371 - [c45]Jingwu He, Alexander Zelikovsky:
Linear Reduction for Haplotype Inference. WABI 2004: 242-253 - [c44]Piotr Berman, Gruia Calinescu, C. Shah, Alexander Zelikovsky:
Power efficient monitoring management in sensor networks. WCNC 2004: 2329-2334 - 2003
- [j20]Gruia Calinescu, Cristina G. Fernandes, Howard J. Karloff, Alexander Zelikovsky:
A New Approximation Algorithm for Finding Heavy Planar Subgraphs. Algorithmica 36(2): 179-205 (2003) - [j19]Christopher S. Helvig, Gabriel Robins, Alexander Zelikovsky:
The moving-target traveling salesman problem. J. Algorithms 49(1): 153-174 (2003) - [j18]Charles J. Alpert, Andrew B. Kahng, Bao Liu, Ion I. Mandoiu, Alexander Zelikovsky:
Minimum buffered routing with bounded capacitive load for slew rate and reliability control. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 22(3): 241-253 (2003) - [j17]Christoph Albrecht, Andrew B. Kahng, Bao Liu, Ion I. Mandoiu, Alexander Zelikovsky:
On the skew-bounded minimum-buffer routing tree problem. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 22(7): 937-945 (2003) - [c43]Andrew B. Kahng, Ion I. Mandoiu, Alexander Zelikovsky:
Highly scalable algorithms for rectilinear and octilinear Steiner trees. ASP-DAC 2003: 827-833 - [c42]Sushil K. Prasad, Michael Weeks, Yanqing Zhang, Alexander Zelikovsky, Saeid Belkasim, Raj Sunderraman, Vijay K. Madisetti:
Toward an Easy Programming Environment for Implementing Mobile Applications: A Fleet Application Case Study using SyD Middleware. COMPSAC 2003: 696-701 - [c41]Yu Chen, Andrew B. Kahng, Gabriel Robins, Alexander Zelikovsky, Yuhong Zheng:
Area Fill Generation With Inherent Data Volume Reduction. DATE 2003: 10868-10875 - [c40]Gruia Calinescu, Sanjiv Kapoor, Alexander Olshevsky, Alexander Zelikovsky:
Network Lifetime and Power Assignment in ad hoc Wireless Networks. ESA 2003: 114-126 - [c39]Gruia Calinescu, Cristina G. Fernandes, Ion I. Mandoiu, Alexander Olshevsky, K. Yang, Alexander Zelikovsky:
Primal-dual algorithms for QoS multimedia multicast. GLOBECOM 2003: 3631-3635 - [c38]Andrew B. Kahng, Ion I. Mandoiu, Sherief Reda, Xu Xu, Alexander Zelikovsky:
Evaluation of Placement Techniques for DNA Probe Array Layout. ICCAD 2003: 262-269 - [c37]Andrew B. Kahng, Ion I. Mandoiu, Sherief Reda, Xu Xu, Alexander Zelikovsky:
Design Flow Enhancements for DNA Arrays. ICCD 2003: 116- - [c36]Andrew B. Kahng, Ion I. Mandoiu, Pavel A. Pevzner, Sherief Reda, Alexander Zelikovsky:
Engineering a scalable placement heuristic for DNA probe arrays. RECOMB 2003: 148-156 - [c35]Marek Karpinski, Ion I. Mandoiu, Alexander Olshevsky, Alexander Zelikovsky:
Improved Approximation Algorithms for the Quality of Service Steiner Tree Problem. WADS 2003: 401-411 - [c34]Ernst Althaus, Gruia Calinescu, Ion I. Mandoiu, Sushil K. Prasad, N. Tchervenski, Alexander Zelikovsky:
Power efficient range assignment in ad-hoc wireless networks. WCNC 2003: 1889-1894 - 2002
- [j16]Dmitrii Lozovanu, Vitaly I. Voloshin, Alex Zelikovsky:
A note on the colorability of mixed hypergraph using k colors. Comput. Sci. J. Moldova 10(1): 92-95 (2002) - [j15]Feodor F. Dragan, Andrew B. Kahng, Ion I. Mandoiu, Sudhakar Muddu, Alexander Zelikovsky:
Provably good global buffering by generalized multiterminalmulticommodity flow approximation. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 21(3): 263-274 (2002) - [j14]Yu Chen, Andrew B. Kahng, Gabriel Robins, Alexander Zelikovsky:
Area fill synthesis for uniform layout density. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 21(10): 1132-1147 (2002) - [c33]Sushil K. Prasad, Michael Weeks, Yanqing Zhang, Alexander Zelikovsky, Saeid Belkasim, Rajshekhar Sunderraman, Vijay K. Madisetti:
Mobile Fleet Application using Soap and System on Devices (SYD) Middleware Technologies. Communications, Internet, and Information Technology 2002: 426-431 - [c32]C. Bandela, Yu Chen, Andrew B. Kahng, Ion I. Mandoiu, Alexander Zelikovsky:
Auctions with Buyer Preferences. Information Systems: The e-Business Challenge 2002: 223-238 - [c31]Gruia Calinescu, Ion I. Mandoiu, Alexander Zelikovsky:
Symmetric Connectivity with Minimum Power Consumption in Radio Networks. IFIP TCS 2002: 119-130 - [c30]Yu Chen, Andrew B. Kahng, Gabriel Robins, Alexander Zelikovsky:
Closing the smoothness and uniformity gap in area fill synthesis. ISPD 2002: 137-142 - [c29]Christoph Albrecht, Andrew B. Kahng, Ion I. Mandoiu, Alexander Zelikovsky:
Floorplan Evaluation with Timing-Driven Global Wireplanning, Pin Assignment and Buffer/Wire Sizing. ASP-DAC/VLSI Design 2002: 580- - [c28]Andrew B. Kahng, Ion I. Mandoiu, Pavel A. Pevzner, Sherief Reda, Alexander Zelikovsky:
Border Length Minimization in DNA Array Design. WABI 2002: 435-448 - 2001
- [j13]Christopher S. Helvig, Gabriel Robins, Alexander Zelikovsky:
An improved approximation scheme for the Group Steiner Problem. Networks 37(1): 8-20 (2001) - [j12]Alexander Zelikovsky, Ion I. Mandoiu:
Practical Approximation Algorithms for Zero- and Bounded-Skew Trees. SIAM J. Discret. Math. 15(1): 97-111 (2001) - [c27]Feodor F. Dragan, Andrew B. Kahng, Ion I. Mandoiu, Sudhakar Muddu, Alexander Zelikovsky:
Provably good global buffering by multi-terminal multicommodity flow approximation. ASP-DAC 2001: 120-125 - [c26]Andrew B. Kahng, Shailesh Vaya, Alexander Zelikovsky:
New graph bipartizations for double-exposure, bright field alternating phase-shift mask layout. ASP-DAC 2001: 133-138 - [c25]Yu Chen, Andrew B. Kahng, Gabriel Robins, Alexander Zelikovsky:
Hierarchical dummy fill for process uniformity. ASP-DAC 2001: 139-144 - [c24]Gruia Calinescu, Ion I. Mandoiu, Peng-Jun Wan, Alexander Zelikovsky:
Selecting forwarding neighbors in wireless Ad Hoc networks. DIAL-M 2001: 34-43 - [c23]Charles J. Alpert, Andrew B. Kahng, Bao Liu, Ion I. Mandoiu, Alexander Zelikovsky:
Minimum-Buffered Routing of Non-Critical Nets for Slew Rate and Reliability Control. ICCAD 2001: 408- - [c22]Alexander Zelikovsky, Ion I. Mandoiu:
Practical approximation algorithms for zero- and bounded-skew trees. SODA 2001: 407-416 - [c21]Feodor F. Dragan, Andrew B. Kahng, Ion I. Mandoiu, Sudhakar Muddu, Alexander Zelikovsky:
Practical Approximation Algorithms for Separable Packing Linear Programs. WADS 2001: 325-337 - 2000
- [j11]Ion I. Mandoiu, Alexander Zelikovsky:
A note on the MST heuristic for bounded edge-length Steiner trees with minimum number of Steiner points. Inf. Process. Lett. 75(4): 165-167 (2000) - [j10]Piotr Berman, Andrew B. Kahng, Devendra Vidhani, Huijuan Wang, Alexander Zelikovsky:
Optimal phase conflict removal for layout of dark field alternatingphase shifting masks. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 19(2): 175-187 (2000) - [j9]Christopher S. Helvig, Gabriel Robins, Alexander Zelikovsky:
New approximation algorithms for routing with multiport terminals. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 19(10): 1118-1128 (2000) - [c20]Yu Chen, Andrew B. Kahng, Gabriel Robins, Alexander Zelikovsky:
Monte-Carlo algorithms for layout density control. ASP-DAC 2000: 523-528 - [c19]Yu Chen, Andrew B. Kahng, Gabriel Robins, Alexander Zelikovsky:
Practical iterated fill synthesis for CMP uniformity. DAC 2000: 671-674 - [c18]Feodor F. Dragan, Andrew B. Kahng, Ion I. Mandoiu, Sudhakar Muddu, Alexander Zelikovsky:
Provably Good Global Buffering Using an Available Buffer Block Plan. ICCAD 2000: 104-109 - [c17]Gabriel Robins, Alexander Zelikovsky:
Improved Steiner tree approximation in graphs. SODA 2000: 770-779
1990 – 1999
- 1999
- [j8]Andrew B. Kahng, Gabriel Robins, Anish Singh, Alexander Zelikovsky:
Filling algorithms and analyses for layout density control. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 18(4): 445-462 (1999) - [j7]Andrew E. Caldwell, Andrew B. Kahng, Stefanus Mantik, Igor L. Markov, Alexander Zelikovsky:
On wirelength estimations for row-based placement. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 18(9): 1265-1278 (1999) - [c16]Andrew B. Kahng, Gabriel Robins, Anish Singh, Alexander Zelikovsky:
New Multilevel and Hierarchical Algorithms for Layout Density Control. ASP-DAC 1999: 221-224 - [c15]Andrew B. Kahng, Paul Tucker, Alexander Zelikovsky:
Optimization of Linear Placements for Wirelength Minimization with Free Sites. ASP-DAC 1999: 241-244 - [c14]Yu Chen, Andrew B. Kahng, Gang Qu, Alexander Zelikovsky:
The associative-skew clock routing problem. ICCAD 1999: 168-172 - [c13]Piotr Berman, Andrew B. Kahng, Devendra Vidhani, Huijuan Wang, Alexander Zelikovsky:
Optimal phase conflict removal for layout of dark field alternating phase shifting masks. ISPD 1999: 121-126 - [c12]Andrew B. Kahng, Gabriel Robins, Anish Singh, Alexander Zelikovsky:
New and Exact Filling Algorithms for Layout Density Control. VLSI Design 1999: 106-110 - [c11]Piotr Berman, Andrew B. Kahng, Devendra Vidhani, Alexander Zelikovsky:
The T-join Problem in Sparse Graphs: Applications to Phase Assignment Problem in VLSI Mask Layout. WADS 1999: 25-36 - 1998
- [c10]Christopher S. Helvig, Gabriel Robins, Alexander Zelikovsky:
Improved Approximation Bounds for the Group Steiner Problem. DATE 1998: 406-413 - [c9]Christopher S. Helvig, Gabriel Robins, Alexander Zelikovsky:
Moving-Target TSP and Related Problems. ESA 1998: 453-464 - [c8]Andrew E. Caldwell, Andrew B. Kahng, Stefanus Mantik, Igor L. Markov, Alexander Zelikovsky:
On wirelength estimations for row-based placement. ISPD 1998: 4-11 - [c7]Andrew B. Kahng, Gabriel Robins, Anish Singh, Huijuan Wang, Alexander Zelikovsky:
Filling and slotting: analysis and algorithms. ISPD 1998: 95-102 - 1997
- [j6]Alexander Zelikovsky:
A Series of Approximation Algorithms for the Acyclic Directed Steiner Tree Problem. Algorithmica 18(1): 99-110 (1997) - [j5]Ulrich Fößmeier, Michael Kaufmann, Alexander Zelikovsky:
Faster Approximation Algorithms for the Rectilinear Steiner Tree Problem. Discret. Comput. Geom. 18(1): 93-109 (1997) - [j4]Marek Karpinski, Alexander Zelikovsky:
New Approximation Algorithms for the Steiner Tree Problems. J. Comb. Optim. 1(1): 47-65 (1997) - [c6]Marek Karpinski, Alexander Zelikovsky:
Approximating dense cases of covering problems. Network Design: Connectivity and Facilities Location 1997: 169-178 - [c5]C. Douglass Bateman, Christopher S. Helvig, Gabriel Robins, Alexander Zelikovsky:
Provably good routing tree construction with multi-port terminals. ISPD 1997: 96-102 - [i4]Marek Karpinski, Alexander Zelikovsky:
Approximating Dense Cases of Covering Problems. Electron. Colloquium Comput. Complex. TR97 (1997) - [i3]Marek Karpinski, Juergen Wirtgen, Alexander Zelikovsky:
An Approximation Algorithm for the Bandwidth Problem on Dense Graphs. Electron. Colloquium Comput. Complex. TR97 (1997) - 1995
- [c4]Cho Hwan-Gue, Alexander Zelikovsky:
Spanning Closed Trail and Hamiltonian Cycle in Grid Graphs. ISAAC 1995: 342-351 - [i2]Marek Karpinski, Alexander Zelikovsky:
1.757 and 1.267 - Approximation Algorithms for the Network and Rectilinear Steiner Tree Problems. Electron. Colloquium Comput. Complex. TR95 (1995) - [i1]Marek Karpinski, Alexander Zelikovsky:
New Approximation Algorithms for the Steiner Tree Problems. Electron. Colloquium Comput. Complex. TR95 (1995) - 1994
- [c3]Piotr Berman, Ulrich Fößmeier, Marek Karpinski, Michael Kaufmann, Alexander Zelikovsky:
Approaching the 5/4-Approximation for Rectilinear Steiner Trees. ESA 1994: 60-71 - 1993
- [j3]Alexander Zelikovsky:
An 11/6-Approximation Algorithm for the Network Steiner Problem. Algorithmica 9(5): 463-470 (1993) - [j2]Alexander Zelikovsky:
The last achievements in Steiner tree approximations. Comput. Sci. J. Moldova 1(1): 35-44 (1993) - [j1]Alexander Zelikovsky:
A Faster Approximation Algorithm for the Steiner Tree Problem in Graphs. Inf. Process. Lett. 46(2): 79-83 (1993) - [c2]Alexander Zelikovsky:
An approximation algorithm for weighted itk-polymatroids and the Steiner tree problem in graphs. IPCO 1993: 89-98 - [c1]Ulrich Fößmeier, Michael Kaufmann, Alexander Zelikovsky:
Faster Approximation Algorithms for the Rectilinear Steiner Tree Problem. ISAAC 1993: 533-542
Coauthor Index
David S. Campo
aka: David Stiven Campo Rendon
aka: David Stiven Campo Rendon
Yuri Khudyakov
aka: Yury Khudyakov
aka: Yury Khudyakov
[e12] [j94] [e10] [j86] [j83] [j82] [e9] [c127] [e8] [j75] [c126] [i11] [c124] [p3] [p2] [j69] [j68] [j66] [c121] [c117] [j63] [c111] [j59] [c106] [c105] [j58] [j56] [c102] [c101] [c100] [c99] [c98] [c97] [j54] [j52] [j51] [j50] [c95] [c94] [c93] [c92] [c91] [j48] [j47] [j45] [c89] [c88] [c86] [c85] [c82] [c77] [i10] [j42] [j39] [e3] [j37] [j34] [j33] [e2] [r3] [r2] [r1] [j30] [j29] [j28] [i5] [j22] [j21] [c47] [j18] [j17] [c43] [c39] [c38] [c37] [c36] [c35] [c34] [j15] [c32] [c31] [c29] [c28] [j12] [c27] [c24] [c23] [c22] [c21] [j11] [c18]
[e12] [c140] [j94] [j92] [c137] [j89] [j88] [e10] [j87] [j86] [j85] [j84] [j82] [j81] [j80] [c130] [e9] [j79] [j78] [c129] [c128] [e8] [j77] [j76] [j75] [c126] [c125] [i11] [j74] [j71] [j70] [c124] [c122] [c121] [c120] [c119] [c118] [c116] [c115] [e6] [j63] [c110] [c103] [j58] [c102] [c99] [c97] [c96] [j53] [j51] [c93] [c89]
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