Rumen Andonov

Publication Activity (10 Years)

Years Active: 1991-2024
Publications (10 Years): 7

Top Topics

Global Optimization

Shortest Path Algorithm

Protein Structure

Top Venues

Publications

Tam Khac Minh Truong, Roland Faure, Rumen Andonov
Assembling Close Strains in Metagenome Assemblies Using Discrete Optimization. BIOSTEC (1) (2024)
Victor Epain, Rumen Andonov
Global exact optimisations for chloroplast structural haplotype scaffolding. Algorithms Mol. Biol. 19 (1) (2024)
Nirmal Prajapati, Sanjay V. Rajopadhye, Hristo N. Djidjev, Nandakishore Santhi, Tobias Grosser, Rumen Andonov
Optimization Approach to Accelerator Codesign. IEEE Trans. Comput. Aided Des. Integr. Circuits Syst. 39 (6) (2020)
Rumen Andonov, Hristo N. Djidjev, Sebastien François, Dominique Lavenier
Complete assembly of circular and chloroplast genomes based on global optimization. J. Bioinform. Comput. Biol. 17 (3) (2019)
Sebastien François, Rumen Andonov, Dominique Lavenier, Hristo N. Djidjev
Global Optimization for Scaffolding and Completing Genome Assemblies. Electron. Notes Discret. Math. 64 (2018)
Nirmal Prajapati, Sanjay V. Rajopadhye, Hristo N. Djidjev, Nandakishore Santhi, Tobias Grosser, Rumen Andonov
Accelerator Codesign as Non-Linear Optimization. CoRR (2017)
Nirmal Prajapati, Waruna Ranasinghe, Sanjay V. Rajopadhye, Rumen Andonov, Hristo N. Djidjev, Tobias Grosser
Simple, Accurate, Analytical Time Modeling and Optimal Tile Size Selection for GPGPU Stencils. PPOPP (2017)
Hristo N. Djidjev, Guillaume Chapuis, Rumen Andonov, Sunil Thulasidasan, Dominique Lavenier
All-Pairs Shortest Path algorithms for planar graph for GPU-accelerated clusters. J. Parallel Distributed Comput. 85 (2015)
Rumen Andonov, Hristo N. Djidjev, Gunnar W. Klau, Mathilde Le Boudic-Jamin, Inken Wohlers
Automatic Classification of Protein Structure Using the Maximum Contact Map Overlap Metric. Algorithms 8 (4) (2015)
Nirmal Prajapati, Waruna Ranasinghe, Vamshi Tandrapati, Rumen Andonov, Hristo N. Djidjev, Sanjay V. Rajopadhye
Energy Modeling and Optimization for Tiled Nested-Loop Codes. IPDPS Workshops (2015)
Guillaume Chapuis, Mathilde Le Boudic-Jamin, Rumen Andonov, Hristo N. Djidjev, Dominique Lavenier
Parallel Seed-Based Approach to Multiple Protein Structure Similarities Detection. Sci. Program. 2015 (2015)
Hristo N. Djidjev, Sunil Thulasidasan, Guillaume Chapuis, Rumen Andonov, Dominique Lavenier
Efficient Multi-GPU Computation of All-Pairs Shortest Paths. IPDPS (2014)
Inken Wohlers, Mathilde Le Boudic-Jamin, Hristo N. Djidjev, Gunnar W. Klau, Rumen Andonov
Exact Protein Structure Classification Using the Maximum Contact Map Overlap Metric. AlCoB (2014)
Inken Wohlers, Rumen Andonov, Gunnar W. Klau
DALIX: Optimal DALI Protein Structure Alignment. IEEE ACM Trans. Comput. Biol. Bioinform. 10 (1) (2013)
Guillaume Chapuis, Mathilde Le Boudic-Jamin, Rumen Andonov, Hristo N. Djidjev, Dominique Lavenier
Parallel Seed-Based Approach to Protein Structure Similarity Detection. PPAM (2) (2013)
Inken Wohlers, Noël Malod-Dognin, Rumen Andonov, Gunnar W. Klau
CSA: comprehensive comparison of pairwise protein structure alignments. Nucleic Acids Res. 40 (Web-Server-Issue) (2012)
Inken Wohlers, Rumen Andonov, Gunnar W. Klau
Algorithm engineering for optimal alignment of protein structure distance matrices. Optim. Lett. 5 (3) (2011)
Antonio Mucherino, Inken Wohlers, Gunnar W. Klau, Rumen Andonov
Sparsifying Distance Matrices for Protein-Protein Structure Alignments. CTW (2011)
Rumen Andonov, Noël Malod-Dognin, Nicola Yanev
Maximum Contact Map Overlap Revisited. J. Comput. Biol. 18 (1) (2011)
Noël Malod-Dognin, Mathilde Le Boudic-Jamin, Pritish Kamath, Rumen Andonov
Using Dominances for Solving the Protein Family Identification Problem. WABI (2011)
Guillaume Collet, Rumen Andonov, Nicola Yanev, Jean-François Gibrat
Local protein threading by Mixed Integer Programming. Discret. Appl. Math. 159 (16) (2011)
Noël Malod-Dognin, Rumen Andonov, Nicola Yanev
Maximum Cliques in Protein Structure Comparison. SEA (2010)
Lazaros Mavridis, Vishwesh Venkatraman, David W. Ritchie, Naoto Morikawa, Rumen Andonov, Alexandre Cornu, Noël Malod-Dognin, Jacques Nicolas, Maja Temerinac-Ott, Marco Reisert, Hans Burkhardt, Apostolos Axenopoulos, Petros Daras
SHREC'10 Track: Protein Model Classification. 3DOR@Eurographics (2010)
Guillaume Collet, Rumen Andonov, Nicola Yanev, Jean-François Gibrat
Protein Threading. CTW (2009)
Vincent Poirriez, Nicola Yanev, Rumen Andonov
A hybrid algorithm for the unbounded knapsack problem. Discret. Optim. 6 (1) (2009)
Nicola Yanev, Rumen Andonov, Philippe Veber, Stefan Balev
Lagrangian approaches for a class of matching problems in computational biology. Comput. Math. Appl. 55 (5) (2008)
Rumen Andonov, Nicola Yanev, Noël Malod-Dognin
An Efficient Lagrangian Relaxation for the Contact Map Overlap Problem. WABI (2008)
Stefan Balev, Nicola Yanev, Arnaud Fréville, Rumen Andonov
A dynamic programming based reduction procedure for the multidimensional 0-1 knapsack problem. Eur. J. Oper. Res. 186 (1) (2008)
Rumen Andonov, Guillaume Collet, Jean-François Gibrat, Antoine Marin, Vincent Poirriez, Nicola Yanev
Recent Advances in Solving the Protein Threading Problem CoRR (2007)
Vincent Poirriez, Rumen Andonov, Antoine Marin, Jean-François Gibrat
FROST: Revisited and Distributed. IPDPS (2005)
Rumen Andonov, Dominique Lavenier, Philippe Veber, Nicola Yanev
Dynamic programming for LR-PCR segmentation of bacterium genomes. Concurr. Comput. Pract. Exp. 17 (14) (2005)
Philippe Veber, Nicola Yanev, Rumen Andonov, Vincent Poirriez
Optimal Protein Threading by Cost-Splitting. WABI (2005)
Nicola Yanev, Rumen Andonov
Parallel divide and conquer approach for the protein threading problem. Concurr. Pract. Exp. 16 (9) (2004)
Rumen Andonov, Dominique Lavenier, Philippe Veber, Nicola Yanev
Dynamic Programming for LR-PCR Segmention of Bacterium Genomes. IPDPS (2004)
Rumen Andonov, Stefan Balev, Nicola Yanev
Protein Threading: From Mathematical Models to Parallel Implementations. INFORMS J. Comput. 16 (4) (2004)
Francisco Almeida, Rumen Andonov, Luz Marina Moreno, Vincent Poirriez, Melquíades Pérez Pérez, Casiano Rodríguez
On the parallel prediction of the RNA secondary structure. PARCO (2003)
Rumen Andonov, Stephan Balev, Sanjay V. Rajopadhye, Nicola Yanev
Optimal Semi-Oblique Tiling. IEEE Trans. Parallel Distributed Syst. 14 (9) (2003)
Nicola Yanev, Rumen Andonov
Solving the Protein Threading Problem in Parallel. IPDPS (2003)
Francisco Almeida, Rumen Andonov, Daniel González, Luz Marina Moreno, Vincent Poirriez, Casiano Rodríguez
Optimal tiling for the RNA base pairing problem. SPAA (2002)
Rumen Andonov, Stephan Balev, Sanjay V. Rajopadhye, Nicola Yanev
Optimal semi-oblique tiling. SPAA (2001)
Rumen Andonov, Vincent Poirriez, Sanjay V. Rajopadhye
Unbounded knapsack problem: Dynamic programming revisited. Eur. J. Oper. Res. 123 (2) (2000)
Stephan Balev, Rumen Andonov, Arnaud Fréville
A Parallel Branch-and-Bound Algorithm for the Classification Problem. HiPC (1999)
Hafid Bourzoufi, Benamar Sidi-Boulenouar, Rumen Andonov
Tiling and Processors Allocation for Three Dimensional Iteration Space. HiPC (1999)
Rumen Andonov, Sanjay V. Rajopadhye, Nicola Yanev
Optimal Orthogonal Tiling. Euro-Par (1998)
Rumen Andonov, Sanjay V. Rajopadhye
Optimal Orthogonal Tiling of 2-D Iterations. J. Parallel Distributed Comput. 45 (2) (1997)
Rumen Andonov, Sanjay V. Rajopadhye
Knapsack on VLSI: from Algorithm to Optimal Circuit. IEEE Trans. Parallel Distributed Syst. 8 (6) (1997)
Rumen Andonov, Nicola Yanev, Hafid Bourzoufi
Three-dimensional orthogonal tile sizing problem: mathematical programming approach. ASAP (1997)
Florent de Dinechin, Doran Wilde, Sanjay V. Rajopadhye, Rumen Andonov
A Regular VLSI Array for an Irregular Algorithm. IRREGULAR (1996)
Rumen Andonov, Hafid Bourzoufi, Sanjay V. Rajopadhye
Two-dimensional orthogonal tiling: from theory to practice. HiPC (1996)
Rumen Andonov, Patrice Quinton, Sanjay V. Rajopadhye, Doran Wilde
A Shift Registered-Based Systolic Array for the Unbounded Knapsack Problem. Parallel Process. Lett. 5 (1995)
Rumen Andonov, Patrice Quinton, Sanjay V. Rajopadhye, Doran Wilde
Pure Systolic Array for a Class of Dynamic Dependency Recurrences. Parcella (1994)
Rumen Andonov, Sanjay V. Rajopadhye
A sparse knapsack algo-tech-cuit and its synthesis. ASAP (1994)
Rumen Andonov, Sanjay V. Rajopadhye
Optimal Tile Sizing. CONPAR (1994)
Rumen Andonov, Sanjay V. Rajopadhye
An optimal algo-tech-cuit for the knapsack problem. ASAP (1993)
Rumen Andonov, Patrice Quinton
Efficient Linear Systolic Array for the Knapsack Problem. CONPAR (1992)
Rumen Andonov, Frédéric Gruau
A 2D toroidal systolic array for the knapsack problem. Algorithms and Parallel VLSI Architectures (1991)
Rumen Andonov, Frédéric Gruau
A modular systolic 2-D torus for the general knapsack problem. ASAP (1991)