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2020 – today
- 2024
[j23]Victor Epain
, Rumen Andonov:
Global exact optimisations for chloroplast structural haplotype scaffolding. Algorithms Mol. Biol. 19(1): 5 (2024)- [c32]Tam Khac Minh Truong, Roland Faure, Rumen Andonov:
Assembling Close Strains in Metagenome Assemblies Using Discrete Optimization. BIOSTEC (1) 2024: 347-356 - 2020
- [j22]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): 1300-1313 (2020)
2010 – 2019
- 2019
- [j21]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): 1950014:1-1950014:23 (2019) - 2018
- [j20]Sebastien François, Rumen Andonov, Dominique Lavenier, Hristo N. Djidjev:
Global Optimization for Scaffolding and Completing Genome Assemblies. Electron. Notes Discret. Math. 64: 185-194 (2018) - 2017
- [c31]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: 163-177 - [i2]Nirmal Prajapati, Sanjay V. Rajopadhye, Hristo N. Djidjev, Nandakishore Santhi, Tobias Grosser, Rumen Andonov:
Accelerator Codesign as Non-Linear Optimization. CoRR abs/1712.04892 (2017) - 2015
- [j19]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): 850-869 (2015) - [j18]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: 91-103 (2015) - [j17]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: 279715:1-279715:12 (2015) - [c30]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: 888-895 - 2014
- [c29]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: 262-273 - [c28]Hristo N. Djidjev, Sunil Thulasidasan, Guillaume Chapuis, Rumen Andonov, Dominique Lavenier:
Efficient Multi-GPU Computation of All-Pairs Shortest Paths. IPDPS 2014: 360-369 - 2013
- [j16]Inken Wohlers, Rumen Andonov, Gunnar W. Klau:
DALIX: Optimal DALI Protein Structure Alignment. IEEE ACM Trans. Comput. Biol. Bioinform. 10(1): 26-36 (2013) - [c27]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: 278-287 - 2012
- [j15]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): 303-309 (2012) - 2011
- [j14]Guillaume Collet, Rumen Andonov, Nicola Yanev, Jean-François Gibrat:
Local protein threading by Mixed Integer Programming. Discret. Appl. Math. 159(16): 1707-1716 (2011) - [j13]Rumen Andonov, Noël Malod-Dognin, Nicola Yanev:
Maximum Contact Map Overlap Revisited. J. Comput. Biol. 18(1): 27-41 (2011) - [j12]Inken Wohlers, Rumen Andonov, Gunnar W. Klau:
Algorithm engineering for optimal alignment of protein structure distance matrices. Optim. Lett. 5(3): 421-433 (2011) - [c26]Antonio Mucherino, Inken Wohlers, Gunnar W. Klau, Rumen Andonov:
Sparsifying Distance Matrices for Protein-Protein Structure Alignments. CTW 2011: 211-214 - [c25]Noël Malod-Dognin, Mathilde Le Boudic-Jamin, Pritish Kamath, Rumen Andonov:
Using Dominances for Solving the Protein Family Identification Problem. WABI 2011: 201-212 - 2010
- [c24]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: 117-124 - [c23]Noël Malod-Dognin, Rumen Andonov, Nicola Yanev:
Maximum Cliques in Protein Structure Comparison. SEA 2010: 106-117
2000 – 2009
- 2009
- [j11]Vincent Poirriez, Nicola Yanev, Rumen Andonov:
A hybrid algorithm for the unbounded knapsack problem. Discret. Optim. 6(1): 110-124 (2009) - [c22]Guillaume Collet, Rumen Andonov, Nicola Yanev, Jean-François Gibrat:
Protein Threading. CTW 2009: 341-344 - 2008
- [j10]Nicola Yanev, Rumen Andonov, Philippe Veber, Stefan Balev:
Lagrangian approaches for a class of matching problems in computational biology. Comput. Math. Appl. 55(5): 1054-1067 (2008) - [j9]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): 63-76 (2008) - [c21]Rumen Andonov, Nicola Yanev, Noël Malod-Dognin:
An Efficient Lagrangian Relaxation for the Contact Map Overlap Problem. WABI 2008: 162-173 - 2007
- [p1]Rumen Andonov, Guillaume Collet, Jean-François Gibrat, Antoine Marin, Vincent Poirriez, Nicola Yanev:
Recent Advances in Solving the Protein Threading Problem. Grid Computing for Bioinformatics and Computational Biology 2007: 325-356 - [i1]Rumen Andonov, Guillaume Collet, Jean-François Gibrat, Antoine Marin, Vincent Poirriez, Nicola Yanev:
Recent Advances in Solving the Protein Threading Problem. CoRR abs/0707.3750 (2007) - 2005
- [j8]Rumen Andonov, Dominique Lavenier, Philippe Veber, Nicola Yanev:
Dynamic programming for LR-PCR segmentation of bacterium genomes. Concurr. Comput. Pract. Exp. 17(14): 1657-1668 (2005) - [c20]Vincent Poirriez, Rumen Andonov, Antoine Marin, Jean-François Gibrat:
FROST: Revisited and Distributed. IPDPS 2005 - [c19]Philippe Veber, Nicola Yanev, Rumen Andonov, Vincent Poirriez:
Optimal Protein Threading by Cost-Splitting. WABI 2005: 365-375 - 2004
- [j7]Nicola Yanev, Rumen Andonov:
Parallel divide and conquer approach for the protein threading problem. Concurr. Pract. Exp. 16(9): 961-974 (2004) - [j6]Rumen Andonov, Stefan Balev, Nicola Yanev:
Protein Threading: From Mathematical Models to Parallel Implementations. INFORMS J. Comput. 16(4): 393-405 (2004) - [c18]Rumen Andonov, Dominique Lavenier, Philippe Veber, Nicola Yanev:
Dynamic Programming for LR-PCR Segmention of Bacterium Genomes. IPDPS 2004 - 2003
- [j5]Rumen Andonov, Stephan Balev, Sanjay V. Rajopadhye, Nicola Yanev:
Optimal Semi-Oblique Tiling. IEEE Trans. Parallel Distributed Syst. 14(9): 944-960 (2003) - [c17]Nicola Yanev, Rumen Andonov:
Solving the Protein Threading Problem in Parallel. IPDPS 2003: 157 - [c16]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: 525-532 - 2002
- [c15]Francisco Almeida, Rumen Andonov, Daniel González, Luz Marina Moreno, Vincent Poirriez, Casiano Rodríguez:
Optimal tiling for the RNA base pairing problem. SPAA 2002: 173-182 - 2001
- [c14]Rumen Andonov, Stephan Balev, Sanjay V. Rajopadhye, Nicola Yanev:
Optimal semi-oblique tiling. SPAA 2001: 153-162 - 2000
- [j4]Rumen Andonov, Vincent Poirriez, Sanjay V. Rajopadhye:
Unbounded knapsack problem: Dynamic programming revisited. Eur. J. Oper. Res. 123(2): 394-407 (2000)
1990 – 1999
- 1999
- [c13]Hafid Bourzoufi, Benamar Sidi-Boulenouar, Rumen Andonov:
Tiling and Processors Allocation for Three Dimensional Iteration Space. HiPC 1999: 125-129 - [c12]Stephan Balev, Rumen Andonov, Arnaud Fréville:
A Parallel Branch-and-Bound Algorithm for the Classification Problem. HiPC 1999: 274-278 - 1998
- [c11]Rumen Andonov, Sanjay V. Rajopadhye, Nicola Yanev:
Optimal Orthogonal Tiling. Euro-Par 1998: 480-490 - 1997
- [j3]Rumen Andonov, Sanjay V. Rajopadhye:
Optimal Orthogonal Tiling of 2-D Iterations. J. Parallel Distributed Comput. 45(2): 159-165 (1997) - [j2]Rumen Andonov, Sanjay V. Rajopadhye:
Knapsack on VLSI: from Algorithm to Optimal Circuit. IEEE Trans. Parallel Distributed Syst. 8(6): 545-561 (1997) - [c10]Rumen Andonov, Nicola Yanev, Hafid Bourzoufi:
Three-dimensional orthogonal tile sizing problem: mathematical programming approach. ASAP 1997: 209-218 - 1996
- [c9]Rumen Andonov, Hafid Bourzoufi, Sanjay V. Rajopadhye:
Two-dimensional orthogonal tiling: from theory to practice. HiPC 1996: 225-231 - [c8]Florent de Dinechin, Doran Wilde, Sanjay V. Rajopadhye, Rumen Andonov:
A Regular VLSI Array for an Irregular Algorithm. IRREGULAR 1996: 195-200 - 1995
- [j1]Rumen Andonov, Patrice Quinton, Sanjay V. Rajopadhye, Doran Wilde:
A Shift Registered-Based Systolic Array for the Unbounded Knapsack Problem. Parallel Process. Lett. 5: 251-262 (1995) - 1994
- [c7]Rumen Andonov, Sanjay V. Rajopadhye:
A sparse knapsack algo-tech-cuit and its synthesis. ASAP 1994: 302-313 - [c6]Rumen Andonov, Sanjay V. Rajopadhye:
Optimal Tile Sizing. CONPAR 1994: 701-712 - [c5]Rumen Andonov, Patrice Quinton, Sanjay V. Rajopadhye, Doran Wilde:
Pure Systolic Array for a Class of Dynamic Dependency Recurrences. Parcella 1994: 207-214 - 1993
- [c4]Rumen Andonov, Sanjay V. Rajopadhye:
An optimal algo-tech-cuit for the knapsack problem. ASAP 1993: 548-559 - 1992
- [c3]Rumen Andonov, Patrice Quinton:
Efficient Linear Systolic Array for the Knapsack Problem. CONPAR 1992: 247-258 - 1991
- [c2]Rumen Andonov, Frédéric Gruau:
A modular systolic 2-D torus for the general knapsack problem. ASAP 1991: 458-472 - [c1]Rumen Andonov, Frédéric Gruau:
A 2D toroidal systolic array for the knapsack problem. Algorithms and Parallel VLSI Architectures 1991: 71-78
Coauthor Index
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