Rumen Andonov

58 papers A 4B 4C 5Misc 3Journal 25Unranked 16
YearRankTypeTitle / Venue / Authors
2024 — conf
Assembling Close Strains in Metagenome Assemblies Using Discrete Optimization.
BIOSTEC (1)
Tam Khac Minh Truong, Roland Faure, Rumen Andonov
2024 J jnl
Global exact optimisations for chloroplast structural haplotype scaffolding.
Algorithms Mol. Biol.
Victor Epain, Rumen Andonov
2020 J jnl
Optimization Approach to Accelerator Codesign.
IEEE Trans. Comput. Aided Des. Integr. Circuits Syst.
Nirmal Prajapati, Sanjay V. Rajopadhye, Hristo N. Djidjev, Nandakishore Santhi, Tobias Grosser, Rumen Andonov
2019 J jnl
Complete assembly of circular and chloroplast genomes based on global optimization.
J. Bioinform. Comput. Biol.
Rumen Andonov, Hristo N. Djidjev, Sebastien François, Dominique Lavenier
2018 J jnl
Global Optimization for Scaffolding and Completing Genome Assemblies.
Electron. Notes Discret. Math.
Sebastien François, Rumen Andonov, Dominique Lavenier, Hristo N. Djidjev
2017 J jnl
Accelerator Codesign as Non-Linear Optimization.
CoRR
Nirmal Prajapati, Sanjay V. Rajopadhye, Hristo N. Djidjev, Nandakishore Santhi, Tobias Grosser, Rumen Andonov
2017 B conf
Simple, Accurate, Analytical Time Modeling and Optimal Tile Size Selection for GPGPU Stencils.
PPoPP
Nirmal Prajapati, Waruna Ranasinghe, Sanjay V. Rajopadhye, Rumen Andonov, Hristo N. Djidjev, Tobias Grosser
2015 J jnl
All-Pairs Shortest Path algorithms for planar graph for GPU-accelerated clusters.
J. Parallel Distributed Comput.
Hristo N. Djidjev, Guillaume Chapuis, Rumen Andonov, Sunil Thulasidasan, Dominique Lavenier
2015 J jnl
Automatic Classification of Protein Structure Using the Maximum Contact Map Overlap Metric.
Algorithms
Rumen Andonov, Hristo N. Djidjev, Gunnar W. Klau, Mathilde Le Boudic-Jamin, Inken Wohlers
2015 — conf
Energy Modeling and Optimization for Tiled Nested-Loop Codes.
IPDPS Workshops
Nirmal Prajapati, Waruna Ranasinghe, Vamshi Tandrapati, Rumen Andonov, Hristo N. Djidjev, Sanjay V. Rajopadhye
2015 J jnl
Parallel Seed-Based Approach to Multiple Protein Structure Similarities Detection.
Sci. Program.
Guillaume Chapuis, Mathilde Le Boudic-Jamin, Rumen Andonov, Hristo N. Djidjev, Dominique Lavenier
2014 A conf
Efficient Multi-GPU Computation of All-Pairs Shortest Paths.
IPDPS
Hristo N. Djidjev, Sunil Thulasidasan, Guillaume Chapuis, Rumen Andonov, Dominique Lavenier
2014 — conf
Exact Protein Structure Classification Using the Maximum Contact Map Overlap Metric.
AlCoB
Inken Wohlers, Mathilde Le Boudic-Jamin, Hristo N. Djidjev, Gunnar W. Klau, Rumen Andonov
2013 J jnl
DALIX: Optimal DALI Protein Structure Alignment.
IEEE ACM Trans. Comput. Biol. Bioinform.
Inken Wohlers, Rumen Andonov, Gunnar W. Klau
2013 — conf
Parallel Seed-Based Approach to Protein Structure Similarity Detection.
PPAM (2)
Guillaume Chapuis, Mathilde Le Boudic-Jamin, Rumen Andonov, Hristo N. Djidjev, Dominique Lavenier
2012 J jnl
CSA: comprehensive comparison of pairwise protein structure alignments.
Nucleic Acids Res.
Inken Wohlers, Noël Malod-Dognin, Rumen Andonov, Gunnar W. Klau
2011 J jnl
Algorithm engineering for optimal alignment of protein structure distance matrices.
Optim. Lett.
Inken Wohlers, Rumen Andonov, Gunnar W. Klau
2011 J jnl
Local protein threading by Mixed Integer Programming.
Discret. Appl. Math.
Guillaume Collet, Rumen Andonov, Nicola Yanev, Jean-François Gibrat
2011 J jnl
Maximum Contact Map Overlap Revisited.
J. Comput. Biol.
Rumen Andonov, Noël Malod-Dognin, Nicola Yanev
2011 C conf
Sparsifying Distance Matrices for Protein-Protein Structure Alignments.
CTW
Antonio Mucherino, Inken Wohlers, Gunnar W. Klau, Rumen Andonov
2011 C conf
Using Dominances for Solving the Protein Family Identification Problem.
WABI
Noël Malod-Dognin, Mathilde Le Boudic-Jamin, Pritish Kamath, Rumen Andonov
2010 B conf
Maximum Cliques in Protein Structure Comparison.
SEA
Noël Malod-Dognin, Rumen Andonov, Nicola Yanev
2010 — conf
SHREC'10 Track: Protein Model Classification.
3DOR@Eurographics
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
2009 J jnl
A hybrid algorithm for the unbounded knapsack problem.
Discret. Optim.
Vincent Poirriez, Nicola Yanev, Rumen Andonov
2009 C conf
Protein Threading.
CTW
Guillaume Collet, Rumen Andonov, Nicola Yanev, Jean-François Gibrat
2008 J jnl
A dynamic programming based reduction procedure for the multidimensional 0-1 knapsack problem.
Eur. J. Oper. Res.
Stefan Balev, Nicola Yanev, Arnaud Fréville, Rumen Andonov
2008 C conf
An Efficient Lagrangian Relaxation for the Contact Map Overlap Problem.
WABI
Rumen Andonov, Nicola Yanev, Noël Malod-Dognin
2008 J jnl
Lagrangian approaches for a class of matching problems in computational biology.
Comput. Math. Appl.
Nicola Yanev, Rumen Andonov, Philippe Veber, Stefan Balev
2007 J jnl
Recent Advances in Solving the Protein Threading Problem
CoRR
Rumen Andonov, Guillaume Collet, Jean-François Gibrat, Antoine Marin, Vincent Poirriez, Nicola Yanev
2007 — ch.
Recent Advances in Solving the Protein Threading Problem.
Grid Computing for Bioinformatics and Computational Biology
Rumen Andonov, Guillaume Collet, Jean-François Gibrat, Antoine Marin, Vincent Poirriez, Nicola Yanev
2005 J jnl
Dynamic programming for LR-PCR segmentation of bacterium genomes.
Concurr. Comput. Pract. Exp.
Rumen Andonov, Dominique Lavenier, Philippe Veber, Nicola Yanev
2005 A conf
FROST: Revisited and Distributed.
IPDPS
Vincent Poirriez, Rumen Andonov, Antoine Marin, Jean-François Gibrat
2005 C conf
Optimal Protein Threading by Cost-Splitting.
WABI
Philippe Veber, Nicola Yanev, Rumen Andonov, Vincent Poirriez
2004 A conf
Dynamic Programming for LR-PCR Segmention of Bacterium Genomes.
IPDPS
Rumen Andonov, Dominique Lavenier, Philippe Veber, Nicola Yanev
2004 J jnl
Parallel divide and conquer approach for the protein threading problem.
Concurr. Pract. Exp.
Nicola Yanev, Rumen Andonov
2004 J jnl
Protein Threading: From Mathematical Models to Parallel Implementations.
INFORMS J. Comput.
Rumen Andonov, Stefan Balev, Nicola Yanev
2003 — conf
On the parallel prediction of the RNA secondary structure.
PARCO
Francisco Almeida, Rumen Andonov, Luz Marina Moreno, Vincent Poirriez, Melquíades Pérez Pérez, Casiano Rodríguez
2003 J jnl
Optimal Semi-Oblique Tiling.
IEEE Trans. Parallel Distributed Syst.
Rumen Andonov, Stephan Balev, Sanjay V. Rajopadhye, Nicola Yanev
2003 A conf
Solving the Protein Threading Problem in Parallel.
IPDPS
Nicola Yanev, Rumen Andonov
2002 B conf
Optimal tiling for the RNA base pairing problem.
SPAA
Francisco Almeida, Rumen Andonov, Daniel González, Luz Marina Moreno, Vincent Poirriez, Casiano Rodríguez
2001 B conf
Optimal semi-oblique tiling.
SPAA
Rumen Andonov, Stephan Balev, Sanjay V. Rajopadhye, Nicola Yanev
2000 J jnl
Unbounded knapsack problem: Dynamic programming revisited.
Eur. J. Oper. Res.
Rumen Andonov, Vincent Poirriez, Sanjay V. Rajopadhye
1999 Misc conf
A Parallel Branch-and-Bound Algorithm for the Classification Problem.
HiPC
Stephan Balev, Rumen Andonov, Arnaud Fréville
1999 Misc conf
Tiling and Processors Allocation for Three Dimensional Iteration Space.
HiPC
Hafid Bourzoufi, Benamar Sidi-Boulenouar, Rumen Andonov
1998 — conf
Optimal Orthogonal Tiling.
Euro-Par
Rumen Andonov, Sanjay V. Rajopadhye, Nicola Yanev
1997 J jnl
Knapsack on VLSI: from Algorithm to Optimal Circuit.
IEEE Trans. Parallel Distributed Syst.
Rumen Andonov, Sanjay V. Rajopadhye
1997 J jnl
Optimal Orthogonal Tiling of 2-D Iterations.
J. Parallel Distributed Comput.
Rumen Andonov, Sanjay V. Rajopadhye
1997 — conf
Three-dimensional orthogonal tile sizing problem: mathematical programming approach.
ASAP
Rumen Andonov, Nicola Yanev, Hafid Bourzoufi
1996 — conf
A Regular VLSI Array for an Irregular Algorithm.
IRREGULAR
Florent de Dinechin, Doran Wilde, Sanjay V. Rajopadhye, Rumen Andonov
1996 Misc conf
Two-dimensional orthogonal tiling: from theory to practice.
HiPC
Rumen Andonov, Hafid Bourzoufi, Sanjay V. Rajopadhye
1995 J jnl
A Shift Registered-Based Systolic Array for the Unbounded Knapsack Problem.
Parallel Process. Lett.
Rumen Andonov, Patrice Quinton, Sanjay V. Rajopadhye, Doran Wilde
1994 — conf
A sparse knapsack algo-tech-cuit and its synthesis.
ASAP
Rumen Andonov, Sanjay V. Rajopadhye
1994 — conf
Optimal Tile Sizing.
CONPAR
Rumen Andonov, Sanjay V. Rajopadhye
1994 — conf
Pure Systolic Array for a Class of Dynamic Dependency Recurrences.
Parcella
Rumen Andonov, Patrice Quinton, Sanjay V. Rajopadhye, Doran Wilde
1993 — conf
An optimal algo-tech-cuit for the knapsack problem.
ASAP
Rumen Andonov, Sanjay V. Rajopadhye
1992 — conf
Efficient Linear Systolic Array for the Knapsack Problem.
CONPAR
Rumen Andonov, Patrice Quinton
1991 — conf
A 2D toroidal systolic array for the knapsack problem.
Algorithms and Parallel VLSI Architectures
Rumen Andonov, Frédéric Gruau
1991 — conf
A modular systolic 2-D torus for the general knapsack problem.
ASAP
Rumen Andonov, Frédéric Gruau