-
1
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
Altschul S., Madden T., Schaffer A., Zhang J., Zhang Z., Miller W., Lipman D. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 1997, 25:3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.1
Madden, T.2
Schaffer, A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.7
-
2
-
-
0034069495
-
Gene ontology: tool for the unification of biology. The Gene Ontology Consortium
-
Ashburner M., et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat. Genet. 2000, 25:25-29.
-
(2000)
Nat. Genet.
, vol.25
, pp. 25-29
-
-
Ashburner, M.1
-
3
-
-
70349728612
-
MultiLoc2: integrating phylogeny and gene ontology terms improves subcellular protein localization prediction
-
Blum T., Briesemeister S., Kohlbacher O. MultiLoc2: integrating phylogeny and gene ontology terms improves subcellular protein localization prediction. BMC Bioinform. 2009, 10:274.
-
(2009)
BMC Bioinform.
, vol.10
, pp. 274
-
-
Blum, T.1
Briesemeister, S.2
Kohlbacher, O.3
-
4
-
-
0037255072
-
The SWISS-PROT protein knowledgebase and its supplement TrEMBL
-
Boeckmann B., et al. The SWISS-PROT protein knowledgebase and its supplement TrEMBL. Nucleic Acids Res. 2003, 31:365-370.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 365-370
-
-
Boeckmann, B.1
-
5
-
-
0035874091
-
Prediction of protein cellular attributes using pseudo amino acid composition.
-
Chou K.C. Prediction of protein cellular attributes using pseudo amino acid composition. Proteins: Struct. Funct. Genet. (Erratum: ibid., 2001, vol. 44, 60) 2001, 43:246-255.
-
(2001)
Proteins: Struct. Funct. Genet. (Erratum: ibid., 2001, vol. 44, 60)
, vol.43
, pp. 246-255
-
-
Chou, K.C.1
-
6
-
-
79951518208
-
Some remarks on protein attribute prediction and pseudo amino acid composition (50th Anniversary Year Review)
-
Chou K.C. Some remarks on protein attribute prediction and pseudo amino acid composition (50th Anniversary Year Review). J. Theor. Biol. 2011, 273:236-247.
-
(2011)
J. Theor. Biol.
, vol.273
, pp. 236-247
-
-
Chou, K.C.1
-
7
-
-
0037195776
-
Using functional domain composition and support vector machines for prediction of protein subcellular location
-
Chou K.C., Cai Y.D. Using functional domain composition and support vector machines for prediction of protein subcellular location. J. Biol. Chem. 2002, 277:4575-45769.
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 4575-45769
-
-
Chou, K.C.1
Cai, Y.D.2
-
8
-
-
0032940342
-
Protein subcellular location prediction
-
Chou K.C., Elrod D.W. Protein subcellular location prediction. Protein Eng. 1999, 12:107-118.
-
(1999)
Protein Eng.
, vol.12
, pp. 107-118
-
-
Chou, K.C.1
Elrod, D.W.2
-
9
-
-
33745759451
-
Hum-PLoc: a novel ensemble classifier for predicting human protein subcellular localization
-
Chou K.C., Shen H.B. Hum-PLoc: a novel ensemble classifier for predicting human protein subcellular localization. Biochem. Biophys. Res. Commun. 2006, 347:150-157.
-
(2006)
Biochem. Biophys. Res. Commun.
, vol.347
, pp. 150-157
-
-
Chou, K.C.1
Shen, H.B.2
-
10
-
-
34548606295
-
Review: recent progresses in protein subcellular location prediction
-
Chou K.C., Shen H.B. Review: recent progresses in protein subcellular location prediction. Anal. Biochem. 2007, 370:1-16.
-
(2007)
Anal. Biochem.
, vol.370
, pp. 1-16
-
-
Chou, K.C.1
Shen, H.B.2
-
11
-
-
33846605183
-
Large-scale plant protein subcellular location prediction
-
Chou K.C., Shen H.B. Large-scale plant protein subcellular location prediction. J. Cell. Biochem. 2007, 100:665-678.
-
(2007)
J. Cell. Biochem.
, vol.100
, pp. 665-678
-
-
Chou, K.C.1
Shen, H.B.2
-
12
-
-
39449105071
-
Cell-PLoc: a package of Web servers for predicting subcellular localization of proteins in various organisms
-
Chou K.C., Shen H.B. Cell-PLoc: a package of Web servers for predicting subcellular localization of proteins in various organisms. Nat. Protocols 2008, 3:153-162.
-
(2008)
Nat. Protocols
, vol.3
, pp. 153-162
-
-
Chou, K.C.1
Shen, H.B.2
-
13
-
-
77649339280
-
Review: recent advances in developing web-servers for predicting protein attributes
-
(Openly accessible from)
-
Chou K.C., Shen H.B. Review: recent advances in developing web-servers for predicting protein attributes. Nat. Sci. 2009, 2:63-92. (Openly accessible from).
-
(2009)
Nat. Sci.
, vol.2
, pp. 63-92
-
-
Chou, K.C.1
Shen, H.B.2
-
14
-
-
78650746655
-
Cell-PLoc 2.0: an improved package of web-servers for predicting subcellular localization of proteins in various organisms
-
(Openly accessible from)
-
Chou K.C., Shen H.B. Cell-PLoc 2.0: an improved package of web-servers for predicting subcellular localization of proteins in various organisms. Nat. Sci. 2010, 2:1090-1103. (Openly accessible from). http://www.scirp.org/journal/NS/.
-
(2010)
Nat. Sci.
, vol.2
, pp. 1090-1103
-
-
Chou, K.C.1
Shen, H.B.2
-
15
-
-
77956199192
-
Plant-mPLoc: a top-down strategy to augment the power for predicting plant protein subcellular localization
-
Chou K.C., Shen H.B. Plant-mPLoc: a top-down strategy to augment the power for predicting plant protein subcellular localization. PLoS ONE 2010, 5:e11335.
-
(2010)
PLoS ONE
, vol.5
-
-
Chou, K.C.1
Shen, H.B.2
-
16
-
-
0029157083
-
Review: prediction of protein structural classes
-
Chou K.C., Zhang C.T. Review: prediction of protein structural classes. Crit. Rev. Biochem. Mol. Biol. 1995, 30:275-349.
-
(1995)
Crit. Rev. Biochem. Mol. Biol.
, vol.30
, pp. 275-349
-
-
Chou, K.C.1
Zhang, C.T.2
-
17
-
-
79953316878
-
ILoc-Euk: a multi-label classifier for predicting the subcellular localization of singleplex and multiplex eukaryotic proteins
-
Chou K.C., Wu Z.C., Xiao X. iLoc-Euk: a multi-label classifier for predicting the subcellular localization of singleplex and multiplex eukaryotic proteins. PLoS ONE 2011, 6:e18258.
-
(2011)
PLoS ONE
, vol.6
-
-
Chou, K.C.1
Wu, Z.C.2
Xiao, X.3
-
18
-
-
84855641685
-
ILoc-Hum: using accumulation-label scale to predict subcellular locations of human proteins with both single and multiple sites
-
Chou K.C., Wu Z.C., Xiao X. iLoc-Hum: using accumulation-label scale to predict subcellular locations of human proteins with both single and multiple sites. Mol. Biosyst. 2012, 8:629-641.
-
(2012)
Mol. Biosyst.
, vol.8
, pp. 629-641
-
-
Chou, K.C.1
Wu, Z.C.2
Xiao, X.3
-
19
-
-
34547972773
-
Boosting for Transfer Learning
-
Proceedings of the 24th International Conference on Machine Learning
-
Dai W., Yang Q., Xue G., Yu Y. Boosting for Transfer Learning. In: Proceedings of the 24th International Conference on Machine Learning, 2007.
-
(2007)
-
-
Dai, W.1
Yang, Q.2
Xue, G.3
Yu, Y.4
-
20
-
-
84863349934
-
Translated learning: transfer learning across different feature spaces
-
Dai, W., Chen, Y., Xue, G., Yang Q., Yu, Y. Translated learning: transfer learning across different feature spaces. In: Proceedings of the NIPS 2008.
-
(2008)
Proceedings of the NIPS
-
-
Dai, W.1
Chen, Y.2
Xue, G.3
Yang, Q.4
Yu, Y.5
-
21
-
-
33846010187
-
Prediction of protein submitochondria locations by hybridizing pseudo-amino acid composition with various physicochemical features of segmented sequence
-
Du P., Li Y. Prediction of protein submitochondria locations by hybridizing pseudo-amino acid composition with various physicochemical features of segmented sequence. BMC Bioinform. 2006, 7:518.
-
(2006)
BMC Bioinform.
, vol.7
, pp. 518
-
-
Du, P.1
Li, Y.2
-
22
-
-
70349758082
-
SubChlo: Predicting protein subchloroplast locations with pseudo-amino acid composition and the evidence-theoretic K-nearest neighbor (ET-KNN)
-
Du P., Cao S., Li Y. SubChlo: Predicting protein subchloroplast locations with pseudo-amino acid composition and the evidence-theoretic K-nearest neighbor (ET-KNN). J. Theor. Biol. 2009, 261:330-335.
-
(2009)
J. Theor. Biol.
, vol.261
, pp. 330-335
-
-
Du, P.1
Cao, S.2
Li, Y.3
-
23
-
-
77649337793
-
Using the concept of Chou's pseudo amino acid composition for risk type prediction of human papillomaviruses
-
Esmaeili M., Mohabatkar H., Mohsenzadeh S. Using the concept of Chou's pseudo amino acid composition for risk type prediction of human papillomaviruses. J. Theor. Biol. 2010, 263:203-209.
-
(2010)
J. Theor. Biol.
, vol.263
, pp. 203-209
-
-
Esmaeili, M.1
Mohabatkar, H.2
Mohsenzadeh, S.3
-
24
-
-
59649123088
-
Use of fuzzy clustering technique and matrices to classify amino acids and its impact to Chou's pseudo amino acid composition
-
Georgiou D.N., Karakasidis T.E., Nieto J.J., Torres A. Use of fuzzy clustering technique and matrices to classify amino acids and its impact to Chou's pseudo amino acid composition. J. Theor. Biol. 2009, 257:17-26.
-
(2009)
J. Theor. Biol.
, vol.257
, pp. 17-26
-
-
Georgiou, D.N.1
Karakasidis, T.E.2
Nieto, J.J.3
Torres, A.4
-
25
-
-
33646861792
-
MultiLoc: prediction of protein subcellular localization using N-terminal targeting sequences, sequence motifs and amino acid composition
-
Hoglund A., Donnes P., Blum T., Adolph H., Kohlbacher O. MultiLoc: prediction of protein subcellular localization using N-terminal targeting sequences, sequence motifs and amino acid composition. Bioinformatics 2006, 22(10):1158-1165.
-
(2006)
Bioinformatics
, vol.22
, Issue.10
, pp. 1158-1165
-
-
Hoglund, A.1
Donnes, P.2
Blum, T.3
Adolph, H.4
Kohlbacher, O.5
-
26
-
-
79960915175
-
Prediction of body fluids where proteins are secreted into based on protein interaction network
-
Hu L.L., Huang T., Cai Y.D., Chou K.C. Prediction of body fluids where proteins are secreted into based on protein interaction network. PLoS ONE 2011, 6:e22989.
-
(2011)
PLoS ONE
, vol.6
-
-
Hu, L.L.1
Huang, T.2
Cai, Y.D.3
Chou, K.C.4
-
27
-
-
80053220447
-
Classification and analysis of regulatory pathways using graph property, biochemical and physicochemical property, and functional property
-
Huang T., Chen L., Cai Y.D., Chou K.C. Classification and analysis of regulatory pathways using graph property, biochemical and physicochemical property, and functional property. PLoS ONE 2011, 6:e25297.
-
(2011)
PLoS ONE
, vol.6
-
-
Huang, T.1
Chen, L.2
Cai, Y.D.3
Chou, K.C.4
-
28
-
-
40249110012
-
ProLoc-GO: utilizing informative gene ontology terms for sequence-based prediction of protein subcellular localization
-
Huang W., Tunq C., Ho S., Hwang S., Ho S. ProLoc-GO: utilizing informative gene ontology terms for sequence-based prediction of protein subcellular localization. BMC Bioinform. 2008, 9:80.
-
(2008)
BMC Bioinform.
, vol.9
, pp. 80
-
-
Huang, W.1
Tunq, C.2
Ho, S.3
Hwang, S.4
Ho, S.5
-
29
-
-
70349795723
-
Predicting protein subnuclear localization using GO-amino-acid composition features
-
Huang W., Tung C., Huang S., Ho S. Predicting protein subnuclear localization using GO-amino-acid composition features. BioSystems 2009.
-
(2009)
BioSystems
-
-
Huang, W.1
Tung, C.2
Huang, S.3
Ho, S.4
-
30
-
-
56649094590
-
Protein networks markedly improve prediction of subcellular localization in multiple eukaryotic species
-
Lee K., Chuang H., Beyer A., Sung M., Huh W., Lee B., Ideker T. Protein networks markedly improve prediction of subcellular localization in multiple eukaryotic species. Nucleic Acids Res. 2008, 36(20):e136.
-
(2008)
Nucleic Acids Res.
, vol.36
, Issue.20
-
-
Lee, K.1
Chuang, H.2
Beyer, A.3
Sung, M.4
Huh, W.5
Lee, B.6
Ideker, T.7
-
31
-
-
80052855771
-
IDNA-Prot: identification of DNA binding proteins using random forest with grey model
-
Lin W.Z., Fang J.A., Xiao X., Chou K.C. iDNA-Prot: identification of DNA binding proteins using random forest with grey model. PLoS ONE 2011, 6:e24756.
-
(2011)
PLoS ONE
, vol.6
-
-
Lin, W.Z.1
Fang, J.A.2
Xiao, X.3
Chou, K.C.4
-
32
-
-
80155143429
-
Multi-kernel transfer learning based on Chou's PseAAC formulation for protein submitochondria localization
-
Mei S. Multi-kernel transfer learning based on Chou's PseAAC formulation for protein submitochondria localization. J. Theor. Biol. 2012, 293:121-130.
-
(2012)
J. Theor. Biol.
, vol.293
, pp. 121-130
-
-
Mei, S.1
-
33
-
-
75149113268
-
Amino acid classification based spectrum kernel fusion for protein subnuclear localization
-
Mei S., Wang Fei Amino acid classification based spectrum kernel fusion for protein subnuclear localization. BMC Bioinform. 2010, 11(Suppl. 1):S17.
-
(2010)
BMC Bioinform.
, vol.11
, Issue.SUPPL. 1
-
-
Mei, S.1
Wang, F.2
-
34
-
-
79951540724
-
Gene ontology based transfer learning for protein subcellular localization
-
Mei S., Wang F., Zhou S. Gene ontology based transfer learning for protein subcellular localization. BMC Bioinform. 2011, 12:44.
-
(2011)
BMC Bioinform.
, vol.12
, pp. 44
-
-
Mei, S.1
Wang, F.2
Zhou, S.3
-
35
-
-
77958497871
-
Prediction of cyclin proteins using Chou's pseudo amino acid composition
-
Mohabatkar H. Prediction of cyclin proteins using Chou's pseudo amino acid composition. Protein Pept. Lett. 2010, 17:1207-1214.
-
(2010)
Protein Pept. Lett.
, vol.17
, pp. 1207-1214
-
-
Mohabatkar, H.1
-
36
-
-
0033909566
-
Protein sorting signals and prediction of subcellular localization
-
Nakai K. Protein sorting signals and prediction of subcellular localization. Adv. Protein Chem. 2000, 54:277-344.
-
(2000)
Adv. Protein Chem.
, vol.54
, pp. 277-344
-
-
Nakai, K.1
-
37
-
-
0028239038
-
Discrimination of intracellular and extracellular proteins using amino acid composition and residue-pair frequencies
-
Nakashima H., Nishikawa K. Discrimination of intracellular and extracellular proteins using amino acid composition and residue-pair frequencies. J. Mol. Biol. 1994, 238:54-61.
-
(1994)
J. Mol. Biol.
, vol.238
, pp. 54-61
-
-
Nakashima, H.1
Nishikawa, K.2
-
39
-
-
33747872590
-
BaCelLo: a balanced subcellular localization predictor
-
Pierleoni A., Luigi P., Fariselli P., Casadio R. BaCelLo: a balanced subcellular localization predictor. Bioinformatics 2006, 22(14):e408-e416.
-
(2006)
Bioinformatics
, vol.22
, Issue.14
-
-
Pierleoni, A.1
Luigi, P.2
Fariselli, P.3
Casadio, R.4
-
40
-
-
2442467489
-
Probabilistic outputs for support vector machines and comparison to regularized likelihood methods
-
Advances in Large Margin Classifiers. MIT Press, 1999.
-
Platt, J. Probabilistic outputs for support vector machines and comparison to regularized likelihood methods. In: Advances in Large Margin Classifiers. MIT Press, 1999.
-
-
-
Platt, J.1
-
41
-
-
65649105512
-
Prediction of G-protein-coupled receptor classes based on the concept of Chou's pseudo amino acid composition: an approach from discrete wavelet transform
-
Qiu J.D., Huang J.H., Liang R.P., Lu X.Q. Prediction of G-protein-coupled receptor classes based on the concept of Chou's pseudo amino acid composition: an approach from discrete wavelet transform. Anal. Biochem. 2009, 390:68-73.
-
(2009)
Anal. Biochem.
, vol.390
, pp. 68-73
-
-
Qiu, J.D.1
Huang, J.H.2
Liang, R.P.3
Lu, X.Q.4
-
42
-
-
78649324596
-
A novel feature representation method based on Chou's pseudo amino acid composition for protein structural class prediction
-
Sahu S.S., Panda G. A novel feature representation method based on Chou's pseudo amino acid composition for protein structural class prediction. Comput. Biol. Chem. 2010, 34:320-327.
-
(2010)
Comput. Biol. Chem.
, vol.34
, pp. 320-327
-
-
Sahu, S.S.1
Panda, G.2
-
43
-
-
33847668306
-
Hum-mPLoc: an ensemble classifier for large-scale human protein subcellular location prediction by incorporating samples with multiple sites
-
Shen H.B., Chou K.C. Hum-mPLoc: an ensemble classifier for large-scale human protein subcellular location prediction by incorporating samples with multiple sites. Biochem. Biophys. Res. Commun. 2007, 355:1006-1011.
-
(2007)
Biochem. Biophys. Res. Commun.
, vol.355
, pp. 1006-1011
-
-
Shen, H.B.1
Chou, K.C.2
-
44
-
-
77957297596
-
Virus-mPLoc: a fusion classifier for viral protein subcellular location prediction by incorporating multiple sites
-
Shen H.B., Chou K.C. Virus-mPLoc: a fusion classifier for viral protein subcellular location prediction by incorporating multiple sites. J. Biomol. Struct. Dyn. 2010, 28:175-186.
-
(2010)
J. Biomol. Struct. Dyn.
, vol.28
, pp. 175-186
-
-
Shen, H.B.1
Chou, K.C.2
-
45
-
-
60849116424
-
A method to improve protein subcellular localization prediction by integrating various biological data sources
-
Tung T., Lee D. A method to improve protein subcellular localization prediction by integrating various biological data sources. BMC Bioinform. 2009, 10(Suppl. 1):S43.
-
(2009)
BMC Bioinform.
, vol.10
, Issue.SUPPL. 1
-
-
Tung, T.1
Lee, D.2
-
46
-
-
80051676719
-
NR-2L: a two-level predictor for identifying nuclear receptor subfamilies based on sequence-derived features
-
Wang P., Xiao X., Chou K.C. NR-2L: a two-level predictor for identifying nuclear receptor subfamilies based on sequence-derived features. PLoS ONE 2011, 6:e23505.
-
(2011)
PLoS ONE
, vol.6
-
-
Wang, P.1
Xiao, X.2
Chou, K.C.3
-
47
-
-
51349159085
-
Probability estimates for multi-class classification by pairwise coupling
-
Wu T., Lin C., Weng R. Probability estimates for multi-class classification by pairwise coupling. J. Mach. Learn. Res. 2004, 5:975-1005.
-
(2004)
J. Mach. Learn. Res.
, vol.5
, pp. 975-1005
-
-
Wu, T.1
Lin, C.2
Weng, R.3
-
48
-
-
80755158862
-
ILoc-Plant: a multi-label classifier for predicting the subcellular localization of plant proteins with both single and multiple sites
-
Wu Z.C., Xiao X., Chou K.C. iLoc-Plant: a multi-label classifier for predicting the subcellular localization of plant proteins with both single and multiple sites. Mol. BioSyst. 2011, 7:3287-3297.
-
(2011)
Mol. BioSyst.
, vol.7
, pp. 3287-3297
-
-
Wu, Z.C.1
Xiao, X.2
Chou, K.C.3
-
49
-
-
84858255890
-
ILoc-Gpos: a multi-layer classifier for predicting the subcellular localization of singleplex and multiplex gram-positive bacterial proteins
-
Wu Z.C., Xiao X., Chou K.C. iLoc-Gpos: a multi-layer classifier for predicting the subcellular localization of singleplex and multiplex gram-positive bacterial proteins. Protein Pept. Lett. 2012, 19:4-14.
-
(2012)
Protein Pept. Lett.
, vol.19
, pp. 4-14
-
-
Wu, Z.C.1
Xiao, X.2
Chou, K.C.3
-
50
-
-
79959667141
-
ILoc-Virus: a multi-label learning classifier for identifying the subcellular localization of virus proteins with both single and multiple sites
-
Xiao X., Wu Z.C., Chou K.C. iLoc-Virus: a multi-label learning classifier for identifying the subcellular localization of virus proteins with both single and multiple sites. J. Theor. Biol. 2011, 284:42-51.
-
(2011)
J. Theor. Biol.
, vol.284
, pp. 42-51
-
-
Xiao, X.1
Wu, Z.C.2
Chou, K.C.3
-
51
-
-
79959282135
-
A multi-label classifier for predicting the subcellular localization of gram-negative bacterial proteins with both single and multiple sites
-
Xiao X., Wu Z.C., Chou K.C. A multi-label classifier for predicting the subcellular localization of gram-negative bacterial proteins with both single and multiple sites. PLoS ONE 2011, 6:e20592.
-
(2011)
PLoS ONE
, vol.6
-
-
Xiao, X.1
Wu, Z.C.2
Chou, K.C.3
-
52
-
-
77956221086
-
-
Heterogeneous transfer learning for image clustering via the social Web. In: Proceedings of the 47th Annual Meeting of the ACL and the 4th IJCNLP of the AFNLP 2009,
-
Yang, Q., Chen, Y., Xue, G., Dai, W., Yu, Y. Heterogeneous transfer learning for image clustering via the social Web. In: Proceedings of the 47th Annual Meeting of the ACL and the 4th IJCNLP of the AFNLP 2009, pp. 1-9.
-
-
-
Yang, Q.1
Chen, Y.2
Xue, G.3
Dai, W.4
Yu, Y.5
-
53
-
-
0037233515
-
Subcellular location prediction of apoptosis proteins
-
Zhou G.P., Doctor K. Subcellular location prediction of apoptosis proteins. Proteins: Struct. Funct. Genet. 2003, 50:44-48.
-
(2003)
Proteins: Struct. Funct. Genet.
, vol.50
, pp. 44-48
-
-
Zhou, G.P.1
Doctor, K.2
|