| 2008 |
|---|
| 44 | EE | Aleksandr Morgulis,
George Coulouris,
Yan Raytselis,
Thomas L. Madden,
Richa Agarwala,
Alejandro A. Schäffer:
Database indexing for production MegaBLAST searches.
Bioinformatics 24(16): 1757-1764 (2008) |
| 2007 |
|---|
| 43 | EE | Sergey A. Shiryev,
Jason S. Papadopoulos,
Alejandro A. Schäffer,
Richa Agarwala:
Improved BLAST searches using longer words for protein seeding.
Bioinformatics 23(21): 2949-2951 (2007) |
| 42 | EE | Alejandro A. Schäffer,
Edward Stallknecht Rice,
William Cook,
Richa Agarwala:
rh_tsp_map 3.0: end-to-end radiation hybrid mapping with improved speed and quality control.
Bioinformatics 23(9): 1156-1158 (2007) |
| 2006 |
|---|
| 41 | EE | Aleksandr Morgulis,
E. Michael Gertz,
Alejandro A. Schäffer,
Richa Agarwala:
WindowMasker: window-based masker for sequenced genomes.
Bioinformatics 22(2): 134-141 (2006) |
| 40 | EE | Aleksandr Morgulis,
E. Michael Gertz,
Alejandro A. Schäffer,
Richa Agarwala:
A Fast and Symmetric DUST Implementation to Mask Low-Complexity DNA Sequences.
Journal of Computational Biology 13(5): 1028-1040 (2006) |
| 2005 |
|---|
| 39 | EE | Maricel G. Kann,
Paul A. Thiessen,
Anna R. Panchenko,
Alejandro A. Schäffer,
Stephen F. Altschul,
Stephen H. Bryant:
A structure-based method for protein sequence alignment.
Bioinformatics 21(8): 1451-1456 (2005) |
| 2000 |
|---|
| 38 | | Richa Agarwala,
Leslie G. Biesecker,
Alejandro A. Schäffer:
Inverse inbreeding coefficient problems with an application to linkage analysis of recessive diseases in inbred populations.
Discrete Applied Mathematics 104(1-3): 3-44 (2000) |
| 37 | | Richard Desper,
Feng Jiang,
Olli-P. Kallioniemi,
Holger Moch,
Christos H. Papadimitriou,
Alejandro A. Schäffer:
Distance-Based Reconstruction of Tree Models for Oncogenesis.
Journal of Computational Biology 7(6): 789-803 (2000) |
| 1999 |
|---|
| 36 | EE | Richa Agarwala,
Leslie G. Biesecker,
Alejandro A. Schäffer:
Inverse Inbreeding Coefficient Problems with an Application to Linkage Analysis of Recessive Diseases in Inbred Populations.
SODA 1999: 840-841 |
| 35 | | Alejandro A. Schäffer,
Yuri I. Wolf,
Chris P. Ponting,
Eugene V. Koonin,
L. Aravind,
Stephen F. Altschul:
IMPALA: matching a protein sequence against a collection of PSI-BLAST-constructed position-specific score matrices.
Bioinformatics 15(12): 1000-1011 (1999) |
| 34 | | Richard Desper,
Feng Jiang,
Olli-P. Kallioniemi,
Holger Moch,
Christos H. Papadimitriou,
Alejandro A. Schäffer:
Inferring Tree Models for Oncogenesis from Comparative Genome Hybridization Data.
Journal of Computational Biology 6(1): 37-52 (1999) |
| 1998 |
|---|
| 33 | | S. Rao Kosaraju,
Alejandro A. Schäffer,
Leslie G. Biesecker:
Approximation Algorithms for a Genetic Diagnostics Problem.
Journal of Computational Biology 5(1): 9-26 (1998) |
| 1997 |
|---|
| 32 | | S. Rao Kosaraju,
Alejandro A. Schäffer,
Leslie G. Biesecker:
Approximation Algorithms for a Genetic Diagnostics Problem.
WADS 1997: 69-92 |
| 1996 |
|---|
| 31 | EE | Ramana M. Idury,
Alejandro A. Schäffer:
Multiple Matching of Parametrized Patterns.
Theor. Comput. Sci. 154(2): 203-224 (1996) |
| 1995 |
|---|
| 30 | | Sandeep K. Gupta,
John D. Kececioglu,
Alejandro A. Schäffer:
Making the Shortest-Paths Approach to Sum-of-Pairs Multiple Sequence Alignment More Space Efficient in Practice (Extended Abstract).
CPM 1995: 128-143 |
| 29 | | Pilar de la Torre,
Raymond Greenlaw,
Alejandro A. Schäffer:
Optimal Edge Ranking of Trees in Polynomial Time.
Algorithmica 13(6): 592-618 (1995) |
| 28 | | Ramana M. Idury,
Alejandro A. Schäffer:
Multiple Matching of Rectangular Patterns
Inf. Comput. 117(1): 78-90 (1995) |
| 27 | | Amihood Amir,
Martin Farach,
Ramana M. Idury,
Johannes A. La Poutré,
Alejandro A. Schäffer:
Improved Dynamic Dictionary Matching
Inf. Comput. 119(2): 258-282 (1995) |
| 26 | | Sandeep K. Gupta,
John D. Kececioglu,
Alejandro A. Schäffer:
Improving the Practical Space and Time Efficiency of the Shortest-Paths Approach to Sum-of-Pairs Multiple Sequence Alignment.
Journal of Computational Biology 2(3): 459-472 (1995) |
| 1994 |
|---|
| 25 | | Ramana M. Idury,
Alejandro A. Schäffer:
Multiple Matching of Parameterized Patterns.
CPM 1994: 226-239 |
| 24 | EE | Franz Aurenhammer,
Michael Formann,
Ramana M. Idury,
Alejandro A. Schäffer,
Frank Wagner:
Faster Isometric Embedding in Products of Complete Graphs.
Discrete Applied Mathematics 52(1): 17-28 (1994) |
| 23 | | Vinay S. Pai,
Alejandro A. Schäffer,
Peter J. Varman:
Markov Analysis of Multiple-Disk Prefetching Strategies for External Merging.
Theor. Comput. Sci. 128(1&2): 211-239 (1994) |
| 22 | | Ramana M. Idury,
Alejandro A. Schäffer:
Dynamic Dictionary Matching with Failure Functions.
Theor. Comput. Sci. 131(2): 295-310 (1994) |
| 1993 |
|---|
| 21 | | Pilar de la Torre,
Raymond Greenlaw,
Alejandro A. Schäffer:
Optimal Edge Ranking of Trees in Polynomial Time.
SODA 1993: 138-144 |
| 20 | | Amihood Amir,
Martin Farach,
Ramana M. Idury,
Johannes A. La Poutré,
Alejandro A. Schäffer:
Improved Dynamic Dictionary Matching.
SODA 1993: 392-401 |
| 19 | EE | Ramana M. Idury,
Alejandro A. Schäffer:
Multiple matching of rectangular patterns.
STOC 1993: 81-90 |
| 18 | EE | Alejandro A. Schäffer:
A Faster Algorithm to Recognize Undirected Path Graphs.
Discrete Applied Mathematics 43(2): 261-295 (1993) |
| 17 | | Ramana M. Idury,
Alejandro A. Schäffer:
Triangulating Three-Colored Graphs in Linear Time and Linear Space.
SIAM J. Discrete Math. 6(2): 289-293 (1993) |
| 1992 |
|---|
| 16 | | Ramana M. Idury,
Alejandro A. Schäffer:
Dynamic Dictionary Matching with Failure Functions (Extended Abstract).
CPM 1992: 276-287 |
| 15 | | Vinay S. Pai,
Alejandro A. Schäffer,
Peter J. Varman:
Markov Analysis of Multiple-Disk Prefetching for External Mergesort.
ICPP (3) 1992: 272-279 |
| 14 | EE | Joan Feigenbaum,
Alejandro A. Schäffer:
Finding the prime factors of strong direct product graphs in polynomial time.
Discrete Mathematics 109(1-3): 77-102 (1992) |
| 1991 |
|---|
| 13 | EE | Alejandro A. Schäffer:
Recognizing brittle graphs: remarks on a paper of Hoàng and Khouzam.
Discrete Applied Mathematics 31(1): 29-35 (1991) |
| 12 | | Amos Fiat,
J. Ian Munro,
Moni Naor,
Alejandro A. Schäffer,
Jeanette P. Schmidt,
Alan Siegel:
An Implicit Data Structure for Searching a Multikey Table in Logarithmic Time.
J. Comput. Syst. Sci. 43(3): 406-424 (1991) |
| 11 | | Alejandro A. Schäffer,
Mihalis Yannakakis:
Simple Local Search Problems That are Hard to Solve.
SIAM J. Comput. 20(1): 56-87 (1991) |
| 1990 |
|---|
| 10 | | Christos H. Papadimitriou,
Alejandro A. Schäffer,
Mihalis Yannakakis:
On the Complexity of Local Search (Extended Abstract)
STOC 1990: 438-445 |
| 1989 |
|---|
| 9 | | Alejandro A. Schäffer:
Optimal Node Ranking of Trees in Linear Time.
Inf. Process. Lett. 33(2): 91-96 (1989) |
| 8 | | Joseph Naor,
Moni Naor,
Alejandro A. Schäffer:
Fast Parallel Algorithms for Chordal Graphs.
SIAM J. Comput. 18(2): 327-349 (1989) |
| 1988 |
|---|
| 7 | | Amos Fiat,
Moni Naor,
Alejandro A. Schäffer,
Jeanette P. Schmidt,
Alan Siegel:
Storing and Searching a Multikey Table (Extended Abstract)
STOC 1988: 344-353 |
| 6 | | Alejandro A. Schäffer:
A Tighter Upper Bound on the Worst Case Behavior of Conway's Parallel Sorting Algorithm.
J. Algorithms 9(3): 321-342 (1988) |
| 5 | | Ramsey W. Haddad,
Alejandro A. Schäffer:
Recognizing Bellman-Ford-Orderable Graphs.
SIAM J. Discrete Math. 1(4): 447-471 (1988) |
| 1987 |
|---|
| 4 | | Joseph Naor,
Moni Naor,
Alejandro A. Schäffer:
Fast Parallel Algorithms for Chordal Graphs (Extended Abstract)
STOC 1987: 355-364 |
| 3 | EE | Alejandro A. Schäffer:
Shortest prefix strings containing all subset permutations.
Discrete Mathematics 64(2-3): 239-252 (1987) |
| 2 | | Alejandro A. Schäffer,
Christopher J. Van Wyk:
Convex Hulls of Piecewise-Smooth Jordan Curves.
J. Algorithms 8(1): 66-94 (1987) |
| 1986 |
|---|
| 1 | | Joan Feigenbaum,
Alejandro A. Schäffer:
Recognizing Composite Graphs is Equivalent to Testing Graph Isomorphism.
SIAM J. Comput. 15(2): 619-627 (1986) |
