Bioinformatics Special Interest Group (BI SIG)
Publications
2016
B. Shao, N. Lavesson, V. Boeva, R.M. Khurram, A Mixture-of-Experts Approach for Gene Regulatory Network Inference, International Journal of Data Mining and Bioinformatics (2016) 14 3 258-275.
2015
S. Mikolajczak, T. Ruette, T. Tsiporkova, M. Angelova, V. Boeva, A Semantic Reasoning Engine for Lifestyle Profiling in Support of Personalised Coaching, The Fourth International Conference on Global Health Challenges, GLOBAL HEALTH 2015 (Nice, France, July 19-24, 2015) 79-83.
2014
V. Boeva, Clustering Approaches for Dealing with Multiple DNA Microarray Datasets, Journal of Computational Science - Elsevier 5 3 (2014) 368-376.
A. Hristoskova, V. Boeva, E. Tsiporkova, A Formal Concept Analysis Approach to Consensus Clustering of Multi-Experiment Expression Data, BMC Bioinformatics 2014, 15:151.
V. Boeva, E. Tsiporkova, E. Kostadinova, Analysis of Multiple DNA Microarrays, Springer Handbook of Bio and Neuroinformatics, DE Springer (2014) 223-234. [Supplementary data]
2013
A. Borg, N. Lavesson, V. Boeva, Comparison of Clustering Approaches for Gene Expression Data, The 12th Scandinavian AI Conference (Aalborg, Denmark November 20-22, 2013), SCAI2013, M. Jaeger et al. (Eds.) IOS Press, 55-64, 2013.
V. Boeva, A Comparative Study of DTW-based Methods for Missing Value Estimation in Gene Expression Time Series. Journal of Technical University of Sofia, Plovdiv branch, Bulgaria. "Fundamental Sciences and Applications" vol. 19 (2013).
V. Boeva, A Consensus Clustering Approach for Analysis of Multiple Microarray Datasets. XI-th International Conference "Challenges in Higher Education and Research in the 21st Century" (Sozopol, Bulgaria, 4-7 June 2013).
2012
V. Boeva, A.. Hristoskova, E. Tsiporkova, E. Kostadinova. FCA as a Means for Consolidation of Clustering Results Derived from Multiple Experiments. International Conference of Bioinformatics and Computational Biology, BIOCOMP 2012 (Varna, Bulgaria, September 20-22, 2012), 11-12.
A. Hristoskova, V. Boeva, E. Tsiporkova, An Integrative Clustering Approach Combining Particle Swarm Optimization and Formal Concept Analysis, C.Bohm et al. (Eds.): Information Technology in Bio- and Medical Informatics, Springer, Lecture Notes in Computer Science 7451, 84 -98 Springer-Verlag Berlin Heidelberg (2012).
E. Kostadinova, V. Boeva, L. Boneva, E. Tsiporkova. An Integrative DTW-based Imputation Method for Gene Expression Time Series Data, The 6th IEEE International Conference on Intelligent Systems IS'12 (Sofia, Bulgaria, 6-8 September 2012), 258-263.
2011
V. Boeva, A. Hristoskova, E. Tsiporkova, Clustering of Multiple DNA Microarrays through Combination of Particle Swarm Intelligence and K-means. The 6th International Conference on Computational Intelligence and Bioinformatics (Pittsburgh, USA, November 7-9, 2011), 32-38.
E. Tsiporkova, V. Boeva, E. Kostadinova, Map-Reduce and FCA Approach for Clustering of Multiple-Experiment Data Compendium. The 23rd Benelux Conference on Artificial Intelligence, (Gent, Belgium, November 3-4, 2011) BNAIC'2011, 247-254.
V. Boeva, E. Kostadinova, M. Krusheva. An Approach for Extended Clustering Analysis of Gene Expression Data. In: Proc. of International Conference AUTOMATICS & INFORMATICS'2011, (Sofia, Bulgaria, October 3-6, 2011).
E. Kostadinova, V. Boeva and N. Lavesson. Clustering of Multiple Microarray Experiments Using Information Integration. C.Bohm et al. (Eds.): Information Technology in Bio- and Medical Informatics, Lecture Notes in Computer Science 6865, 123-137 Springer-Verlag Berlin Heidelberg (2011). [Supplementary data]
D. Petrova, Protein structure comparison based on distances between secondary structure elements and backbone dihedral angles. In: Proc. of the 12th International Conference on Computer Systems and Technologies, CompSysTech'2011: 359-364.
2010
Data Standardization: V. Boeva and E. Tsiporkova (2010). A Multi-purpose Time Series Data Standardization Method.V. Sgurev, M. Hadjiski, J. Kacprzyk (Eds.): Intelligent Systems: From Theory to Practice, SCI 299, 445-460. Springer-Verlag Berlin Heidelberg (2010).
V. Boeva and E. Kostadinova. An Adaptive Approach for Integration Analysis of Multiple Gene Expression Datasets. D. Dicheva and D. Dochev (Eds.): AIMSA 2010, LNAI 6304, 221-230. Springer-Verlag Berlin Heidelberg (2010).
V. Boeva, P. Ivanova and N. Lavesson. A Hybrid Computational Method for the Identification of Cell Cycle-regulated Genes. In: Proc. of IS'10, The Fifth IEEE International Conference on Intelligent Systems IS'10 (London, UK, July 7-9, 2010), 390-395.
2009
V Boeva and E. Kostadinova. A Hybrid DTW based Method for Integration Analysis of Time Series Data. In: Proc. of 2009 International Conference on Adaptive and Intelligent Systems - ICAIS'09 (September 24-26, Klagenfurt, Austria), 49-54.
E. Kostadinova and V. Boeva. Hybrid Feature Selection Techniques for Analysis of High-throughput Biological Data. Journal of Automatics and Informatics Vol. 1, 26-30, 2009 (in Bulgarian).
St. Stoichev and D. Petrova. An Application of an Algorithm for Subgraph Detection for Comparison of Protein Molecules. In: Proc. of International Conference on Computer Systems and Technologies-CompSysTech'09 (Rousse, Bulgaria, 2009).
D. Petrova. Protein Structure Comparison Methods, Information Technologies and Control, SAI, Year VII, No. 2/2009.
2008
T. De Meyer, D. Sinnaeve, B. Van Gasse, E. Tsiporkova, E. R. Rietzschel, M. L. De Buyzere, T. C. Gillebert, S. Bekaert, J. C. Martins and W. Van Criekinge. NMR-based characterization of metabolic alterations in hypertension using an adaptive, intelligent binning algorithm. Journal of Analytical Chemistry (2008) 80(10), 3783-3790.
St. Stoichev and D. Petrova. The Three Nearest Neighbors Model for Protein Structure Comparison. In: Proc. of International Conference on Computer Sciences (Kavala, Greece, September 18-20, 2008).
V. Boeva, E. Kostadinova, M. Dimitrova and P. Ivanova. A Hybrid Missing Value Estimation Algorithm for Gene Expression Arrays. In: Proc. of International Conference AUTOMATICS & INFORMATICS'2008, (Sofia, Bulgaria, October 2-7, 2008), II-25 - II-28.
V. Rangelova and D. Tsankova. Soft Computing Techniques in Modeling the Influence of pH on Dopamine Biosensor. R. Yager, V. Sgurev and V. Jotsov (Eds.): The Forth IEEE International Conference on Intelligent Systems IS'2008: Methodology, Models, Applications in Emerging Technologies (Varna, Bulgaria, September 6-8, 2008), vol. II, 12 23-28.
E. Tsiporkova and V. Boeva. A novel gene-centric clustering algorithm for standardization of time series expression data. R. Yager, V. Sgurev and V. Jotsov (Eds.): The Forth IEEE International on Conference Intelligent Systems IS'2008: Methodology, Models, Applications in Emerging Technologies (Varna, Bulgaria, September 6-8, 2008), vol. II, 12 8-13.
V. Boeva and E. Tsiporkova. A Novel Adaptive Multiple Imputation Algorithm. M. Elloumi et al. (Eds.): The Second International Conference on Bioinformatics Research and Development, BIRD'2008 (Technical University of Vienna, Austria, July 7-9, 2008), Communications in Computer and Information Science (2008) 193-206 (Springer-Verlag Berlin Heidelberg 2008).
D. Petrova. Testing and Analysis of an Algorithm for Protein Structure Comparison. Int. Conference on Computer Systems and Technologies-CompSysTech'08 (Gabrovo, Bulgaria, June 12-13, 2008).
2007
DTWimpute: E. Tsiporkova and V. Boeva
(2007). Two-pass Imputation Algorithm for
Missing Value Estimation in Gene Expression Time Series.
Merging Microarrays: F. Hermans and E. Tsiporkova (2007). Merging microarray cell synchronization experiments through curve alignment. Bioinformatics 23 e64-e70.
D. Tsankova and V. Rangelova. Application of Clonal Selection and Affinity Maturation Principles for Cancer Outcome Prediction. In: Proc. of International Conference AUTOMATICS & INFORMATICS'2007, Int. Symposium BioInfo'2007 (Sofia, Bulgaria, October 3-6, 2007), vol. II, 15-19.
E. Tsiporkova and V. Boeva. Modelling and Simulation of the Genetic Phenomena of Additivity and Dominance via Gene Networks of Parallel Aggregation Processes. S. Hochreiter and R. Wagner (Eds.): 1st Int. Conference on Bioinformatics Research and Development BIRD'2007, Lecture Notes in Bioinformatics 4414 (2007) 199-211 (Springer-Verlag Berlin Heidelberg 2007).
D. Petrova and St. Stoichev. Protein Structure Similarity Detection Using Alignment of Secondary Structure Elements and Their Geometric Properties. Int. Conference on Computer Systems and Technologies-CompSysTech'07 (Rousse, Bulgaria, June 14-15, 2007).
V. Rangelova and D. Tsankova. CMAC-based Modelling the Influence of Temperature on Tissue Biosensor for Measurement of Dopamine. The Fifth IASTED
Int. Conference on Biomedical Engineering (Innsbruck, Austria,
February 14-16, 2007), 15-19.
D. Tsankova and V. Rangelova. Cancer Outcome Prediction by Cluster-based Artificial Immune Networks. The Fifth IASTED International Conference on Biomedical Engineering (Innsbruck, Austria, February 14-16, 2007), 26-32.
2006
GenTXWarper: J. Criel and E. Tsiporkova. Gene Time Expression Warper: A tool for alignment, template matching and visualization of gene expression time series. Bioinformatics 22 2 (2006) 251-252.
V. Boeva and E. Tsiporkova. Additive and Dominance Phenomena Interpreted as Gene Networks of Interacting Parallel Aggregation Processes. In: Proc. of International Conference AUTOMATICS & INFORMATICS'2006, BioInfo'2006 Workshop (Sofia, Bulgaria, October 3-6, 2006),123-126.
E. Tsiporkova and V. Boeva. Dynamic Time Warping Algorithms for Missing Value Estimation of Time Series Data. The Fifteenth Dutch-Belgium Conference on Machine Learning, BENELEARN'2006 (Ghent, Belgium, May 11-12, 2006), 97-104.
E. Tsiporkova, V. Boeva and M. Kuiper. Gene Networks of Parallel Aggregation Processes Inducing Additivity and Dominance Phenomena. The Tenth Annual International Conference on Research in Computational Molecular Biology, RECOMB'2006 (Venice, Italy, April 2-5, 2006), A83.
2005
N. Kasabov and V. Boeva. Bioinformatics: Challenges and Opportunities for Information Science and Knowledge Engineering. Journal of Information Technologies and Control, published by the Bulgarian Union of Automatics and Informatics (ISSN 1312-2622) Vol. 4, 11-18, 2005.
D.Tsankova,
V.Georgieva, N. Kasabov. Artificial Immune Networks as a Paradigm for Classification and
Profiling of Gene Expression Data. Journal of Computational and Theoretical
NANOSCIENCE (ISSN 1546-1955) Vol. 2, Num. 4, Dec. 2005.
D.Tsankova and V.Georgieva. Cancer Outcome Predicting Model
Based on Artificial Immune Network. Journal of the
Technical University of Gabrovo (ISSN 1310-6686) Vol.31 (2005) 108-111.