-
1
-
-
3943056897
-
Role of glycosylation in development
-
Haltiwanger RS, Lowe JB. Role of glycosylation in development. Annu Rev Biochem. 2004; 73: 491-537.
-
(2004)
Annu Rev Biochem
, vol.73
, pp. 491-537
-
-
Haltiwanger, R.S.1
Lowe, J.B.2
-
2
-
-
33745800293
-
Interpreting the protein language using proteomics
-
Jensen ON. Interpreting the protein language using proteomics. Nat Rev Mol Cell Biol. 2006; 7(6): 391-403.
-
(2006)
Nat Rev Mol Cell Biol
, vol.7
, Issue.6
, pp. 391-403
-
-
Jensen, O.N.1
-
3
-
-
0025865091
-
Amino acid distributions around O-linked glycosylation sites
-
Wilson IB, Gavel Y, von Heijne G. Amino acid distributions around O-linked glycosylation sites. Biochem J. 1991; 275(pt 2): 529-34.
-
(1991)
Biochem J
, vol.275
, pp. 529-534
-
-
Wilson, I.B.1
Gavel, Y.2
von Heijne, G.3
-
4
-
-
84924567324
-
Eukaryotic glycosylation: Online methods for site prediction on protein sequences
-
Lütteke T, Frank M, eds., New York: Springer
-
Joshi H, Gupta R. Eukaryotic glycosylation: online methods for site prediction on protein sequences. In: Lütteke T, Frank M, eds. Glycoinformatics SE-9. Methods in Molecular Biology. Vol. 1273. New York: Springer; 2015: 127-37.
-
(2015)
Glycoinformatics SE-9. Methods in Molecular Biology
, vol.1273
, pp. 127-137
-
-
Joshi, H.1
Gupta, R.2
-
5
-
-
38849163717
-
Glycosylation site prediction using ensembles of support vector machine classifiers
-
Caragea C, Sinapov J, Silvescu A, Dobbs D, Honavar V. Glycosylation site prediction using ensembles of support vector machine classifiers. BMC Bioinformatics. 2007; 8: 438.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 438
-
-
Caragea, C.1
Sinapov, J.2
Silvescu, A.3
Dobbs, D.4
Honavar, V.5
-
6
-
-
42949170961
-
Prediction of mucin-type O-glycosylation sites in mammalian proteins using the composition of k-spaced amino acid pairs
-
Chen Y-Z, Tang Y-R, Sheng Z-Y, Zhang Z. Prediction of mucin-type O-glycosylation sites in mammalian proteins using the composition of k-spaced amino acid pairs. BMC Bioinformatics. 2008; 9: 101.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 101
-
-
Chen, Y.-Z.1
Tang, Y.-R.2
Sheng, Z.-Y.3
Zhang, Z.4
-
7
-
-
62149135362
-
Prediction of glycosylation sites using random forests
-
Hamby SE, Hirst JD. Prediction of glycosylation sites using random forests. BMC Bioinformatics. 2008; 9: 500.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 500
-
-
Hamby, S.E.1
Hirst, J.D.2
-
8
-
-
84878644998
-
Precision mapping of the human O-GalNAc glycoproteome through SimpleCell technology
-
Steentoft C, Vakhrushev SY, Joshi HJ, et al. Precision mapping of the human O-GalNAc glycoproteome through SimpleCell technology. EMBO J. 2013; 32(10): 1478-88.
-
(2013)
EMBO J
, vol.32
, Issue.10
, pp. 1478-1488
-
-
Steentoft, C.1
Vakhrushev, S.Y.2
Joshi, H.J.3
-
9
-
-
84879546356
-
In silico platform for prediction of N-, O-and C-glycosites in eukaryotic protein sequences
-
Chauhan JS, Rao A, Raghava GPS. In silico platform for prediction of N-, O-and C-glycosites in eukaryotic protein sequences. PLoS One. 2013; 8(6): 1-10.
-
(2013)
PLoS One
, vol.8
, Issue.6
, pp. 1-10
-
-
Chauhan, J.S.1
Rao, A.2
Raghava, G.P.S.3
-
10
-
-
84937396820
-
Prediction of O-glycosylation sites in proteins using PSO-based data balancing and random forest
-
Hassan H, Abdelhalim MB, Badr A. Prediction of O-glycosylation sites in proteins using PSO-based data balancing and random forest. Life Sci J. 2014; 11(12): 1019-25.
-
(2014)
Life Sci J
, vol.11
, Issue.12
, pp. 1019-1025
-
-
Hassan, H.1
Abdelhalim, M.B.2
Badr, A.3
-
11
-
-
0032919585
-
O-GLYCBASE version 4. 0: A revised database of O-glycosylated proteins
-
Gupta R, Birch H, Rapacki K, Brunak S, Hansen JE. O-GLYCBASE version 4. 0: a revised database of O-glycosylated proteins. Nucleic Acids Res. 1999; 27(1): 370-2.
-
(1999)
Nucleic Acids Res
, vol.27
, Issue.1
, pp. 370-372
-
-
Gupta, R.1
Birch, H.2
Rapacki, K.3
Brunak, S.4
Hansen, J.E.5
-
12
-
-
0032893084
-
The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1999
-
Bairoch A, Apweiler R. The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1999. Nucleic Acids Res. 1999; 27(1): 49-54.
-
(1999)
Nucleic Acids Res
, vol.27
, Issue.1
, pp. 49-54
-
-
Bairoch, A.1
Apweiler, R.2
-
13
-
-
80054937592
-
Computational prediction of eukaryotic phosphorylation sites
-
Trost B, Kusalik A. Computational prediction of eukaryotic phosphorylation sites. Bioinformatics. 2011; 27(21): 2927-35.
-
(2011)
Bioinformatics
, vol.27
, Issue.21
, pp. 2927-2935
-
-
Trost, B.1
Kusalik, A.2
-
14
-
-
34447131677
-
Grouping of amino acids and recognition of protein structurally conserved regions by reduced alphabets of amino acids
-
Li J, Wang W. Grouping of amino acids and recognition of protein structurally conserved regions by reduced alphabets of amino acids. Sci China C Life Sci. 2007; 50(3): 392-402.
-
(2007)
Sci China C Life Sci
, vol.50
, Issue.3
, pp. 392-402
-
-
Li, J.1
Wang, W.2
-
15
-
-
47649094232
-
Assessing the performance of macromolecular sequence classifiers
-
Boston, MA: IEEE
-
Caragea C, Sinapov J, Honavar V, Dobbs D. Assessing the performance of macromolecular sequence classifiers. In: Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering (BIBE 2007). Boston, MA: IEEE; 2007: 320-6.
-
(2007)
Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering (BIBE 2007)
, pp. 320-326
-
-
Caragea, C.1
Sinapov, J.2
Honavar, V.3
Dobbs, D.4
-
16
-
-
84870431038
-
CD-HIT: Accelerated for clustering the next-generation sequencing data
-
Fu L, Niu B, Zhu Z, Wu S, Li W. CD-HIT: accelerated for clustering the next-generation sequencing data. Bioinformatics. 2012; 28(23): 3150-2.
-
(2012)
Bioinformatics
, vol.28
, Issue.23
, pp. 3150-3152
-
-
Fu, L.1
Niu, B.2
Zhu, Z.3
Wu, S.4
Li, W.5
-
17
-
-
33646887253
-
Predicting O-glycosylation sites in mammalian proteins by using SVMs
-
Li S, Liu B, Zeng R, Cai Y, Li Y. Predicting O-glycosylation sites in mammalian proteins by using SVMs. Comput Biol Chem. 2006; 30(3): 203-8.
-
(2006)
Comput Biol Chem
, vol.30
, Issue.3
, pp. 203-208
-
-
Li, S.1
Liu, B.2
Zeng, R.3
Cai, Y.4
Li, Y.5
-
18
-
-
84864953229
-
Logic minimization and rule extraction for identification of functional sites in molecular sequences
-
Cruz-Cano R, Lee M-LT, Leung M-Y. Logic minimization and rule extraction for identification of functional sites in molecular sequences. BioData Min. 2012; 5(1): 10.
-
(2012)
BioData Min
, vol.5
, Issue.1
, pp. 10
-
-
Cruz-Cano, R.1
Lee, M.-L.T.2
Leung, M.-Y.3
-
19
-
-
0035478854
-
Random forests
-
Breiman L. Random forests. Mach Learn. 2001; 45(1): 5-32.
-
(2001)
Mach Learn
, vol.45
, Issue.1
, pp. 5-32
-
-
Breiman, L.1
-
20
-
-
78951491903
-
A review of ensemble methods in bioinformatics
-
Yang P, Hwa Yang Y, Zhou BB, Zomaya AY. A review of ensemble methods in bioinformatics. Curr Bioinform. 2010; 5(4): 296-308.
-
(2010)
Curr Bioinform
, vol.5
, Issue.4
, pp. 296-308
-
-
Yang, P.1
Hwa Yang, Y.2
Zhou, B.B.3
Zomaya, A.Y.4
-
23
-
-
0031191630
-
The use of the area under the ROC curve in the evaluation of machine learning algorithms
-
Bradley AP. The use of the area under the ROC curve in the evaluation of machine learning algorithms. Pattern Recognit. 1997; 30(7): 1145-59.
-
(1997)
Pattern Recognit
, vol.30
, Issue.7
, pp. 1145-1159
-
-
Bradley, A.P.1
-
24
-
-
76749092270
-
The WEKA data mining software: An update
-
Hall M, National H, Frank E, et al. The WEKA data mining software: an update. SIGKDD Explor. 2009; 11(1): 10-8.
-
(2009)
SIGKDD Explor
, vol.11
, Issue.1
, pp. 10-18
-
-
Hall, M.1
National, H.2
Frank, E.3
-
28
-
-
57049102453
-
-
(Last visited, June 2015)
-
Meffert K, Meseguer J, Marti E D, Meskauskas A, Vos J, Rotstan N. JGAP-Java genetic algorithms and genetic programming package. Available at: http://jgap. sourceforge. net/. (Last visited, June 2015).
-
JGAP-Java genetic algorithms and genetic programming package
-
-
Meffert, K.1
Meseguer, J.2
Marti, E.D.3
Meskauskas, A.4
Vos, J.5
Rotstan, N.6
-
29
-
-
85164392958
-
A study of cross-validation and bootstrap for accuracy estimation and model selection
-
San Francisco, CA, USA: Morgan Kaufmann Publishers Inc
-
Kohavi R. A study of cross-validation and bootstrap for accuracy estimation and model selection. In: Proceedings of the 14th International Joint Conference on Artificial Intelligence-Volume 2. IJCAI'95. San Francisco, CA, USA: Morgan Kaufmann Publishers Inc.; 1995: 1137-43. Available at: http://dl. acm. org/citation. cfm?id = 1643031. 1643047.
-
(1995)
Proceedings of the 14th International Joint Conference on Artificial Intelligence-Volume 2. IJCAI'95
, pp. 1137-1143
-
-
Kohavi, R.1
-
30
-
-
33646023117
-
An introduction to ROC analysis
-
Fawcett T. An introduction to ROC analysis. Pattern Recognit Lett. 2006; 27(8): 861-74.
-
(2006)
Pattern Recognit Lett
, vol.27
, Issue.8
, pp. 861-874
-
-
Fawcett, T.1
-
31
-
-
14644390912
-
Using AUC and accuracy in evaluating learning algorithms
-
Huang J, Ling CX. Using AUC and accuracy in evaluating learning algorithms. IEEE Trans Knowl Data Eng. 2005; 17(3): 299-310.
-
(2005)
IEEE Trans Knowl Data Eng
, vol.17
, Issue.3
, pp. 299-310
-
-
Huang, J.1
Ling, C.X.2
-
32
-
-
9144232912
-
UniProt: The universal protein knowledgebase
-
Apweiler R, Bairoch A, Wu CH, et al. UniProt: the universal protein knowledgebase. Nucleic Acids Res. 2004; 32(Database issue): D115-9.
-
(2004)
Nucleic Acids Res
, vol.32
, Issue.Database issue
, pp. D115-D119
-
-
Apweiler, R.1
Bairoch, A.2
Wu, C.H.3
|