-
1
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
-
Altschul, S.F. et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
-
2
-
-
18144406581
-
Solving the protein sequence metric problem
-
Atchley, W.R. et al. (2005) Solving the protein sequence metric problem. Proc. Natl Acad. Sci. USA, 102, 6395-6400.
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 6395-6400
-
-
Atchley, W.R.1
-
3
-
-
0033369033
-
Exploiting the past and the future in protein secondary structure prediction
-
Baldi, P. et al. (1999) Exploiting the past and the future in protein secondary structure prediction. Bioinformatics, 15, 937-946.
-
(1999)
Bioinformatics
, vol.15
, pp. 937-946
-
-
Baldi, P.1
-
4
-
-
33846036096
-
The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data
-
Berman, H. et al. (2007) The worldwide Protein Data Bank (wwPDB): ensuring a single, uniform archive of PDB data. Nucleic Acids Res., 35, D301-D303.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Berman, H.1
-
5
-
-
27944488680
-
Accurate prediction of protein disordered regions by mining protein structure data
-
Cheng, J. et al. (2005) Accurate prediction of protein disordered regions by mining protein structure data. Data Min. Knowl. Discov., 11, 213-222.
-
(2005)
Data Min. Knowl. Discov.
, vol.11
, pp. 213-222
-
-
Cheng, J.1
-
6
-
-
14844342815
-
The pairwise energy content estimated from amino acid composition discriminates between folded and intrinsically unstructured proteins
-
Dosztanyi, Z. et al. (2005) The pairwise energy content estimated from amino acid composition discriminates between folded and intrinsically unstructured proteins. J. Mol. Biol., 347, 827-839.
-
(2005)
J. Mol. Biol.
, vol.347
, pp. 827-839
-
-
Dosztanyi, Z.1
-
7
-
-
33750999318
-
Disorder and sequence repeats in hub proteins and their implications for network evolution
-
Dosztanyi, Z. et al. (2006) Disorder and sequence repeats in hub proteins and their implications for network evolution. J. Proteome Res., 5, 2985-2995.
-
(2006)
J. Proteome Res.
, vol.5
, pp. 2985-2995
-
-
Dosztanyi, Z.1
-
8
-
-
0034867975
-
The protein trinity-linking function and disorder
-
Dunker, A.K. and Obradovic, Z. (2001) The protein trinity-linking function and disorder. Nat. Biotechnol., 19, 805-806.
-
(2001)
Nat. Biotechnol.
, vol.19
, pp. 805-806
-
-
Dunker, A.K.1
Obradovic, Z.2
-
10
-
-
57049095821
-
Function and structure of inherently disordered proteins
-
Dunker, A.K. et al. (2008) Function and structure of inherently disordered proteins. Curr. Opin. Struct. Biol., 18, 756-764.
-
(2008)
Curr. Opin. Struct. Biol.
, vol.18
, pp. 756-764
-
-
Dunker, A.K.1
-
11
-
-
33845990277
-
Prediction of amyloidogenic and disordered regions in protein chains
-
Galzitskaya, O.V. et al. (2006) Prediction of amyloidogenic and disordered regions in protein chains. PLoS Comput. Biol., 2, e177.
-
(2006)
PLoS Comput. Biol.
, vol.2
-
-
Galzitskaya, O.V.1
-
12
-
-
34548567232
-
POODLE-L: a two-level SVM prediction system for reliably predicting long disordered regions
-
Hirose, S. et al. (2007) POODLE-L: a two-level SVM prediction system for reliably predicting long disordered regions. Bioinformatics, 23, 2046-2053.
-
(2007)
Bioinformatics
, vol.23
, pp. 2046-2053
-
-
Hirose, S.1
-
13
-
-
34547588389
-
PrDOS: prediction of disordered protein regions from amino acid sequence
-
Ishida, T. and Kinoshita, K. (2007) PrDOS: prediction of disordered protein regions from amino acid sequence. Nucleic Acids Res., 35, W460-W464.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Ishida, T.1
Kinoshita, K.2
-
15
-
-
0032892577
-
AAindex: Amino Acid Index Database
-
Kawashima, S. et al. (1999) AAindex: Amino Acid Index Database. Nucleic Acids Res., 27, 368-369.
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 368-369
-
-
Kawashima, S.1
-
16
-
-
0242458482
-
Protein disorder prediction: implications for structural proteomics
-
Linding, R. et al. (2003) Protein disorder prediction: implications for structural proteomics. Structure, 11, 1453-1459.
-
(2003)
Structure
, vol.11
, pp. 1453-1459
-
-
Linding, R.1
-
17
-
-
79956200060
-
The Ising model for prediction of disordered residues from protein sequence alone
-
Lobanov, M.Y. and Galzitskaya, O.V. (2011) The Ising model for prediction of disordered residues from protein sequence alone. Phys. Biol., 8, 035004.
-
(2011)
Phys. Biol.
, vol.8
, pp. 035004
-
-
Lobanov, M.Y.1
Galzitskaya, O.V.2
-
18
-
-
78349256234
-
Library of disordered patterns in 3D protein structures
-
Lobanov, M.Y. et al. (2010) Library of disordered patterns in 3D protein structures. PLoS Comput. Biol., 6, e1000958.
-
(2010)
PLoS Comput. Biol.
, vol.6
-
-
Lobanov, M.Y.1
-
19
-
-
66349088076
-
REPETITA: detection and discrimination of the periodicity of protein solenoid repeats by discrete Fourier transform
-
Marsella, L. et al. (2009) REPETITA: detection and discrimination of the periodicity of protein solenoid repeats by discrete Fourier transform. Bioinformatics, 25, i289-i295.
-
(2009)
Bioinformatics
, vol.25
-
-
Marsella, L.1
-
20
-
-
78149244240
-
MOBI: a web server to define and visualize structural mobility in NMR protein ensembles
-
Martin, A.J. et al. (2010) MOBI: a web server to define and visualize structural mobility in NMR protein ensembles. Bioinformatics, 26, 2916-2917.
-
(2010)
Bioinformatics
, vol.26
, pp. 2916-2917
-
-
Martin, A.J.1
-
21
-
-
49549111841
-
Intrinsic disorder prediction from the analysis of multiple protein fold recognition models
-
McGuffin, L.J. (2008) Intrinsic disorder prediction from the analysis of multiple protein fold recognition models. Bioinformatics, 24, 1798-1804.
-
(2008)
Bioinformatics
, vol.24
, pp. 1798-1804
-
-
McGuffin, L.J.1
-
22
-
-
0043122933
-
UniqueProt: Creating representative protein sequence sets
-
Mika, S. and Rost, B. (2003) UniqueProt: Creating representative protein sequence sets. Nucleic Acids Res., 31, 3789-3791.
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3789-3791
-
-
Mika, S.1
Rost, B.2
-
23
-
-
77956502766
-
Improved sequence-based prediction of disordered regions with multilayer fusion of multiple information sources
-
Mizianty, M.J. et al. (2010) Improved sequence-based prediction of disordered regions with multilayer fusion of multiple information sources. Bioinformatics, 26, i489-i496.
-
(2010)
Bioinformatics
, vol.26
-
-
Mizianty, M.J.1
-
24
-
-
74249104442
-
Assessment of disorder predictions in CASP8
-
Noivirt-Brik, O. et al. (2009) Assessment of disorder predictions in CASP8. Proteins, 77 (Suppl. 9), 210-216.
-
(2009)
Proteins
, vol.77
, Issue.SUPPL. 9
, pp. 210-216
-
-
Noivirt-Brik, O.1
-
25
-
-
30344485673
-
Exploiting heterogeneous sequence properties improves prediction of protein disorder
-
Obradovic, Z. et al. (2005) Exploiting heterogeneous sequence properties improves prediction of protein disorder. Proteins, 61 (Suppl. 7), 176-182.
-
(2005)
Proteins
, vol.61
, Issue.SUPPL. 7
, pp. 176-182
-
-
Obradovic, Z.1
-
26
-
-
17444397116
-
Porter: a new, accurate server for protein secondary structure prediction
-
Pollastri, G. and McLysaght, A. (2005) Porter: a new, accurate server for protein secondary structure prediction. Bioinformatics, 21, 1719-1720.
-
(2005)
Bioinformatics
, vol.21
, pp. 1719-1720
-
-
Pollastri, G.1
McLysaght, A.2
-
27
-
-
24044515001
-
FoldIndex: a simple tool to predict whether a given protein sequence is intrinsically unfolded
-
Prilusky, J. et al. (2005) FoldIndex: a simple tool to predict whether a given protein sequence is intrinsically unfolded. Bioinformatics, 21, 3435-3438.
-
(2005)
Bioinformatics
, vol.21
, pp. 3435-3438
-
-
Prilusky, J.1
-
28
-
-
84885949386
-
Improved disorder prediction by combination of orthogonal approaches
-
Schlessinger, A. et al. (2009) Improved disorder prediction by combination of orthogonal approaches. PLoS One, 4, e4433.
-
(2009)
PLoS One
, vol.4
-
-
Schlessinger, A.1
-
29
-
-
79958059909
-
Protein disorder-a breakthrough invention of evolution? Curr
-
Schlessinger, A. et al. (2011) Protein disorder-a breakthrough invention of evolution? Curr. Opin. Struct. Biol., 21, 412-418.
-
(2011)
Opin. Struct. Biol.
, vol.21
, pp. 412-418
-
-
Schlessinger, A.1
-
30
-
-
33846099868
-
DisProt: the Database of Disordered Proteins
-
Sickmeier, M. et al. (2007) DisProt: the Database of Disordered Proteins. Nucleic Acids Res., 35, D786-D793.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Sickmeier, M.1
-
31
-
-
76749161891
-
Parameterization of disorder predictors for large-scale applications requiring high specificity by using an extended benchmark dataset
-
Sirota, F.L. et al. (2010) Parameterization of disorder predictors for large-scale applications requiring high specificity by using an extended benchmark dataset. BMC Genomics, 11 (Suppl. 1), S15.
-
(2010)
BMC Genomics
, vol.11
, Issue.SUPPL. 1
-
-
Sirota, F.L.1
-
32
-
-
0036803243
-
Intrinsically unstructured proteins
-
Tompa, P. (2002) Intrinsically unstructured proteins. Trends Biochem. Sci., 27, 527-533.
-
(2002)
Trends Biochem. Sci.
, vol.27
, pp. 527-533
-
-
Tompa, P.1
-
33
-
-
37749053887
-
Fuzzy complexes: polymorphism and structural disorder in protein-protein interactions
-
Tompa, P. and Fuxreiter, M. (2008) Fuzzy complexes: polymorphism and structural disorder in protein-protein interactions. Trends Biochem. Sci., 33, 2-8.
-
(2008)
Trends Biochem. Sci.
, vol.33
, pp. 2-8
-
-
Tompa, P.1
Fuxreiter, M.2
-
34
-
-
65249102824
-
Close encounters of the third kind: disordered domains and the interactions of proteins
-
Tompa, P. et al. (2009) Close encounters of the third kind: disordered domains and the interactions of proteins. Bioessays, 31, 328-335.
-
(2009)
Bioessays
, vol.31
, pp. 328-335
-
-
Tompa, P.1
-
35
-
-
0036153571
-
What does it mean to be natively unfolded? Eur
-
Uversky, V.N. (2002) What does it mean to be natively unfolded? Eur. J. Biochem., 269, 2-12.
-
(2002)
J. Biochem.
, vol.269
, pp. 2-12
-
-
Uversky, V.N.1
-
37
-
-
48249097986
-
Intrinsically disordered proteins in human diseases: introducing the D2 concept
-
Uversky, V.N. et al. (2008) Intrinsically disordered proteins in human diseases: introducing the D2 concept. Annu. Rev. Biophys., 37, 215-246.
-
(2008)
Annu. Rev. Biophys.
, vol.37
, pp. 215-246
-
-
Uversky, V.N.1
-
38
-
-
13444288174
-
E-MSD: an integrated data resource for bioinformatics
-
Velankar, S. et al. (2005) E-MSD: an integrated data resource for bioinformatics. Nucleic Acids Res., 33, D262-D265.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Velankar, S.1
-
39
-
-
0041418213
-
Flavors of protein disorder
-
Vucetic, S. et al. (2003) Flavors of protein disorder. Proteins, 52, 573-584.
-
(2003)
Proteins
, vol.52
, pp. 573-584
-
-
Vucetic, S.1
-
40
-
-
33747868721
-
Spritz: a server for the prediction of intrinsically disordered regions in protein sequences using kernel machines
-
Vullo, A. et al. (2006) Spritz: a server for the prediction of intrinsically disordered regions in protein sequences using kernel machines. Nucleic Acids Res., 34, W164-W168.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Vullo, A.1
-
41
-
-
79959956361
-
CSpritz: accurate prediction of protein disorder segments with annotation for homology, secondary structure and linear motifs
-
Walsh, I. et al. (2011) CSpritz: accurate prediction of protein disorder segments with annotation for homology, secondary structure and linear motifs. Nucleic Acids Res., 39, W190-W196.
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Walsh, I.1
-
42
-
-
1542358787
-
Prediction and functional analysis of native disorder in proteins from the three kingdoms of life
-
Ward, J.J. et al. (2004) Prediction and functional analysis of native disorder in proteins from the three kingdoms of life. J. Mol. Biol., 337, 635-645.
-
(2004)
J. Mol. Biol.
, vol.337
, pp. 635-645
-
-
Ward, J.J.1
-
43
-
-
0032749078
-
Intrinsically unstructured proteins: re-assessing the protein structure-function paradigm
-
Wright, P.E. and Dyson, H.J. (1999) Intrinsically unstructured proteins: re-assessing the protein structure-function paradigm. J. Mol. Biol., 293, 321-331.
-
(1999)
J. Mol. Biol.
, vol.293
, pp. 321-331
-
-
Wright, P.E.1
Dyson, H.J.2
-
44
-
-
76849087968
-
PONDR-FIT: a meta-predictor of intrinsically disordered amino acids
-
Xue, B. et al. (2010) PONDR-FIT: a meta-predictor of intrinsically disordered amino acids. Biochim. Biophys. Acta, 1804, 996-1010.
-
(2010)
Biochim. Biophys. Acta
, vol.1804
, pp. 996-1010
-
-
Xue, B.1
-
45
-
-
20744437001
-
RONN: the bio-basis function neural network technique applied to the detection of natively disordered regions in proteins
-
Yang, Z.R. et al. (2005) RONN: the bio-basis function neural network technique applied to the detection of natively disordered regions in proteins. Bioinformatics, 21, 3369-3376.
-
(2005)
Bioinformatics
, vol.21
, pp. 3369-3376
-
-
Yang, Z.R.1
|