-
1
-
-
85100136808
-
Global programme to eliminate lymphatic filariasis
-
World Health Organization
-
World Health Organization. Global programme to eliminate lymphatic filariasis. Wkly. Epidemiol. Rec. 2011, 86, 518-588.
-
(2011)
Wkly. Epidemiol. Rec
, vol.86
, pp. 518-588
-
-
-
2
-
-
13644251915
-
Homologs of the Brugia malayi diagnostic antigen BmR1 are present in other filarial parasites but induce different humoral immune responses
-
Noordin, R.; Aziz, R.; Ravindran, B. Homologs of the Brugia malayi diagnostic antigen BmR1 are present in other filarial parasites but induce different humoral immune responses. Filaria J. 2004, 3, 10.
-
(2004)
Filaria J
, vol.3
, pp. 10
-
-
Noordin, R.1
Aziz, R.2
Ravindran, B.3
-
3
-
-
37849028316
-
Multicentre evaluations of two new rapid IgG4 tests (WB rapid and panLF rapid) for detection of lymphatic filariasis
-
Noordin, R.; Itoh, M.; Kimura, E.; Abdul Rahman, R.; Ravindran, B.; Mahmud, R.; Supali, T.; Weerasooriya, M. Multicentre evaluations of two new rapid IgG4 tests (WB rapid and panLF rapid) for detection of lymphatic filariasis. Filaria J. 2007, 6, 9.
-
(2007)
Filaria J
, vol.6
, pp. 9
-
-
Noordin, R.1
Itoh, M.2
Kimura, E.3
Abdul, R.R.4
Ravindran, B.5
Mahmud, R.6
Supali, T.7
Weerasooriya, M.8
-
4
-
-
37849011353
-
Pan LF-ELISA using BmR1 and BmSXP recombinant antigens for detection of lymphatic filariasis
-
Abdul Rahman, R.; Hwen-Yee, C.; Noordin, R. Pan LF-ELISA using BmR1 and BmSXP recombinant antigens for detection of lymphatic filariasis. Filaria J. 2007, 6, 10.
-
(2007)
Filaria J
, vol.6
, pp. 10
-
-
Abdul, R.R.1
Hwen-Yee, C.2
Noordin, R.3
-
5
-
-
77954287478
-
Protein annotation and modelling servers at University College London
-
Buchan, D.W.A.; Ward, S.M.; Lobley, A.E.; Nugent, T.C.O.; Bryson, K.; Jones, D.T. Protein annotation and modelling servers at University College London. Nucleic Acids Res. 2010, 38, W563-W568.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Buchan, D.W.A.1
Ward, S.M.2
Lobley, A.E.3
Nugent, T.C.O.4
Bryson, K.5
Jones, D.T.6
-
6
-
-
48449106792
-
The Jpred 3 secondary structure prediction server
-
Cole, C.; Barber, J.D.; Barton, G.J. The Jpred 3 secondary structure prediction server. Nucleic Acids Res. 2008, 36, W197-W201.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Cole, C.1
Barber, J.D.2
Barton, G.J.3
-
7
-
-
23144465987
-
A protein structure and structural feature prediction server
-
Cheng, J.; Randall, A.Z.; Sweredoski, M.J.; Baldi, P. SCRATCH: A protein structure and structural feature prediction server. Nucleic Acids Res. 2005, 33, W72-W76.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Cheng, J.1
Randall, A.Z.2
Sweredoski, M.J.3
Baldi, P.S.4
-
8
-
-
17444397116
-
Porter: A new, accurate server for protein secondary structure prediction
-
Pollastri, G.; McLysaght, A. Porter: A new, accurate server for protein secondary structure prediction. Bioinformatics 2005, 21, 1719-1720.
-
(2005)
Bioinformatics
, vol.21
, pp. 1719-1720
-
-
Pollastri, G.1
McLysaght, A.2
-
9
-
-
3242887525
-
A web server for secondary structure assignment from known atomic coordinates of proteins
-
Heinig, M.; Frishman, D. STRIDE: A web server for secondary structure assignment from known atomic coordinates of proteins. Nucleic Acids Res. 2004, 32, W500-W502.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Heinig, M.1
Frishman, D.S.2
-
10
-
-
0033873929
-
Comparative protein structure modeling of genes and genomes
-
Martí-Renom, M.A.; Stuart, A.C.; Fiser, A.; Sánchez, R.; Melo, F.; Šali, A. Comparative protein structure modeling of genes and genomes. Annu. Rev. Biophys. Biomol. Struct. 2000, 29, 291-325.
-
(2000)
Annu. Rev. Biophys. Biomol. Struct
, vol.29
, pp. 291-325
-
-
Martí-Renom, M.A.1
Stuart, A.C.2
Fiser, A.3
Sánchez, R.4
Melo, F.5
Šali, A.6
-
11
-
-
80855147432
-
Automated protein structure modeling in CASP9 by I-TASSER pipeline combined with QUARK-based ab initio folding and FG-MD-based structure refinement
-
Xu, D.; Zhang, J.; Roy, A.; Zhang, Y. Automated protein structure modeling in CASP9 by I-TASSER pipeline combined with QUARK-based ab initio folding and FG-MD-based structure refinement. Proteins Struct. Funct. Bioinform. 2011, 79 (Suppl. S10), 147-160.
-
(2011)
Proteins Struct. Funct. Bioinform
, vol.79
, Issue.SUPPL. S10
, pp. 147-160
-
-
Xu, D.1
Zhang, J.2
Roy, A.3
Zhang, Y.4
-
12
-
-
10744230917
-
Automated prediction of CASP-5 structures using the Robetta server
-
Chivian, D.; Kim, D.E.; Malmström, L.; Bradley, P.; Robertson, T.; Murphy, P.; Strauss, C.E.M.; Bonneau, R.; Rohl, C.A.; Baker, D. Automated prediction of CASP-5 structures using the Robetta server. Proteins Struct. Funct. Bioinform. 2003, 53, 524-533.
-
(2003)
Proteins Struct. Funct. Bioinform
, vol.53
, pp. 524-533
-
-
Chivian, D.1
Kim, D.E.2
Malmström, L.3
Bradley, P.4
Robertson, T.5
Murphy, P.6
Strauss, C.E.M.7
Bonneau, R.8
Rohl, C.A.9
Baker, D.10
-
13
-
-
30344443955
-
Prediction of CASP6 structures using automated Robetta protocols
-
Chivian, D.; Kim, D.E.; Malmström, L.; Schonbrun, J.; Rohl, C.A.; Baker, D. Prediction of CASP6 structures using automated Robetta protocols. Proteins Struct. Funct. Bioinform. 2005, 61, 157-166.
-
(2005)
Proteins Struct. Funct. Bioinform
, vol.61
, pp. 157-166
-
-
Chivian, D.1
Kim, D.E.2
Malmström, L.3
Schonbrun, J.4
Rohl, C.A.5
Baker, D.6
-
14
-
-
0035703089
-
Rosetta in CASP4: Progress in ab initio protein structure prediction
-
Bonneau, R.; Tsai, J.; Ruczinski, I.; Chivian, D.; Rohl, C.; Strauss, C.E.M.; Baker, D. Rosetta in CASP4: Progress in ab initio protein structure prediction. Proteins Struct. Funct. Bioinform. 2001, 45, 119-126.
-
(2001)
Proteins Struct. Funct. Bioinform
, vol.45
, pp. 119-126
-
-
Bonneau, R.1
Tsai, J.2
Ruczinski, I.3
Chivian, D.4
Rohl, C.5
Strauss, C.E.M.6
Baker, D.7
-
15
-
-
39449115394
-
I-TASSER server for protein 3D structure prediction
-
Zhang, Y. I-TASSER server for protein 3D structure prediction. BMC Bioinform. 2008, 9, 40.
-
(2008)
BMC Bioinform
, vol.9
, pp. 40
-
-
Zhang, Y.1
-
16
-
-
33845678630
-
Bhageerath: An energy based web enabled computer software suite for limiting the search space of tertiary structures of small globular proteins
-
Jayaram, B.; Bhushan, K.; Shenoy, S.R.; Narang, P.; Bose, S.; Agrawal, P.; Sahu, D.; Pandey, V. Bhageerath: An energy based web enabled computer software suite for limiting the search space of tertiary structures of small globular proteins. Nucleic Acids Res. 2006, 34, 6195-6204.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 6195-6204
-
-
Jayaram, B.1
Bhushan, K.2
Shenoy, S.R.3
Narang, P.4
Bose, S.5
Agrawal, P.6
Sahu, D.7
Pandey, V.8
-
17
-
-
0000243829
-
PROCHECK: A program to check the stereochemical quality of protein structures
-
Laskowski, R.A.; MacArthur, M.W.; Moss, D.S.; Thornton, J.M. PROCHECK: A program to check the stereochemical quality of protein structures. J. Appl. Crystallogr. 1993, 26, 283-291.
-
(1993)
J. Appl. Crystallogr
, vol.26
, pp. 283-291
-
-
Laskowski, R.A.1
Macarthur, M.W.2
Moss, D.S.3
Thornton, J.M.4
-
18
-
-
0030767485
-
VERIFY3D: Assessment of protein models with three-dimensional profiles
-
Eisenberg, D.; Lüthy, R.; Bowie, J.U. VERIFY3D: Assessment of protein models with three-dimensional profiles. Methods Enzymol. 1997, 277, 396-404.
-
(1997)
Methods Enzymol
, vol.277
, pp. 396-404
-
-
Eisenberg, D.1
Lüthy, R.2
Bowie, J.U.3
-
19
-
-
0027180507
-
Verification of protein structures: Patterns of nonbonded atomic interactions
-
Colovos, C.; Yeates, T.O. Verification of protein structures: Patterns of nonbonded atomic interactions. Protein Sci. 1993, 2, 1511-1519.
-
(1993)
Protein Sci
, vol.2
, pp. 1511-1519
-
-
Colovos, C.1
Yeates, T.O.2
-
20
-
-
77954293798
-
CPHmodels-3.0-Remote homology modeling using structure-guided sequence profiles
-
Nielsen, M.; Lundegaard, C.; Lund, O.; Petersen, T.N. CPHmodels-3.0-Remote homology modeling using structure-guided sequence profiles. Nucleic Acids Res. 2010, 38, W576-W581.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Nielsen, M.1
Lundegaard, C.2
Lund, O.3
Petersen, T.N.4
-
21
-
-
34547566446
-
ProSA-web: Interactive web service for the recognition of errors in three-dimensional structures of proteins
-
Wiederstein, M.; Sippl, M.J. ProSA-web: Interactive web service for the recognition of errors in three-dimensional structures of proteins. Nucleic Acids Res. 2007, 35, W407-W410.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Wiederstein, M.1
Sippl, M.J.2
-
22
-
-
0032540222
-
Assessing protein structures with a non-local atomic interaction energy
-
Melo, F.; Feytmans, E. Assessing protein structures with a non-local atomic interaction energy. J. Mol. Biol. 1998, 277, 1141-1152.
-
(1998)
J. Mol. Biol
, vol.277
, pp. 1141-1152
-
-
Melo, F.1
Feytmans, E.2
-
23
-
-
61449229355
-
Protein structure homology modeling using SWISS-MODEL workspace
-
Bordoli, L.; Kiefer, F.; Arnold, K.; Benkert, P.; Battey, J.; Schwede, T. Protein structure homology modeling using SWISS-MODEL workspace. Nat. Protoc. 2008, 4, 1-13.
-
(2008)
Nat. Protoc
, vol.4
, pp. 1-13
-
-
Bordoli, L.1
Kiefer, F.2
Arnold, K.3
Benkert, P.4
Battey, J.5
Schwede, T.6
-
24
-
-
0037261324
-
De novo backbone and sequence design of an idealized α/β-barrel protein: Evidence of stable tertiary structure
-
Offredi, F.; Dubail, F.; Kischel, P.; Sarinski, K.; Stern, A.S.; van de Weerdt, C.; Hoch, J.C.; Prosperi, C.; François, J.M.; Mayo, S.L. et al. De novo backbone and sequence design of an idealized α/β-barrel protein: Evidence of stable tertiary structure. J. Mol. Biol. 2003, 325, 163-174.
-
(2003)
J. Mol. Biol
, vol.325
, pp. 163-174
-
-
Offredi, F.1
Dubail, F.2
Kischel, P.3
Sarinski, K.4
Stern, A.S.5
van de Weerdt, C.6
Hoch, J.C.7
Prosperi, C.8
François, J.M.9
Mayo, S.L.10
-
25
-
-
13444249988
-
STRING: Known and predicted protein-protein associations, integrated and transferred across organisms
-
Von Mering, C.; Jensen, L.J.; Snel, B.; Hooper, S.D.; Krupp, M.; Foglierini, M.; Jouffre, N.; Huynen, M.A.; Bork, P. STRING: Known and predicted protein-protein associations, integrated and transferred across organisms. Nucleic Acids Res. 2005, 33, D433-D437.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
von Mering, C.1
Jensen, L.J.2
Snel, B.3
Hooper, S.D.4
Krupp, M.5
Foglierini, M.6
Jouffre, N.7
Huynen, M.A.8
Bork, P.9
-
26
-
-
84876588470
-
New and continuing developments at PROSITE
-
Sigrist, C.J.A.; de Castro, E.; Cerutti, L.; Cuche, B.A.; Hulo, N.; Bridge, A.; Bougueleret, L.; Xenarios, I. New and continuing developments at PROSITE. Nucleic Acids Res. 2013, 41, D344-D347.
-
(2013)
Nucleic Acids Res
, vol.41
-
-
Sigrist, C.J.A.1
de Castro, E.2
Cerutti, L.3
Cuche, B.A.4
Hulo, N.5
Bridge, A.6
Bougueleret, L.7
Xenarios, I.8
-
27
-
-
22544441094
-
ProFunc: A server for predicting protein function from 3D structure
-
Laskowski, R.A.; Watson, J.D.; Thornton, J.M. ProFunc: A server for predicting protein function from 3D structure. Nucleic Acids Res. 2005, 33, W89-W93.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Laskowski, R.A.1
Watson, J.D.2
Thornton, J.M.3
-
28
-
-
77249173864
-
The C-terminal lysine of Ogg2 DNA glycosylases is a major molecular determinant for guanine/8-oxoguanine distinction
-
Faucher, F.; Wallace, S.S.; Doublié, S. The C-terminal lysine of Ogg2 DNA glycosylases is a major molecular determinant for guanine/8-oxoguanine distinction. J. Mol. Biol. 2010, 397, 46-56.
-
(2010)
J. Mol. Biol
, vol.397
, pp. 46-56
-
-
Faucher, F.1
Wallace, S.S.2
Doublié, S.3
-
29
-
-
65149095677
-
Crystal structures of two archaeal 8-oxoguanine DNA glycosylases provide structural insight into guanine/8-oxoguanine distinction
-
Faucher, F.; Duclos, S.; Bandaru, V.; Wallace, S.S.; Doublié, S. Crystal structures of two archaeal 8-oxoguanine DNA glycosylases provide structural insight into guanine/8-oxoguanine distinction. Structure 2009, 17, 703-712.
-
(2009)
Structure
, vol.17
, pp. 703-712
-
-
Faucher, F.1
Duclos, S.2
Bandaru, V.3
Wallace, S.S.4
Doublié, S.5
-
30
-
-
48549093368
-
MSDmotif: Exploring protein sites and motifs
-
Golovin, A.; Henrick, K. MSDmotif: Exploring protein sites and motifs. BMC Bioinform. 2008, 9, 312.
-
(2008)
BMC Bioinform
, vol.9
, pp. 312
-
-
Golovin, A.1
Henrick, K.2
-
31
-
-
0043122944
-
ExPASy: The proteomics server for in-depth protein knowledge and analysis
-
Gasteiger, E.; Gattiker, A.; Hoogland, C.; Ivanyi, I.; Appel, R.D.; Bairoch, A. ExPASy: The proteomics server for in-depth protein knowledge and analysis. Nucleic Acids Res. 2003, 31, 3784-3788.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3784-3788
-
-
Gasteiger, E.1
Gattiker, A.2
Hoogland, C.3
Ivanyi, I.4
Appel, R.D.5
Bairoch, A.6
-
32
-
-
58049187138
-
ElliPro: A new structure-based tool for the prediction of antibody epitopes
-
Ponomarenko, J.; Bui, H.-H.; Li, W.; Fusseder, N.; Bourne, P.; Sette, A.; Peters, B. ElliPro: A new structure-based tool for the prediction of antibody epitopes. BMC Bioinform. 2008, 9, 514.
-
(2008)
BMC Bioinform
, vol.9
, pp. 514
-
-
Ponomarenko, J.1
Bui, H.-H.2
Li, W.3
Fusseder, N.4
Bourne, P.5
Sette, A.6
Peters, B.7
-
33
-
-
58049179749
-
Predicting flexible length linear B-cell epitopes
-
Yasser, E.-M.; Dobbs, D.; Honavar, V. Predicting flexible length linear B-cell epitopes. Comput. Syst. Bioinform. Conf. 2008, 7, 121-132.
-
(2008)
Comput. Syst. Bioinform. Conf
, vol.7
, pp. 121-132
-
-
Yasser, E.-M.1
Dobbs, D.2
Honavar, V.3
-
34
-
-
34548301416
-
Prediction of linear B-cell epitopes using amino acid pair antigenicity scale
-
Chen, J.; Liu, H.; Yang, J.; Chou, K.C. Prediction of linear B-cell epitopes using amino acid pair antigenicity scale. Amino Acids 2007, 33, 423-428.
-
(2007)
Amino Acids
, vol.33
, pp. 423-428
-
-
Chen, J.1
Liu, H.2
Yang, J.3
Chou, K.C.4
-
35
-
-
33751104704
-
Improved method for predicting linear B-cell epitopes
-
Larsen, J.; Lund, O.; Nielsen, M. Improved method for predicting linear B-cell epitopes. Immunome Res. 2006, 2, 2.
-
(2006)
Immunome Res
, vol.2
, pp. 2
-
-
Larsen, J.1
Lund, O.2
Nielsen, M.3
-
36
-
-
84872049601
-
Reliable B cell epitope predictions: Impacts of method development and improved benchmarking
-
Kringelum, J.V.; Lundegaard, C.; Lund, O.; Nielsen, M. Reliable B cell epitope predictions: Impacts of method development and improved benchmarking. PLoS Comput. Biol. 2012, 8, e1002829.
-
(2012)
PLoS Comput. Biol
, vol.8
-
-
Kringelum, J.V.1
Lundegaard, C.2
Lund, O.3
Nielsen, M.4
-
37
-
-
33751099863
-
Prediction of residues in discontinuous B-cell epitopes using protein 3D structures
-
Haste Andersen, P.; Nielsen, M.; Lund, O. Prediction of residues in discontinuous B-cell epitopes using protein 3D structures. Protein Sci. 2006, 15, 2558-2567.
-
(2006)
Protein Sci
, vol.15
, pp. 2558-2567
-
-
Haste Andersen, P.1
Nielsen, M.2
Lund, O.3
-
38
-
-
84864485292
-
ProBiS-2012: Web server and web services for detection of structurally similar binding sites in proteins
-
Konc, J.; Janežič, D. ProBiS-2012: Web server and web services for detection of structurally similar binding sites in proteins. Nucleic Acids Res. 2012, 40, W214-W221.
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Konc, J.1
Janežič, D.2
-
39
-
-
38049034590
-
Comparative protein structure modeling using Modeller
-
John Wiley & Sons, Inc.: Hoboken, NJ, USA
-
Eswar, N.; Webb, B.; Marti-Renom, M.A.; Madhusudhan, M.S.; Eramian, D.; Shen, M.; Pieper, U.; Sali, A. Comparative protein structure modeling using Modeller. In Current Protocols in Bioinformatics; John Wiley & Sons, Inc.: Hoboken, NJ, USA, 2002.
-
(2002)
Current Protocols In Bioinformatics
-
-
Eswar, N.1
Webb, B.2
Marti-Renom, M.A.3
Madhusudhan, M.S.4
Eramian, D.5
Shen, M.6
Pieper, U.7
Sali, A.8
-
40
-
-
79953281433
-
Structural and functional studies of a 50 kda antigenic protein from Salmonella enterica serovar Typhi
-
Choong, Y.S.; Lim, T.S.; Chew, A.L.; Aziah, I.; Ismail, A. Structural and functional studies of a 50 kda antigenic protein from Salmonella enterica serovar Typhi. J. Mol. Graph. Model. 2011, 29, 834-842.
-
(2011)
J. Mol. Graph. Model
, vol.29
, pp. 834-842
-
-
Choong, Y.S.1
Lim, T.S.2
Chew, A.L.3
Aziah, I.4
Ismail, A.5
-
41
-
-
0037339236
-
Detection of unrelated proteins in sequences multiple alignments by using predicted secondary structures
-
Errami, M.; Geourjon, C.; Deléage, G. Detection of unrelated proteins in sequences multiple alignments by using predicted secondary structures. Bioinformatics 2003, 19, 506-512.
-
(2003)
Bioinformatics
, vol.19
, pp. 506-512
-
-
Errami, M.1
Geourjon, C.2
Deléage, G.3
-
42
-
-
61849129612
-
Combination of several bioinformatics approaches for the identification of new putative glycosyltransferases in arabidopsis
-
Hansen, S.F.; Bettler, E.; Wimmerová, M.; Imberty, A.; Lerouxel, O.; Breton, C. Combination of several bioinformatics approaches for the identification of new putative glycosyltransferases in arabidopsis. J. Proteome Res. 2008, 8, 743-753.
-
(2008)
J. Proteome Res
, vol.8
, pp. 743-753
-
-
Hansen, S.F.1
Bettler, E.2
Wimmerová, M.3
Imberty, A.4
Lerouxel, O.5
Breton, C.6
-
43
-
-
80054685109
-
Critical assessment of methods of protein structure prediction (CASP)-Round ix
-
Moult, J.; Fidelis, K.; Kryshtafovych, A.; Tramontano, A. Critical assessment of methods of protein structure prediction (CASP)-Round ix. Proteins Struct. Funct. Bioinform. 2011, 79, 1-5.
-
(2011)
Proteins Struct. Funct. Bioinform
, vol.79
, pp. 1-5
-
-
Moult, J.1
Fidelis, K.2
Kryshtafovych, A.3
Tramontano, A.4
-
44
-
-
49649114605
-
Protein structure modeling with MODELLER
-
Kobe, B., Guss, M., Huber, T., Eds.; Humana Press: New York City, NY, USA
-
Eswar, N.; Eramian, D.; Webb, B.; Shen, M.-Y.; Sali, A. Protein structure modeling with MODELLER. In Structural Proteomics; Kobe, B., Guss, M., Huber, T., Eds.; Humana Press: New York City, NY, USA, 2008; Volume 426, pp. 145-159.
-
(2008)
Structural Proteomics
, vol.426
, pp. 145-159
-
-
Eswar, N.1
Eramian, D.2
Webb, B.3
Shen, M.-Y.4
Sali, A.5
-
45
-
-
84873864473
-
Exoproteome and secretome derived broad spectrum novel drug and vaccine candidates in Vibrio cholerae targeted by piper betel/derived compounds
-
Barh, D.; Barve, N.; Gupta, K.; Chandra, S.; Jain, N.; Tiwari, S.; Leon-Sicairos, N.; Canizalez-Roman, A.; Rodrigues dos Santos, A.; Hassan, S.S. et al. Exoproteome and secretome derived broad spectrum novel drug and vaccine candidates in Vibrio cholerae targeted by piper betel/derived compounds. PLoS One 2013, 8, e52773.
-
(2013)
PLoS One
, vol.8
-
-
Barh, D.1
Barve, N.2
Gupta, K.3
Chandra, S.4
Jain, N.5
Tiwari, S.6
Leon-Sicairos, N.7
Canizalez-Roman, A.8
Rodrigues, S.A.9
Hassan, S.S.10
-
46
-
-
32144432437
-
The SWISS-MODEL workspace: A web-based environment for protein structure homology modelling
-
Arnold, K.; Bordoli, L.; Kopp, J.; Schwede, T. The SWISS-MODEL workspace: A web-based environment for protein structure homology modelling. Bioinformatics 2006, 22, 195-201.
-
(2006)
Bioinformatics
, vol.22
, pp. 195-201
-
-
Arnold, K.1
Bordoli, L.2
Kopp, J.3
Schwede, T.4
-
47
-
-
0035747672
-
Enhancement of protein modeling by human intervention in applying the automatic programs 3D-JIGSAW and 3D-PSSM
-
Bates, P.A.; Kelley, L.A.; MacCallum, R.M.; Sternberg, M.J.E. Enhancement of protein modeling by human intervention in applying the automatic programs 3D-JIGSAW and 3D-PSSM. Proteins Struct. Funct. Bioinform. 2001, 45, 39-46.
-
(2001)
Proteins Struct. Funct. Bioinform
, vol.45
, pp. 39-46
-
-
Bates, P.A.1
Kelley, L.A.2
Maccallum, R.M.3
Sternberg, M.J.E.4
-
48
-
-
0036740806
-
ESyPred3D: Prediction of proteins 3D structures
-
Lambert, C.; Léonard, N.; de Bolle, X.; Depiereux, E. ESyPred3D: Prediction of proteins 3D structures. Bioinformatics 2002, 18, 1250-1256.
-
(2002)
Bioinformatics
, vol.18
, pp. 1250-1256
-
-
Lambert, C.1
Léonard, N.2
de Bolle, X.3
Depiereux, E.4
-
49
-
-
0036172167
-
Geno3D: Automatic comparative molecular modelling of protein
-
Combet, C.; Jambon, M.; Deléage, G.; Geourjon, C. Geno3D: Automatic comparative molecular modelling of protein. Bioinformatics 2002, 18, 213-214.
-
(2002)
Bioinformatics
, vol.18
, pp. 213-214
-
-
Combet, C.1
Jambon, M.2
Deléage, G.3
Geourjon, C.4
-
50
-
-
84863864586
-
Accurate prediction of protein structural classes using functional domains and predicted secondary structure sequences
-
Ahmadi Adl, A.; Nowzari-Dalini, A.; Xue, B.; Uversky, V.N.; Qian, X. Accurate prediction of protein structural classes using functional domains and predicted secondary structure sequences. J. Biomol. Struct. Dyn. 2012, 29, 1127-1137.
-
(2012)
J. Biomol. Struct. Dyn
, vol.29
, pp. 1127-1137
-
-
Ahmadi, A.A.1
Nowzari-Dalini, A.2
Xue, B.3
Uversky, V.N.4
Qian, X.5
-
51
-
-
78649774404
-
Improving protein secondary structure prediction based on short subsequences with local structure similarity
-
Lin, H.-N.; Sung, T.-Y.; Ho, S.-Y.; Hsu, W.-L. Improving protein secondary structure prediction based on short subsequences with local structure similarity. BMC Genomics 2010, 11, S4.
-
(2010)
BMC Genomics
, vol.11
-
-
Lin, H.-N.1
Sung, T.-Y.2
Ho, S.-Y.3
Hsu, W.-L.4
-
52
-
-
84864032316
-
In Protein secondary structure prediction using blast and exhaustive rt-rico, the search for optimal segment length and threshold. In Proceedings of the
-
San Diego, CA, USA, 9-12 May
-
Lee, L.; Leopold, J.L.; Frank, R.L. In Protein secondary structure prediction using blast and exhaustive rt-rico, the search for optimal segment length and threshold. In Proceedings of the 2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB), San Diego, CA, USA, 9-12 May 2012; pp. 35-42.
-
(2012)
IEEE Symposium On Computational Intelligence In Bioinformatics and Computational Biology (CIBCB)
, pp. 35-42
-
-
Lee, L.1
Leopold, J.L.2
Frank, R.L.3
-
53
-
-
0036069148
-
The FAR proteins of filarial nematodes: Secretion, glycosylation and lipid binding characteristics
-
Garofalo, A.; Kläger, S.L.; Rowlinson, M.-C.; Nirmalan, N.; Klion, A.; Allen, J.E.; Kennedy, M.W.; Bradley, J.E. The FAR proteins of filarial nematodes: Secretion, glycosylation and lipid binding characteristics. Mol. Biochem. Parasitol. 2002, 122, 161-170.
-
(2002)
Mol. Biochem. Parasitol
, vol.122
, pp. 161-170
-
-
Garofalo, A.1
Kläger, S.L.2
Rowlinson, M.-C.3
Nirmalan, N.4
Klion, A.5
Allen, J.E.6
Kennedy, M.W.7
Bradley, J.E.8
-
54
-
-
0034623005
-
T-Coffee: A novel method for fast and accurate multiple sequence alignment
-
Notredame, C.; Higgins, D.G.; Heringa, J. T-Coffee: A novel method for fast and accurate multiple sequence alignment. J. Mol. Biol. 2000, 302, 205-217.
-
(2000)
J. Mol. Biol
, vol.302
, pp. 205-217
-
-
Notredame, C.1
Higgins, D.G.2
Heringa, J.3
-
55
-
-
84878768610
-
Molecular characterization and functions of fatty acid and retinoid binding protein gene (Ab-far-1) in Aphelenchoides besseyi
-
Cheng, X.; Xiang, Y.; Xie, H.; Xu, C.-L.; Xie, T.-F.; Zhang, C.; Li, Y. Molecular characterization and functions of fatty acid and retinoid binding protein gene (Ab-far-1) in Aphelenchoides besseyi. PLoS One 2013, 8, e66011.
-
(2013)
PLoS One
, vol.8
-
-
Cheng, X.1
Xiang, Y.2
Xie, H.3
Xu, C.-L.4
Xie, T.-F.5
Zhang, C.6
Li, Y.7
-
56
-
-
85067773033
-
The potential role of binding proteins in human parasitic infections: An in-depth look at the novel family of nematode-specific fatty acid and retinol binding proteins
-
Abdelmohsen, K., Ed.; InTech: Rijeka, Croatia
-
Jennifer, L.B.; Amber, E.F. The potential role of binding proteins in human parasitic infections: An in-depth look at the novel family of nematode-specific fatty acid and retinol binding proteins. In Binding Protein; Abdelmohsen, K., Ed.; InTech: Rijeka, Croatia, 2012.
-
(2012)
Binding Protein
-
-
Jennifer, L.B.1
Amber, E.F.2
-
57
-
-
70349776075
-
Characterisation of a fatty acid and retinol binding protein orthologue from the hookworm Ancylostoma ceylanicum
-
Fairfax, K.C.; Vermeire, J.J.; Harrison, L.M.; Bungiro, R.D.; Grant, W.; Husain, S.Z.; Cappello, M. Characterisation of a fatty acid and retinol binding protein orthologue from the hookworm Ancylostoma ceylanicum. Int. J. Parasitol. 2009, 39, 1561-1571.
-
(2009)
Int. J. Parasitol
, vol.39
, pp. 1561-1571
-
-
Fairfax, K.C.1
Vermeire, J.J.2
Harrison, L.M.3
Bungiro, R.D.4
Grant, W.5
Husain, S.Z.6
Cappello, M.7
-
58
-
-
56249104176
-
Stage and gender-specific proteomic analysis of Brugia malayi excretory-secretory products
-
Moreno, Y.; Geary, T.G. Stage and gender-specific proteomic analysis of Brugia malayi excretory-secretory products. PLoS Negl. Trop. Dis. 2008, 2, e326.
-
(2008)
PLoS Negl. Trop. Dis
, vol.2
-
-
Moreno, Y.1
Geary, T.G.2
-
59
-
-
24644503098
-
Blast2GO: A universal tool for annotation, visualization and analysis in functional genomics research
-
Conesa, A.; Götz, S.; García-Gómez, J.M.; Terol, J.; Talón, M.; Robles, M. Blast2GO: A universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 2005, 21, 3674-3676.
-
(2005)
Bioinformatics
, vol.21
, pp. 3674-3676
-
-
Conesa, A.1
Götz, S.2
García-Gómez, J.M.3
Terol, J.4
Talón, M.5
Robles, M.6
-
60
-
-
65549088510
-
Brugia malayi excreted/secreted proteins at the host/parasite interface: Stage and gender-specific proteomic profiling
-
Bennuru, S.; Semnani, R.; Meng, Z.; Ribeiro, J.M.C.; Veenstra, T.D.; Nutman, T.B. Brugia malayi excreted/secreted proteins at the host/parasite interface: Stage and gender-specific proteomic profiling. PLoS Negl. Trop. Dis. 2009, 3, e410.
-
(2009)
PLoS Negl. Trop. Dis
, vol.3
-
-
Bennuru, S.1
Semnani, R.2
Meng, Z.3
Ribeiro, J.M.C.4
Veenstra, T.D.5
Nutman, T.B.6
-
61
-
-
72149128900
-
Fatty acid and retinoid-binding proteins have distinct binding pockets for the two types of cargo
-
Jordanova, R.; Groves, M.R.; Kostova, E.; Woltersdorf, C.; Liebau, E.; Tucker, P.A. Fatty acid and retinoid-binding proteins have distinct binding pockets for the two types of cargo. J. Biol. Chem. 2009, 284, 35818-35826.
-
(2009)
J. Biol. Chem
, vol.284
, pp. 35818-35826
-
-
Jordanova, R.1
Groves, M.R.2
Kostova, E.3
Woltersdorf, C.4
Liebau, E.5
Tucker, P.A.6
-
62
-
-
0030682113
-
The Ov20 protein of the parasitic nematode Onchocerca volvulus: A structurally novel class of small helix-rich retinol-binding proteins
-
Kennedy, M.W.; Garside, L.H.; Goodrick, L.E.; McDermott, L.; Brass, A.; Price, N.C.; Kelly, S.M.; Cooper, A.; Bradley, J.E. The Ov20 protein of the parasitic nematode Onchocerca volvulus: A structurally novel class of small helix-rich retinol-binding proteins. J. Biol. Chem. 1997, 272, 29442-29448.
-
(1997)
J. Biol. Chem
, vol.272
, pp. 29442-29448
-
-
Kennedy, M.W.1
Garside, L.H.2
Goodrick, L.E.3
McDermott, L.4
Brass, A.5
Price, N.C.6
Kelly, S.M.7
Cooper, A.8
Bradley, J.E.9
-
63
-
-
0022467905
-
Antigenic determinants in proteins coincide with surface regions accessible to large probes (antibody domains)
-
Novotný, J.; Handschumacher, M.; Haber, E.; Bruccoleri, R.E.; Carlson, W.B.; Fanning, D.W.; Smith, J.A.; Rose, G.D. Antigenic determinants in proteins coincide with surface regions accessible to large probes (antibody domains). Proc. Natl. Acad. Sci. USA 1986, 83, 226-230.
-
(1986)
Proc. Natl. Acad. Sci. USA
, vol.83
, pp. 226-230
-
-
Novotný, J.1
Handschumacher, M.2
Haber, E.3
Bruccoleri, R.E.4
Carlson, W.B.5
Fanning, D.W.6
Smith, J.A.7
Rose, G.D.8
-
64
-
-
0022446684
-
Continuous and discontinuous protein antigenic determinants
-
Barlow, D.J.; Edwards, M.S.; Thornton, J.M. Continuous and discontinuous protein antigenic determinants. Nature 1986, 322, 747-748.
-
(1986)
Nature
, vol.322
, pp. 747-748
-
-
Barlow, D.J.1
Edwards, M.S.2
Thornton, J.M.3
-
66
-
-
84907249485
-
Prediction of B-cell linear epitopes with a combination of support vector machine classification and amino acid propensity identification
-
Wang, H.-W.; Lin, Y.-C.; Pai, T.-W.; Chang, H.-T. Prediction of B-cell linear epitopes with a combination of support vector machine classification and amino acid propensity identification. J. Biomed. Biotechnol. 2011, 2011, 12.
-
(2011)
J. Biomed. Biotechnol
, vol.2011
, pp. 12
-
-
Wang, H.-W.1
Lin, Y.-C.2
Pai, T.-W.3
Chang, H.-T.4
-
67
-
-
3242887157
-
CD-search: Protein domain annotations on the fly
-
Marchler-Bauer, A.; Bryant, S.H. CD-search: Protein domain annotations on the fly. Nucleic Acids Res. 2004, 32, W327-W331.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Marchler-Bauer, A.1
Bryant, S.H.2
-
68
-
-
78651285748
-
CDD: A conserved domain database for the functional annotation of proteins
-
Marchler-Bauer, A.; Lu, S.; Anderson, J.B.; Chitsaz, F.; Derbyshire, M.K.; DeWeese-Scott, C.;Fong, J.H.; Geer, L.Y.; Geer, R.C.; Gonzales, N.R. et al. CDD: A conserved domain database for the functional annotation of proteins. Nucleic Acids Res. 2011, 39, D225-D229.
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Marchler-Bauer, A.1
Lu, S.2
Anderson, J.B.3
Chitsaz, F.4
Derbyshire, M.K.5
Deweese-Scott, C.6
Fong, J.H.7
Geer, L.Y.8
Geer, R.C.9
Gonzales, N.R.10
-
69
-
-
23144458473
-
InterProScan: Protein domains identifier
-
Quevillon, E.; Silventoinen, V.; Pillai, S.; Harte, N.; Mulder, N.; Apweiler, R.; Lopez, R. InterProScan: Protein domains identifier. Nucleic Acids Res. 2005, 33, W116-W120.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Quevillon, E.1
Silventoinen, V.2
Pillai, S.3
Harte, N.4
Mulder, N.5
Apweiler, R.6
Lopez, R.7
-
70
-
-
58149194624
-
Smart 6: Recent updates and new developments
-
Letunic, I.; Doerks, T.; Bork, P. Smart 6: Recent updates and new developments. Nucleic Acids Res. 2009, 37, D229-D232.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Letunic, I.1
Doerks, T.2
Bork, P.3
-
71
-
-
75549090603
-
The Pfam protein families database
-
Finn, R.D.; Mistry, J.; Tate, J.; Coggill, P.; Heger, A.; Pollington, J.E.; Gavin, O.L.; Gunasekaran, P.; Ceric, G.; Forslund, K. et al. The Pfam protein families database. Nucleic Acids Res. 2010, 38, D211-D222.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Finn, R.D.1
Mistry, J.2
Tate, J.3
Coggill, P.4
Heger, A.5
Pollington, J.E.6
Gavin, O.L.7
Gunasekaran, P.8
Ceric, G.9
Forslund, K.10
-
72
-
-
33750077592
-
Crystal structure of Thermus caldophilus phosphoglycerate kinase in the open conformation
-
Lee, J.H.; Im, Y.J.; Bae, J.; Kim, D.; Kim, M.-K.; Kang, G.B.; Lee, D.-S.; Eom, S.H. Crystal structure of Thermus caldophilus phosphoglycerate kinase in the open conformation. Biochem. Biophys. Res. Commun. 2006, 350, 1044-1049.
-
(2006)
Biochem. Biophys. Res. Commun
, vol.350
, pp. 1044-1049
-
-
Lee, J.H.1
Im, Y.J.2
Bae, J.3
Kim, D.4
Kim, M.-K.5
Kang, G.B.6
Lee, D.-S.7
Eom, S.H.8
-
73
-
-
79959954669
-
Structure of transcription factor HetR required for heterocyst differentiation in cyanobacteria
-
Kim, Y.; Joachimiak, G.; Ye, Z.; Binkowski, T.A.; Zhang, R.; Gornicki, P.; Callahan, S.M.; Hess, W.R.; Haselkorn, R.; Joachimiak, A. Structure of transcription factor HetR required for heterocyst differentiation in cyanobacteria. Proc. Natl. Acad. Sci.USA 2011, 108, 10109-10114.
-
(2011)
Proc. Natl. Acad. Sci.USA
, vol.108
, pp. 10109-10114
-
-
Kim, Y.1
Joachimiak, G.2
Ye, Z.3
Binkowski, T.A.4
Zhang, R.5
Gornicki, P.6
Callahan, S.M.7
Hess, W.R.8
Haselkorn, R.9
Joachimiak, A.10
-
74
-
-
41149152855
-
Biochemical and structural basis for feedback inhibition of mevalonate kinase and isoprenoid metabolism
-
Fu, Z.; Voynova, N.E.; Herdendorf, T.J.; Miziorko, H.M.; Kim, J.-J.P. Biochemical and structural basis for feedback inhibition of mevalonate kinase and isoprenoid metabolism. Biochemistry 2008, 47, 3715-3724.
-
(2008)
Biochemistry
, vol.47
, pp. 3715-3724
-
-
Fu, Z.1
Voynova, N.E.2
Herdendorf, T.J.3
Miziorko, H.M.4
Kim, J.-J.P.5
-
75
-
-
3242887695
-
Protein structure prediction and analysis using the Robetta server
-
Kim, D.E.; Chivian, D.; Baker, D. Protein structure prediction and analysis using the Robetta server. Nucleic Acids Res. 2004, 32, W526-W531.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Kim, D.E.1
Chivian, D.2
Baker, D.3
-
76
-
-
84873719639
-
An overview of the Amber biomolecular simulation package
-
Salomon-Ferrer, R.; Case, D.A.; Walker, R.C. An overview of the Amber biomolecular simulation package. Wiley Interdiscip. Rev. Comput. Mol. Sci. 2013, 3, 198-210.
-
(2013)
Wiley Interdiscip. Rev. Comput. Mol. Sci
, vol.3
, pp. 198-210
-
-
Salomon-Ferrer, R.1
Case, D.A.2
Walker, R.C.3
-
77
-
-
33750587438
-
Molecular dynamics with coupling to an external bath
-
Berendsen, H.J.C.; Postma, J.P.M.; van Gunsteren, W.F.; DiNola, A.; Haak, J.R. Molecular dynamics with coupling to an external bath. J. Chem. Phys. 1984, 81, 3684-3690.
-
(1984)
J. Chem. Phys
, vol.81
, pp. 3684-3690
-
-
Berendsen, H.J.C.1
Postma, J.P.M.2
van Gunsteren, W.F.3
Dinola, A.4
Haak, J.R.5
-
78
-
-
33646940952
-
Numerical integration of the cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes
-
Ryckaert, J.-P.; Ciccotti, G.; Berendsen, H. Numerical integration of the cartesian equations of motion of a system with constraints: Molecular dynamics of n-alkanes. J. Comput. Phys. 1977, 23, 327-341.
-
(1977)
J. Comput. Phys
, vol.23
, pp. 327-341
-
-
Ryckaert, J.-P.1
Ciccotti, G.2
Berendsen, H.3
-
79
-
-
84885655034
-
Protein-ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment
-
Yang, J.; Roy, A.; Zhang, Y. Protein-ligand binding site recognition using complementary binding-specific substructure comparison and sequence profile alignment. Bioinformatics 2013, 29, 2588-2595.
-
(2013)
Bioinformatics
, vol.29
, pp. 2588-2595
-
-
Yang, J.1
Roy, A.2
Zhang, Y.3
|