-
4
-
-
18944369385
-
Deduction of probable events of lateral gene transfer through comparison of phylogenetic trees by recursive consolidation and rearrangement
-
1087482, 15819979
-
MacLeod D, Charlebois R, Doolittle F, Bapteste E. Deduction of probable events of lateral gene transfer through comparison of phylogenetic trees by recursive consolidation and rearrangement. BMC Evolutionary Biology 27. 1087482, 15819979.
-
BMC Evolutionary Biology
, pp. 27
-
-
MacLeod, D.1
Charlebois, R.2
Doolittle, F.3
Bapteste, E.4
-
5
-
-
0347296100
-
Ancient Tripartite Coevolution in the Attine Ant-Microbe Symbiosis
-
Currie CR, Wong B, Stuart AE, Schultz TR, Rehner SA, Mueller UG, Sung GH, Spatafora JW, Straus NA. Ancient Tripartite Coevolution in the Attine Ant-Microbe Symbiosis. Science (5605):386-388.
-
Science
, Issue.5605
, pp. 386-388
-
-
Currie, C.R.1
Wong, B.2
Stuart, A.E.3
Schultz, T.R.4
Rehner, S.A.5
Mueller, U.G.6
Sung, G.H.7
Spatafora, J.W.8
Straus, N.A.9
-
6
-
-
0034595516
-
Co-evolution of proteins with their interaction partners
-
10.1006/jmbi.2000.3732, 10860738
-
Goh CS, Bogan AA, Joachimiak M, Walther D, Cohen FE. Co-evolution of proteins with their interaction partners. J Mol Biol 2000, 299(2):283-93. 10.1006/jmbi.2000.3732, 10860738.
-
(2000)
J Mol Biol
, vol.299
, Issue.2
, pp. 283-293
-
-
Goh, C.S.1
Bogan, A.A.2
Joachimiak, M.3
Walther, D.4
Cohen, F.E.5
-
7
-
-
0030249746
-
The coevolution of gene family trees
-
10.1016/S0168-9525(96)80020-5, 8855667
-
Fryxell KJ. The coevolution of gene family trees. Trends Genet 1996, 12(9):364-369. 10.1016/S0168-9525(96)80020-5, 8855667.
-
(1996)
Trends Genet
, vol.12
, Issue.9
, pp. 364-369
-
-
Fryxell, K.J.1
-
8
-
-
0028330517
-
Co-evolution of ligand-receptor pairs
-
10.1038/368251a0, 8145825
-
Moyle WR, Campbell RK, Myers RV, Bernard MP, Han Y, Wang X. Co-evolution of ligand-receptor pairs. Nature 1994, 368(6468):251-255. 10.1038/368251a0, 8145825.
-
(1994)
Nature
, vol.368
, Issue.6468
, pp. 251-255
-
-
Moyle, W.R.1
Campbell, R.K.2
Myers, R.V.3
Bernard, M.P.4
Han, Y.5
Wang, X.6
-
9
-
-
36949019322
-
Detecting Coevolution in and among Protein Domains
-
2098842, 17983264
-
Yeang CH, Haussler D. Detecting Coevolution in and among Protein Domains. PLoS Comput Biol (11):e211. 2098842, 17983264.
-
PLoS Comput Biol
, Issue.11
-
-
Yeang, C.H.1
Haussler, D.2
-
10
-
-
57849099132
-
Correlated evolution of interacting proteins: looking behind the mirrortree
-
10.1016/j.jmb.2008.09.078, 18930732
-
Kann MG, Shoemaker BA, Panchenko AR, Przytycka TM. Correlated evolution of interacting proteins: looking behind the mirrortree. J Mol Biol 2009, 385:91-98. 10.1016/j.jmb.2008.09.078, 18930732.
-
(2009)
J Mol Biol
, vol.385
, pp. 91-98
-
-
Kann, M.G.1
Shoemaker, B.A.2
Panchenko, A.R.3
Przytycka, T.M.4
-
12
-
-
84959752542
-
Comparison of Undirected Phylogenetic Trees Based on Subtrees of Four Evolutionary Units
-
Estabrook GF, McMorris FR, Meacham CA. Comparison of Undirected Phylogenetic Trees Based on Subtrees of Four Evolutionary Units. Systematic Zoology (2):193-200.
-
Systematic Zoology
, Issue.2
, pp. 193-200
-
-
Estabrook, G.F.1
McMorris, F.R.2
Meacham, C.A.3
-
15
-
-
0002291589
-
On the complexity of comparing evolutionary trees
-
Hein J, Jiang T, Wang L, Zhang K. On the complexity of comparing evolutionary trees. Discrete Appl Math 1996, 71(1-3):153-169.
-
(1996)
Discrete Appl Math
, vol.71
, Issue.1-3
, pp. 153-169
-
-
Hein, J.1
Jiang, T.2
Wang, L.3
Zhang, K.4
-
16
-
-
0035177259
-
Similarity of phylogenetic trees as indicator of protein-protein interaction
-
10.1093/protein/14.9.609, 11707606
-
Pazos F, Valencia A. Similarity of phylogenetic trees as indicator of protein-protein interaction. Protein Eng 2001, 14(9):609-614. 10.1093/protein/14.9.609, 11707606.
-
(2001)
Protein Eng
, vol.14
, Issue.9
, pp. 609-614
-
-
Pazos, F.1
Valencia, A.2
-
17
-
-
24644502565
-
Assessing protein co-evolution in the context of the tree of life assists in the prediction of the interactome
-
10.1016/j.jmb.2005.07.005, 16139301
-
Pazos F, Ranea JAG, Juan D, Sternberg MJE. Assessing protein co-evolution in the context of the tree of life assists in the prediction of the interactome. J Mol Biol 2005, 352(4):1002-1015. 10.1016/j.jmb.2005.07.005, 16139301.
-
(2005)
J Mol Biol
, vol.352
, Issue.4
, pp. 1002-1015
-
-
Pazos, F.1
Ranea, J.A.G.2
Juan, D.3
Sternberg, M.J.E.4
-
18
-
-
24144476642
-
The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships
-
10.1093/bioinformatics/bti564, 15994190
-
Sato T, Yamanishi Y, Kanehisa M, Toh H. The inference of protein-protein interactions by co-evolutionary analysis is improved by excluding the information about the phylogenetic relationships. Bioinformatics 2005, 21(17):3482-3489. 10.1093/bioinformatics/bti564, 15994190.
-
(2005)
Bioinformatics
, vol.21
, Issue.17
, pp. 3482-3489
-
-
Sato, T.1
Yamanishi, Y.2
Kanehisa, M.3
Toh, H.4
-
19
-
-
33749870873
-
Partial correlation coefficient between distance matrices as a new indicator of protein-protein interactions
-
10.1093/bioinformatics/btl419, 16882650
-
Sato T, Yamanishi Y, Horimoto K, Kanehisa M, Toh H. Partial correlation coefficient between distance matrices as a new indicator of protein-protein interactions. Bioinformatics 2006, 22(20):2488-2492. 10.1093/bioinformatics/btl419, 16882650.
-
(2006)
Bioinformatics
, vol.22
, Issue.20
, pp. 2488-2492
-
-
Sato, T.1
Yamanishi, Y.2
Horimoto, K.3
Kanehisa, M.4
Toh, H.5
-
20
-
-
33846868175
-
Phylogenetic tree information aids supervised learning for predicting protein-protein interaction based on distance matrices
-
10.1186/1471-2105-8-6, 1781468, 17212819
-
Craig RA, Liao L. Phylogenetic tree information aids supervised learning for predicting protein-protein interaction based on distance matrices. BMC Bioinformatics 2007, 8:6. 10.1186/1471-2105-8-6, 1781468, 17212819.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 6
-
-
Craig, R.A.1
Liao, L.2
-
24
-
-
0023710206
-
Comparing the Areas under Two or More Correlated Receiver Operating Characteristic Curves: A Nonparametric Approach
-
DeLong ER, DeLong DM, Clarke-Pearson DL. Comparing the Areas under Two or More Correlated Receiver Operating Characteristic Curves: A Nonparametric Approach. Biometrics (3):837-845.
-
Biometrics
, Issue.3
, pp. 837-845
-
-
DeLong, E.R.1
DeLong, D.M.2
Clarke-Pearson, D.L.3
-
25
-
-
0037306453
-
Ancient horizontal gene transfer
-
Brown JR. Ancient horizontal gene transfer. Nat Rev Genet 121-132.
-
Nat Rev Genet
, pp. 121-132
-
-
Brown, J.R.1
-
26
-
-
0035546223
-
Detection of lateral gene transfer among microbial genomes
-
Ragan MA. Detection of lateral gene transfer among microbial genomes. Current Opinion in Genetics Development (6):620-626.
-
Current Opinion in Genetics Development
, Issue.6
, pp. 620-626
-
-
Ragan, M.A.1
-
27
-
-
0642312313
-
Evolution of mosaic operons by horizontal gene transfer and gene displacement in situ
-
193655, 12952534
-
Omelchenko M, Makarova K, Wolf Y, Rogozin I, Koonin E. Evolution of mosaic operons by horizontal gene transfer and gene displacement in situ. Genome Biology (9):R55. 193655, 12952534.
-
Genome Biology
, Issue.9
-
-
Omelchenko, M.1
Makarova, K.2
Wolf, Y.3
Rogozin, I.4
Koonin, E.5
-
28
-
-
0037436412
-
Exploiting the co-evolution of interacting proteins to discover interaction specificity
-
10.1016/S0022-2836(03)00114-1, 12614624
-
Ramani AK, Marcotte EM. Exploiting the co-evolution of interacting proteins to discover interaction specificity. J Mol Biol 2003, 327:273-84. 10.1016/S0022-2836(03)00114-1, 12614624.
-
(2003)
J Mol Biol
, vol.327
, pp. 273-284
-
-
Ramani, A.K.1
Marcotte, E.M.2
-
29
-
-
29144461552
-
Predicting protein-protein interaction by searching evolutionary tree automorphism space
-
10.1093/bioinformatics/bti1009, 1618802, 15961463
-
Jothi R, Kann MG, Przytycka TM. Predicting protein-protein interaction by searching evolutionary tree automorphism space. Bioinformatics 2005, 21(Suppl 1):i241-50. 10.1093/bioinformatics/bti1009, 1618802, 15961463.
-
(2005)
Bioinformatics
, vol.21
, Issue.SUPPL. 1
-
-
Jothi, R.1
Kann, M.G.2
Przytycka, T.M.3
-
30
-
-
33748333117
-
Co-evolutionary analysis of domains in interacting proteins reveals insights into domain-domain interactions mediating protein-protein interactions
-
10.1016/j.jmb.2006.07.072, 1618801, 16949097
-
Jothi R, Cherukuri PF, Tasneem A, Przytycka TM. Co-evolutionary analysis of domains in interacting proteins reveals insights into domain-domain interactions mediating protein-protein interactions. J Mol Biol 2006, 362(4):861-875. 10.1016/j.jmb.2006.07.072, 1618801, 16949097.
-
(2006)
J Mol Biol
, vol.362
, Issue.4
, pp. 861-875
-
-
Jothi, R.1
Cherukuri, P.F.2
Tasneem, A.3
Przytycka, T.M.4
-
31
-
-
33745875649
-
A Robust Algorithm for Point Set Registration Using Mixture of Gaussians
-
Jian B, Vemuri BC. A Robust Algorithm for Point Set Registration Using Mixture of Gaussians. iccv 2005, 2:1246-1251.
-
(2005)
iccv
, vol.2
, pp. 1246-1251
-
-
Jian, B.1
Vemuri, B.C.2
-
32
-
-
0033551248
-
Assigning protein functions by comparative genome analysis: protein phylogenetic profiles
-
10.1073/pnas.96.8.4285, 16324, 10200254
-
Pellegrini M, Marcotte EM, Thompson MJ, Eisenberg D, Yeates TO. Assigning protein functions by comparative genome analysis: protein phylogenetic profiles. Proc Natl Acad Sci USA 1999, 96(8):4285-4288. 10.1073/pnas.96.8.4285, 16324, 10200254.
-
(1999)
Proc Natl Acad Sci USA
, vol.96
, Issue.8
, pp. 4285-4288
-
-
Pellegrini, M.1
Marcotte, E.M.2
Thompson, M.J.3
Eisenberg, D.4
Yeates, T.O.5
-
33
-
-
0033618555
-
Detecting protein function and protein-protein interactions from genome sequences
-
10.1126/science.285.5428.751, 10427000
-
Marcotte EM, Pellegrini M, Ng HL, Rice DW, Yeates TO, Eisenberg D. Detecting protein function and protein-protein interactions from genome sequences. Science 1999, 285(5428):751-753. 10.1126/science.285.5428.751, 10427000.
-
(1999)
Science
, vol.285
, Issue.5428
, pp. 751-753
-
-
Marcotte, E.M.1
Pellegrini, M.2
Ng, H.L.3
Rice, D.W.4
Yeates, T.O.5
Eisenberg, D.6
-
34
-
-
0142210290
-
Learning to predict protein-protein interactions from protein sequences
-
10.1093/bioinformatics/btg352, 14555619
-
Gomez SM, Noble WS, Rzhetsky A. Learning to predict protein-protein interactions from protein sequences. Bioinformatics 2003, 19(1367-4803):1875-81. 10.1093/bioinformatics/btg352, 14555619.
-
(2003)
Bioinformatics
, vol.19
, Issue.1367-4803
, pp. 1875-1881
-
-
Gomez, S.M.1
Noble, W.S.2
Rzhetsky, A.3
-
35
-
-
0347755535
-
The Database of Interacting Proteins: 2004 update
-
308820, 14681454
-
Salwinski L, Miller CS, Smith AJ, Pettit FK, Bowie JU, Eisenberg D. The Database of Interacting Proteins: 2004 update. Nucl Acids Res (suppl-1):D449-451. 308820, 14681454.
-
Nucl Acids Res
, Issue.SUPPL.1
-
-
Salwinski, L.1
Miller, C.S.2
Smith, A.J.3
Pettit, F.K.4
Bowie, J.U.5
Eisenberg, D.6
-
36
-
-
0027968068
-
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
308517, 7984417
-
Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic acids research (22):4673-4680. 308517, 7984417.
-
Nucleic acids research
, Issue.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
38
-
-
33846072878
-
The ribosomal database project (RDP-II): introducing myRDP space and quality controlled public data
-
1669760, 17090583
-
Cole JR, Chai B, Farris RJ, Wang Q, Kulam-Syed-Mohideen AS, McGarrell DM, Bandela AM, Cardenas E, Garrity GM, Tiedje JM. The ribosomal database project (RDP-II): introducing myRDP space and quality controlled public data. Nucl Acids Res (suppl-1):D169-172. 1669760, 17090583.
-
Nucl Acids Res
, Issue.SUPPL.1
-
-
Cole, J.R.1
Chai, B.2
Farris, R.J.3
Wang, Q.4
Kulam-Syed-Mohideen, A.S.5
McGarrell, D.M.6
Bandela, A.M.7
Cardenas, E.8
Garrity, G.M.9
Tiedje, J.M.10
-
40
-
-
0004262735
-
-
New York, NY, USA: John Wiley & Sons, Inc
-
Huber PJ. Robust Statistics 1981, New York, NY, USA: John Wiley & Sons, Inc.
-
(1981)
Robust Statistics
-
-
Huber, P.J.1
-
41
-
-
0016061478
-
The Fitting of Power Series, Meaning Polynomials, Illustrated on Band-Spectroscopic Data
-
Beaton AE, Tukey JW. The Fitting of Power Series, Meaning Polynomials, Illustrated on Band-Spectroscopic Data. Technometrics (2):147-185.
-
Technometrics
, Issue.2
, pp. 147-185
-
-
Beaton, A.E.1
Tukey, J.W.2
-
42
-
-
21144474248
-
Comparison of Smoothing Parameterizations in Bivariate Kernel Density Estimation
-
Wand MP, Jones MC. Comparison of Smoothing Parameterizations in Bivariate Kernel Density Estimation. Journal of the American Statistical Association (422):520-528.
-
Journal of the American Statistical Association
, Issue.422
, pp. 520-528
-
-
Wand, M.P.1
Jones, M.C.2
|