-
1
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
S. Altschul et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research, vol. 25, no. 17, pp 3389-3402, 1997.
-
(1997)
Nucleic Acids Research
, vol.25
, Issue.17
, pp. 3389-3402
-
-
Altschul, S.1
-
2
-
-
13444273448
-
The Universal Protein Resource (UniProt)
-
A. Bairoch et al. The Universal Protein Resource (UniProt). Nuc. Acids Res. 33:D154-D159, 2005.
-
(2005)
Nuc. Acids Res.
, vol.33
-
-
Bairoch, A.1
-
3
-
-
0642340503
-
OrthoParaMap: Distinguishing orthologs from paralogs by integrating comparative genome data and gene phylogenies
-
S.B. Cannon and N.D. Young. OrthoParaMap: distinguishing orthologs from paralogs by integrating comparative genome data and gene phylogenies. BMC Bioinformatics 4(1):35, 2003.
-
(2003)
BMC Bioinformatics
, vol.4
, Issue.1
, pp. 35
-
-
Cannon, S.B.1
Young, N.D.2
-
4
-
-
84863067228
-
Computing the assignment of orthologous genes via genome rearrangement
-
X. Chen, J. Zheng, Z. Fu, P. Nan, Y. Zhong, S. Lonardi, and T. Jiang. Computing the assignment of orthologous genes via genome rearrangement. In Proc. 3rd Asia Pacific Bioinformatics Conf. (APBC'05), pp. 363-378, 2005.
-
(2005)
Proc. 3rd Asia Pacific Bioinformatics Conf. (APBC'05)
, pp. 363-378
-
-
Chen, X.1
Zheng, J.2
Fu, Z.3
Nan, P.4
Zhong, Y.5
Lonardi, S.6
Jiang, T.7
-
5
-
-
30344450783
-
The assignment of orthologous genes via genome rearrangement
-
X. Chen, J. Zheng, Z. Fu, P. Nan, Y. Zhong, S. Lonardi, and T. Jiang The assignment of orthologous genes via genome rearrangement. IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 2, no. 4, pp. 302-315, 2005.
-
(2005)
IEEE/ACM Transactions on Computational Biology and Bioinformatics
, vol.2
, Issue.4
, pp. 302-315
-
-
Chen, X.1
Zheng, J.2
Fu, Z.3
Nan, P.4
Zhong, Y.5
Lonardi, S.6
Jiang, T.7
-
6
-
-
0014800108
-
Distinguishing homologous from analogous proteins
-
W.M. Fitch. Distinguishing homologous from analogous proteins. Syst. Zool. 19: 99-113, 1970.
-
(1970)
Syst. Zool.
, vol.19
, pp. 99-113
-
-
Fitch, W.M.1
-
7
-
-
0001807019
-
Transforming cabbage into turnip (polynomial algorithm for sorting signed permutations by reversals)
-
S. Hannenhalli and P. Pevzner. Transforming cabbage into turnip (polynomial algorithm for sorting signed permutations by reversals). Proc. 27th Ann. ACM Symp. Theory of Comput. (STOC'95), pp. 178-189, 1995.
-
(1995)
Proc. 27th Ann. ACM Symp. Theory of Comput. (STOC'95)
, pp. 178-189
-
-
Hannenhalli, S.1
Pevzner, P.2
-
8
-
-
0029493079
-
Transforming men into mice (polynomial algorithm for genomic distance problem)
-
S. Hannenhalli, P. Pevzner. Transforming men into mice (polynomial algorithm for genomic distance problem). Proc. IEEE 36th Symp. Found, of Comp. Sci., 581-592, 1995.
-
(1995)
Proc. IEEE 36th Symp. Found, of Comp. Sci.
, pp. 581-592
-
-
Hannenhalli, S.1
Pevzner, P.2
-
9
-
-
0037250168
-
The UCSC genome browser database
-
D. Karolchik, K.M. Roskin, M. Schwartz, C.W. Sugnet, D.J. Thomas, R.J. Weber, D. Haussler and W.J. Kent. The UCSC Genome Browser Database. Nucleic Acids Res., vol. 31, no. 1, pp. 51-54, 2003.
-
(2003)
Nucleic Acids Res.
, vol.31
, Issue.1
, pp. 51-54
-
-
Karolchik, D.1
Roskin, K.M.2
Schwartz, M.3
Sugnet, C.W.4
Thomas, D.J.5
Weber, R.J.6
Haussler, D.7
Kent, W.J.8
-
10
-
-
27644472372
-
Orthologs, paralogs, and evolutionary genomics
-
E. Koonin. Orthologs, paralogs, and evolutionary genomics. Annu. Rev. Genet., 2005.
-
(2005)
Annu. Rev. Genet.
-
-
Koonin, E.1
-
11
-
-
0036125446
-
Cross-referencing eukaryotic genomes: TIGR orthologous gene alignments (TOGA)
-
Y. Lee et al. Cross-referencing eukaryotic genomes: TIGR orthologous gene alignments (TOGA). Genome Res., vol. 12, pp. 493-502, 2002.
-
(2002)
Genome Res.
, vol.12
, pp. 493-502
-
-
Lee, Y.1
-
12
-
-
0141519279
-
OrthoMCL: Identification of ortholog groups for eukaryotic genomes
-
L. Li, C. Stoeckert, D. Roos. OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res., vol. 13, pp. 2178-2189, 2003.
-
(2003)
Genome Res.
, vol.13
, pp. 2178-2189
-
-
Li, L.1
Stoeckert, C.2
Roos, D.3
-
13
-
-
4544242008
-
Genomic distances under deletions and insertions
-
M. Marron, K. Swenson, and B. Moret. Genomic distances under deletions and insertions. Theoretic Computer Science, vol. 325, no. 3, pp. 347-360, 2004.
-
(2004)
Theoretic Computer Science
, vol.325
, Issue.3
, pp. 347-360
-
-
Marron, M.1
Swenson, K.2
Moret, B.3
-
14
-
-
0037749492
-
Reconstructing an ancestral genome using minimum segments duplications and reversals
-
N. El-Mabrouk. Reconstructing an ancestral genome using minimum segments duplications and reversals. Journal of Computer and System Sciences, vol. 65, pp. 442-464, 2002.
-
(2002)
Journal of Computer and System Sciences
, vol.65
, pp. 442-464
-
-
El-Mabrouk, N.1
-
16
-
-
0035861990
-
Automatic clustering of orthologs and in-paralogs from pairwise species comparisons
-
M. Remm, C. Storm, and E. Sonnhammer. Automatic clustering of orthologs and in-paralogs from pairwise species comparisons. J. Mol. Biol. 314, 1041-1052, 2001.
-
(2001)
J. Mol. Biol.
, vol.314
, pp. 1041-1052
-
-
Remm, M.1
Storm, C.2
Sonnhammer, E.3
-
17
-
-
0033391532
-
Genome rearrangement with gene families
-
D. Sankoff. Genome rearrangement with gene families. Bioinformatics 15(11):909-917, 1999.
-
(1999)
Bioinformatics
, vol.15
, Issue.11
, pp. 909-917
-
-
Sankoff, D.1
-
18
-
-
32144446113
-
Approximating the true evolutionary distance between two genomes
-
K. Swenson, M. Marron, J. Earnest-DeYoung, and B. Moret. Approximating the true evolutionary distance between two genomes. Proc. 7th SIA Workshop on Algorithm Engineering & Experiments, pp. 121-125, 2005.
-
(2005)
Proc. 7th SIA Workshop on Algorithm Engineering & Experiments
, pp. 121-125
-
-
Swenson, K.1
Marron, M.2
Earnest-DeYoung, J.3
Moret, B.4
-
19
-
-
33646122213
-
A framework for orthology assignment from gene rearrangement data
-
Dublin, Ireland, LNCS 3678
-
K. Swenson, N. Pattengale, and B. Moret. A framework for orthology assignment from gene rearrangement data. Proc. 3rd RECOMB Workshop on Comparative Genomics, Dublin, Ireland, LNCS 3678, pp. 153-166, 2005.
-
(2005)
Proc. 3rd RECOMB Workshop on Comparative Genomics
, pp. 153-166
-
-
Swenson, K.1
Pattengale, N.2
Moret, B.3
-
20
-
-
0036173130
-
Automated ortholog inference from phylogenetic trees and calculation of orthology reliability
-
C. Storm and E. Sonnhammer. Automated ortholog inference from phylogenetic trees and calculation of orthology reliability. Bioinformatics, vol. 18, no. 1, 2002.
-
(2002)
Bioinformatics
, vol.18
, Issue.1
-
-
Storm, C.1
Sonnhammer, E.2
-
21
-
-
0033956060
-
The COG database: A tool for genome-scale analysis of protein functions and evolution
-
R.L. Tatusov, M.Y. Galperin, D.A. Natale, and E. Koonin. The COG database: A tool for genome-scale analysis of protein functions and evolution. Nucleic Acids Res. 28:33-36, 2000.
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 33-36
-
-
Tatusov, R.L.1
Galperin, M.Y.2
Natale, D.A.3
Koonin, E.4
-
22
-
-
0038658640
-
Efficient algorithms for multichromosomal genome rearrangements
-
G. Tesler. Efficient algorithms for multichromosomal genome rearrangements. Journal of Computer and System Sciences, vol. 65, no. 3, pp. 587-609, 2002.
-
(2002)
Journal of Computer and System Sciences
, vol.65
, Issue.3
, pp. 587-609
-
-
Tesler, G.1
-
23
-
-
0030660581
-
A genomic perspective on protein families
-
R.L. Tatusov, E. Koonin, and D.J. Lipman. A genomic perspective on protein families. Science, vol. 278, pp. 631-637, 1997.
-
(1997)
Science
, vol.278
, pp. 631-637
-
-
Tatusov, R.L.1
Koonin, E.2
Lipman, D.J.3
-
24
-
-
0036206069
-
Guidelines for human gene nomenclature
-
H.M. Wain, E.A. Bruford, R.C. Lovering, M.J. Lush, M.W. Wright and S. Povey. Guidelines for human gene nomenclature. Genomics 79(4), 464-470, 2002.
-
(2002)
Genomics
, vol.79
, Issue.4
, pp. 464-470
-
-
Wain, H.M.1
Bruford, E.A.2
Lovering, R.C.3
Lush, M.J.4
Wright, M.W.5
Povey, S.6
-
25
-
-
0031876458
-
Towards detection of orthologues in sequence databases
-
Y.P. Yuan, O. Eulenstein, M. Vingron, and P. Bork. Towards detection of orthologues in sequence databases. Bioinformatics, vol. 14, no. 3, pp. 285-289, 1998.
-
(1998)
Bioinformatics
, vol.14
, Issue.3
, pp. 285-289
-
-
Yuan, Y.P.1
Eulenstein, O.2
Vingron, M.3
Bork, P.4
-
26
-
-
15944400987
-
Using shared genomic synteny and shared protein functions to enhance the identification of orthologous gene pairs
-
X. Zheng et al. Using shared genomic synteny and shared protein functions to enhance the identification of orthologous gene pairs. Bioinformatics 21(6):703-710, 2005.
-
(2005)
Bioinformatics
, vol.21
, Issue.6
, pp. 703-710
-
-
Zheng, X.1
|