-
1
-
-
1542400269
-
Analysis and prediction of DNA-binding proteins and their binding residues based on composition, sequence and structural information
-
COI: 1:CAS:528:DC%2BD2cXhvFSru7k%3D, PID: 14990443
-
Ahmad S, Gromiha MM et al (2004) Analysis and prediction of DNA-binding proteins and their binding residues based on composition, sequence and structural information. Bioinformatics 20:477–486
-
(2004)
Bioinformatics
, vol.20
, pp. 477-486
-
-
Ahmad, S.1
Gromiha, M.M.2
-
3
-
-
0035478854
-
Random forests
-
Breiman L (2001) Random forests. Mach Learn 45:5–32
-
(2001)
Mach Learn
, vol.45
, pp. 5-32
-
-
Breiman, L.1
-
4
-
-
0034573551
-
Biotechnological applications of plant freezing associated proteins
-
COI: 1:CAS:528:DC%2BD3cXosFOlsbg%3D, PID: 11193297
-
Breton G, Danyluk J et al (2000) Biotechnological applications of plant freezing associated proteins. Biotechnol Annu Rev 6:59–101
-
(2000)
Biotechnol Annu Rev
, vol.6
, pp. 59-101
-
-
Breton, G.1
Danyluk, J.2
-
5
-
-
79955702502
-
LIBSVM: a library for support vector machines
-
COI: 1:CAS:528:DC%2BC38XosFSguw%3D%3D
-
Chang CC, Lin CJ (2011) LIBSVM: a library for support vector machines. ACM Trans Intell Syst Technol 27:1–27
-
(2011)
ACM Trans Intell Syst Technol
, vol.27
, pp. 1-27
-
-
Chang, C.C.1
Lin, C.J.2
-
6
-
-
84876053736
-
iRSpot-PseDNC: identify recombination spots with pseudo dinucleotide composition
-
COI: 1:CAS:528:DC%2BC3sXlsVCntLs%3D, PID: 23303794
-
Chen W, Feng PM et al (2013) iRSpot-PseDNC: identify recombination spots with pseudo dinucleotide composition. Nucleic Acids Res 41:e68
-
(2013)
Nucleic Acids Res
, vol.41
, pp. 68
-
-
Chen, W.1
Feng, P.M.2
-
7
-
-
84921500317
-
iTIS-PseTNC: a sequence-based predictor for identifying translation initiation site in human genes using pseudo trinucleotide composition
-
COI: 1:CAS:528:DC%2BC2cXht12mt7vJ, PID: 25016190
-
Chen W, Feng P-M et al (2014) iTIS-PseTNC: a sequence-based predictor for identifying translation initiation site in human genes using pseudo trinucleotide composition. Anal Biochem 462:76–83
-
(2014)
Anal Biochem
, vol.462
, pp. 76-83
-
-
Chen, W.1
Feng, P.-M.2
-
8
-
-
0026599046
-
Energy-optimized structure of antifreeze protein and its binding mechanism
-
COI: 1:CAS:528:DyaK38XhsVKgtb0%3D, PID: 1738160
-
Chou K-C (1992) Energy-optimized structure of antifreeze protein and its binding mechanism. J Mol Biol 223:509–517
-
(1992)
J Mol Biol
, vol.223
, pp. 509-517
-
-
Chou, K.-C.1
-
9
-
-
0035030201
-
Using subsite coupling to predict signal peptides
-
COI: 1:CAS:528:DC%2BD3MXjsVektrs%3D, PID: 11297664
-
Chou K (2001a) Using subsite coupling to predict signal peptides. Protein Eng 14:75–79
-
(2001)
Protein Eng
, vol.14
, pp. 75-79
-
-
Chou, K.1
-
10
-
-
0035874091
-
Prediction of protein cellular attributes using pseudo-amino acid composition
-
COI: 1:CAS:528:DC%2BD3MXjtFOls74%3D, PID: 11288174
-
Chou KC (2001b) Prediction of protein cellular attributes using pseudo-amino acid composition. Proteins 43:246–255
-
(2001)
Proteins
, vol.43
, pp. 246-255
-
-
Chou, K.C.1
-
11
-
-
79951518208
-
Some remarks on protein attribute prediction and pseudo amino acid composition
-
COI: 1:CAS:528:DC%2BC3MXhvV2rs7k%3D, PID: 21168420
-
Chou K-C (2011) Some remarks on protein attribute prediction and pseudo amino acid composition. J Theor Biol 273:236–247
-
(2011)
J Theor Biol
, vol.273
, pp. 236-247
-
-
Chou, K.-C.1
-
12
-
-
84877758233
-
Some remarks on predicting multi-label attributes in molecular biosystems
-
COI: 1:CAS:528:DC%2BC3sXntFygu7o%3D, PID: 23536215
-
Chou KC (2013) Some remarks on predicting multi-label attributes in molecular biosystems. Mol Biosyst 9:1092–1100
-
(2013)
Mol Biosyst
, vol.9
, pp. 1092-1100
-
-
Chou, K.C.1
-
13
-
-
0025325036
-
Biochemistry of fish antifreeze proteins
-
COI: 1:CAS:528:DyaK3cXktlKnu7g%3D, PID: 2185972
-
Davies PL, Hew CL (1990) Biochemistry of fish antifreeze proteins. FASEB J 4:2460–2468
-
(1990)
FASEB J
, vol.4
, pp. 2460-2468
-
-
Davies, P.L.1
Hew, C.L.2
-
14
-
-
84908072570
-
Gram-positive and Gram-negative protein subcellular localization by incorporating evolutionary-based descriptors into Chou's general PseAAC
-
COI: 1:CAS:528:DC%2BC2cXhs1KmtrfJ, PID: 25264267
-
Dehzangi A, Heffernan R et al (2015) Gram-positive and Gram-negative protein subcellular localization by incorporating evolutionary-based descriptors into Chou's general PseAAC. J Theor Biol 364:284–294
-
(2015)
J Theor Biol
, vol.364
, pp. 284-294
-
-
Dehzangi, A.1
Heffernan, R.2
-
15
-
-
84903592187
-
iCTX-type: A sequence-based predictor for identifying the types of conotoxins in targeting ion channels
-
Ding H, Deng E-Z et al (2014) iCTX-type: A sequence-based predictor for identifying the types of conotoxins in targeting ion channels. BioMed Res Int. doi:10.1155/2014/286419
-
(2014)
BioMed Res Int
-
-
Ding, H.1
Deng, E.-Z.2
-
16
-
-
29144499905
-
Working set selection using second order information for training SVM
-
Fan RE, Chen PH et al (2005) Working set selection using second order information for training SVM. J Mach Learn Res 6:1889–1918
-
(2005)
J Mach Learn Res
, vol.6
, pp. 1889-1918
-
-
Fan, R.E.1
Chen, P.H.2
-
17
-
-
0031811192
-
Antifreeze proteins: current status and possible food uses
-
COI: 1:CAS:528:DyaK1cXktVSmsLc%3D
-
Feeney RE, Yeh Y (1998) Antifreeze proteins: current status and possible food uses. Trends Food Sci Technol 9:102–106
-
(1998)
Trends Food Sci Technol
, vol.9
, pp. 102-106
-
-
Feeney, R.E.1
Yeh, Y.2
-
18
-
-
0035050777
-
Antifreeze proteins of teleost fishes
-
COI: 1:CAS:528:DC%2BD3MXjtFKmtLY%3D, PID: 11181960
-
Fletcher GL, Hew CL et al (2001) Antifreeze proteins of teleost fishes. Annu Rev Physiol 63:359–390
-
(2001)
Annu Rev Physiol
, vol.63
, pp. 359-390
-
-
Fletcher, G.L.1
Hew, C.L.2
-
19
-
-
49949083546
-
Lateral transfer of a lectin-like antifreeze protein gene in fishes
-
PID: 18612417
-
Graham LA, Lougheed SC et al (2008) Lateral transfer of a lectin-like antifreeze protein gene in fishes. PLoS One 3:e2616
-
(2008)
PLoS One
, vol.3
, pp. 2616
-
-
Graham, L.A.1
Lougheed, S.C.2
-
20
-
-
0028835687
-
Antifreeze proteins and their potential use in frozen foods
-
COI: 1:CAS:528:DyaK2MXpslSlsb4%3D, PID: 14536093
-
Griffith M, Ewart KV (1995) Antifreeze proteins and their potential use in frozen foods. Biotechnol Adv 13:375–402
-
(1995)
Biotechnol Adv
, vol.13
, pp. 375-402
-
-
Griffith, M.1
Ewart, K.V.2
-
21
-
-
4344568284
-
Antifreeze proteins in overwintering plants: a tale of two activities
-
COI: 1:CAS:528:DC%2BD2cXmsVCqtbs%3D, PID: 15358271
-
Griffith M, Yaish MW (2004) Antifreeze proteins in overwintering plants: a tale of two activities. Trends Plant Sci 9:399–405
-
(2004)
Trends Plant Sci
, vol.9
, pp. 399-405
-
-
Griffith, M.1
Yaish, M.W.2
-
22
-
-
84896463976
-
iNuc-PseKNC: a sequence-based predictor for predicting nucleosome positioning in genomes with pseudo k-tuple nucleotide composition
-
COI: 1:CAS:528:DC%2BC2cXosFSmsb0%3D, PID: 24504871
-
Guo SH, Deng EZ et al (2014) iNuc-PseKNC: a sequence-based predictor for predicting nucleosome positioning in genomes with pseudo k-tuple nucleotide composition. Bioinformatics 30:1522–1529
-
(2014)
Bioinformatics
, vol.30
, pp. 1522-1529
-
-
Guo, S.H.1
Deng, E.Z.2
-
23
-
-
84876379510
-
A multilabel model based on Chou’s pseudo-amino acid composition for identifying membrane proteins with both single and multiple functional types
-
COI: 1:CAS:528:DC%2BC3sXlsVGrs74%3D, PID: 23546013
-
Huang C, Yuan J-Q (2013) A multilabel model based on Chou’s pseudo-amino acid composition for identifying membrane proteins with both single and multiple functional types. J Membr Biol 246:327–334
-
(2013)
J Membr Biol
, vol.246
, pp. 327-334
-
-
Huang, C.1
Yuan, J.-Q.2
-
24
-
-
70349795723
-
Predicting protein subnuclear localization using GO-amino-acid composition features
-
COI: 1:CAS:528:DC%2BD1MXht1yjurfO, PID: 19583993
-
Huang W-L, Tung C-W et al (2009) Predicting protein subnuclear localization using GO-amino-acid composition features. Biosystems 98:73–79
-
(2009)
Biosystems
, vol.98
, pp. 73-79
-
-
Huang, W.-L.1
Tung, C.-W.2
-
25
-
-
84861008426
-
RFCRYS: sequence-based protein crystallization propensity prediction by means of random forest
-
COI: 1:CAS:528:DC%2BC38XovV2gtrY%3D, PID: 22726810
-
Jahandideh S, Mahdavi A (2012) RFCRYS: sequence-based protein crystallization propensity prediction by means of random forest. J Theor Biol 306:115–119
-
(2012)
J Theor Biol
, vol.306
, pp. 115-119
-
-
Jahandideh, S.1
Mahdavi, A.2
-
26
-
-
0036470053
-
Antifreeze proteins: an unusual receptor–ligand interaction
-
COI: 1:CAS:528:DC%2BD38XhtlGjur4%3D, PID: 11852248
-
Jia Z, Davies PL (2002) Antifreeze proteins: an unusual receptor–ligand interaction. Trends Biochem Sci 27:101–106
-
(2002)
Trends Biochem Sci
, vol.27
, pp. 101-106
-
-
Jia, Z.1
Davies, P.L.2
-
27
-
-
78649326452
-
AFP-Pred: a random forest approach for predicting antifreeze proteins from sequence-derived properties
-
COI: 1:CAS:528:DC%2BC3MXjsVCjtg%3D%3D, PID: 21056045
-
Kandaswamy KK, Chou K-C et al (2011) AFP-Pred: a random forest approach for predicting antifreeze proteins from sequence-derived properties. J Theor Biol 270:56–62
-
(2011)
J Theor Biol
, vol.270
, pp. 56-62
-
-
Kandaswamy, K.K.1
Chou, K.-C.2
-
29
-
-
84911416290
-
Discrimination of acidic and alkaline enzyme using Chou’s pseudo amino acid composition in conjunction with probabilistic neural network model
-
COI: 1:CAS:528:DC%2BC2cXhvVams73P, PID: 25452135
-
Khan ZU, Hayat M et al (2015) Discrimination of acidic and alkaline enzyme using Chou’s pseudo amino acid composition in conjunction with probabilistic neural network model. J Theor Biol 365:197–203
-
(2015)
J Theor Biol
, vol.365
, pp. 197-203
-
-
Khan, Z.U.1
Hayat, M.2
-
31
-
-
0031381525
-
Wrappers for feature subset selection
-
Kohavi R, John GH (1997) Wrappers for feature subset selection. Artif Intell 97:273–324
-
(1997)
Artif Intell
, vol.97
, pp. 273-324
-
-
Kohavi, R.1
John, G.H.2
-
32
-
-
0003630378
-
-
Water, radiation, salt, and other stresses, II, Academic Press, New York
-
Levitt J (1980) Responses of plants to environmental stresses, vol II., Water, radiation, salt, and other stressesAcademic Press, New York
-
(1980)
Responses of plants to environmental stresses
-
-
Levitt, J.1
-
33
-
-
33745634395
-
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
-
COI: 1:CAS:528:DC%2BD28XmsVent7s%3D, PID: 16731699
-
Li W, Godzik A (2006) Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences. Bioinformatics 22:1658–1659
-
(2006)
Bioinformatics
, vol.22
, pp. 1658-1659
-
-
Li, W.1
Godzik, A.2
-
34
-
-
0345040873
-
Classification and regression by random forest
-
Liaw A, Wiener M (2002) Classification and regression by random forest. R News 2:18–22
-
(2002)
R News
, vol.2
, pp. 18-22
-
-
Liaw, A.1
Wiener, M.2
-
35
-
-
84874928986
-
iLoc-Animal: a multi-label learning classifier for predicting subcellular localization of animal proteins
-
Lin WZ, Fang JA et al (2013) iLoc-Animal: a multi-label learning classifier for predicting subcellular localization of animal proteins. Mol Biosyst 4:634–644
-
(2013)
Mol Biosyst
, vol.4
, pp. 634-644
-
-
Lin, W.Z.1
Fang, J.A.2
-
36
-
-
84941040066
-
iPro54-PseKNC: a sequence-based predictor for identifying sigma-54 promoters in prokaryote with pseudo k-tuple nucleotide composition
-
PID: 25361964
-
Lin H, Deng E-Z et al (2014) iPro54-PseKNC: a sequence-based predictor for identifying sigma-54 promoters in prokaryote with pseudo k-tuple nucleotide composition. Nucleic Acids Res 42:12961–12972
-
(2014)
Nucleic Acids Res
, vol.42
, pp. 12961-12972
-
-
Lin, H.1
Deng, E.-Z.2
-
37
-
-
84862763274
-
Accurate prediction of protein structural class using auto covariance transformation of PSI-BLAST profiles
-
COI: 1:CAS:528:DC%2BC38XmvFGksr4%3D, PID: 21698456
-
Liu T, Geng X et al (2012) Accurate prediction of protein structural class using auto covariance transformation of PSI-BLAST profiles. Amino Acids 42:2243–2249
-
(2012)
Amino Acids
, vol.42
, pp. 2243-2249
-
-
Liu, T.1
Geng, X.2
-
38
-
-
84906975785
-
iDNA-Prot|dis: Identifying DNA-binding proteins by incorporating amino acid distance-pairs and reduced alphabet profile into the general pseudo amino acid composition
-
PID: 25184541
-
Liu B, Xu J et al (2014) iDNA-Prot|dis: Identifying DNA-binding proteins by incorporating amino acid distance-pairs and reduced alphabet profile into the general pseudo amino acid composition. PLoS One 9:e106691
-
(2014)
PLoS One
, vol.9
, pp. 106691
-
-
Liu, B.1
Xu, J.2
-
39
-
-
84926631457
-
Identification of real microRNA precursors with a pseudo structure status composition approach
-
PID: 25821974
-
Liu B, Fang L et al (2015) Identification of real microRNA precursors with a pseudo structure status composition approach. PLoS One 10:e0121501
-
(2015)
PLoS One
, vol.10
, pp. 0121501
-
-
Liu, B.1
Fang, L.2
-
40
-
-
84925498137
-
Prediction of protein subcellular localization by incorporating multiobjective PSO-based feature subset selection into the general form of Chou’s PseAAC
-
Mandal M, Mukhopadhyay A et al (2015) Prediction of protein subcellular localization by incorporating multiobjective PSO-based feature subset selection into the general form of Chou’s PseAAC. Med Biol Eng Compu 53:331–344
-
(2015)
Med Biol Eng Compu
, vol.53
, pp. 331-344
-
-
Mandal, M.1
Mukhopadhyay, A.2
-
41
-
-
84899962803
-
Chou's pseudo amino acid composition improves sequence-based antifreeze protein prediction
-
COI: 1:CAS:528:DC%2BC2cXhtFWgt7rE, PID: 24732262
-
Mondal S, Pai PP (2014) Chou's pseudo amino acid composition improves sequence-based antifreeze protein prediction. J Theor Biol 356:30–35
-
(2014)
J Theor Biol
, vol.356
, pp. 30-35
-
-
Mondal, S.1
Pai, P.P.2
-
42
-
-
70949106297
-
Exploiting amino acid composition for predicting protein-protein interactions
-
PID: 19936254
-
Roy S, Martinez D et al (2009) Exploiting amino acid composition for predicting protein-protein interactions. PLoS One 4:e7813
-
(2009)
PLoS One
, vol.4
, pp. 7813
-
-
Roy, S.1
Martinez, D.2
-
43
-
-
0035878724
-
Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements
-
PID: 11452024
-
Schäffer AA, Aravind L et al (2001) Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements. Nucleic Acids Res 29:2994–3005
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 2994-3005
-
-
Schäffer, A.A.1
Aravind, L.2
-
44
-
-
70350160201
-
Simultaneous freeze tolerance and avoidance in individual fungus gnats, Exechia nugatoria
-
PID: 19495776
-
Sformo T, Kohl F et al (2009) Simultaneous freeze tolerance and avoidance in individual fungus gnats, Exechia nugatoria. J Comp Physiol B 179:897–902
-
(2009)
J Comp Physiol B
, vol.179
, pp. 897-902
-
-
Sformo, T.1
Kohl, F.2
-
45
-
-
37549004451
-
PseAAC: a flexible web server for generating various kinds of protein pseudo amino acid composition
-
COI: 1:CAS:528:DC%2BD1cXivVGqsw%3D%3D, PID: 17976365
-
Shen HB, Chou KC (2008) PseAAC: a flexible web server for generating various kinds of protein pseudo amino acid composition. Anal Biochem 373:386–388
-
(2008)
Anal Biochem
, vol.373
, pp. 386-388
-
-
Shen, H.B.1
Chou, K.C.2
-
46
-
-
0030925920
-
Pfam: a comprehensive database of protein domain families based on seed alignments
-
COI: 1:CAS:528:DyaK2sXksVCgsLo%3D, PID: 9223186
-
Sonnhammer EL, Eddy SR et al (1997) Pfam: a comprehensive database of protein domain families based on seed alignments. Proteins 28:405–420
-
(1997)
Proteins
, vol.28
, pp. 405-420
-
-
Sonnhammer, E.L.1
Eddy, S.R.2
-
48
-
-
0027215340
-
DNA and peptide sequences and chemical processes multivariately modelled by principal component analysis and partial least-squares projections to latent structures
-
COI: 1:CAS:528:DyaK3sXksVait74%3D
-
Wold S, Jonsson J et al (1993) DNA and peptide sequences and chemical processes multivariately modelled by principal component analysis and partial least-squares projections to latent structures. Anal Chim Acta 277:239–253
-
(1993)
Anal Chim Acta
, vol.277
, pp. 239-253
-
-
Wold, S.1
Jonsson, J.2
-
49
-
-
84875074764
-
iAMP-2L: a two-level multi-label classifier for identifying antimicrobial peptides and their functional types
-
COI: 1:CAS:528:DC%2BC3sXlsFehtrs%3D, PID: 23395824
-
Xiao X, Wang P et al (2013) iAMP-2L: a two-level multi-label classifier for identifying antimicrobial peptides and their functional types. Anal Biochem 436:168–177
-
(2013)
Anal Biochem
, vol.436
, pp. 168-177
-
-
Xiao, X.1
Wang, P.2
-
50
-
-
84885156363
-
iSNO-AAPair: incorporating amino acid pairwise coupling into PseAAC for predicting cysteine S-nitrosylation sites in proteins
-
PID: 24109555
-
Xu Y, Shao XJ, Wu LY, Deng NY, Chou KC (2013) iSNO-AAPair: incorporating amino acid pairwise coupling into PseAAC for predicting cysteine S-nitrosylation sites in proteins. PeerJ 1:e171
-
(2013)
PeerJ
, vol.1
, pp. 171
-
-
Xu, Y.1
Shao, X.J.2
Wu, L.Y.3
Deng, N.Y.4
Chou, K.C.5
-
51
-
-
84905982402
-
iNitro-Tyr: prediction of nitrotyrosine sites in proteins with general pseudo amino acid composition
-
PID: 25121969
-
Xu Y, Wen X et al (2014) iNitro-Tyr: prediction of nitrotyrosine sites in proteins with general pseudo amino acid composition. PLoS One 9:e105018
-
(2014)
PLoS One
, vol.9
, pp. 105018
-
-
Xu, Y.1
Wen, X.2
-
52
-
-
79957871406
-
Identification of antifreeze proteins and their functional residues by support vector machine and genetic algorithms based on n-peptide compositions
-
COI: 1:CAS:528:DC%2BC3MXntFWks7Y%3D, PID: 21655262
-
Yu C-S, Lu C-H (2011) Identification of antifreeze proteins and their functional residues by support vector machine and genetic algorithms based on n-peptide compositions. PLoS One 6:e20445
-
(2011)
PLoS One
, vol.6
, pp. 20445
-
-
Yu, C.-S.1
Lu, C.-H.2
-
53
-
-
84870860627
-
Enhancing membrane protein subcellular localization prediction by parallel fusion of multi-view features
-
PID: 22875262
-
Yu D, Wu X et al (2012) Enhancing membrane protein subcellular localization prediction by parallel fusion of multi-view features. IEEE Trans Nanobioscience 11:375–385
-
(2012)
IEEE Trans Nanobioscience
, vol.11
, pp. 375-385
-
-
Yu, D.1
Wu, X.2
-
54
-
-
84876673548
-
Learning protein multi-view features in complex space
-
COI: 1:CAS:528:DC%2BC3sXlvVCis7k%3D, PID: 23456487
-
Yu D-J, Hu J et al (2013) Learning protein multi-view features in complex space. Amino Acids 44:1365–1379
-
(2013)
Amino Acids
, vol.44
, pp. 1365-1379
-
-
Yu, D.-J.1
Hu, J.2
-
55
-
-
84863240433
-
Using support vector machine and evolutionary profiles to predict antifreeze protein sequences
-
COI: 1:CAS:528:DC%2BC38Xjtlagtbo%3D, PID: 22408447
-
Zhao X, Ma Z et al (2012) Using support vector machine and evolutionary profiles to predict antifreeze protein sequences. Int J Mol Sci 13:2196–2207
-
(2012)
Int J Mol Sci
, vol.13
, pp. 2196-2207
-
-
Zhao, X.1
Ma, Z.2
-
56
-
-
84911005715
-
A multi-label classifier for prediction membrane protein functional types in animal
-
COI: 1:CAS:528:DC%2BC2cXhtlamsrfP, PID: 25107302
-
Zou H-L (2014) A multi-label classifier for prediction membrane protein functional types in animal. J Membr Biol 247:1141–1148
-
(2014)
J Membr Biol
, vol.247
, pp. 1141-1148
-
-
Zou, H.-L.1
|