-
1
-
-
0031669184
-
Overlapping genomic sequences: A treasure trove of single-nucleotide polymorphisms
-
P. Taillon-Miller, Z. Gu, Q. Li, L. Hillier, and P.Y. Kwok Overlapping genomic sequences: a treasure trove of single-nucleotide polymorphisms Genome Res 8 1998 748 754
-
(1998)
Genome Res
, vol.8
, pp. 748-754
-
-
Taillon-Miller, P.1
Gu, Z.2
Li, Q.3
Hillier, L.4
Kwok, P.Y.5
-
2
-
-
84861090227
-
SNPeffect 4.0: On-line prediction of molecular and structural effects of protein-coding variants
-
G. De Baets, J. Van Durme, J. Reumers, S. Maurer-Stroh, P. Vanhee, and J. Dopazo SNPeffect 4.0: on-line prediction of molecular and structural effects of protein-coding variants Nucleic Acids Res 40 2012 D935 D939
-
(2012)
Nucleic Acids Res
, vol.40
-
-
De Baets, G.1
Van Durme, J.2
Reumers, J.3
Maurer-Stroh, S.4
Vanhee, P.5
Dopazo, J.6
-
3
-
-
3242733252
-
Eye colour: Portals into pigmentation genes and ancestry
-
R.A. Sturm, and T.N. Frudakis Eye colour: portals into pigmentation genes and ancestry Trends Genet 20 2004 327 332
-
(2004)
Trends Genet
, vol.20
, pp. 327-332
-
-
Sturm, R.A.1
Frudakis, T.N.2
-
4
-
-
79959471457
-
Bioinformatics challenges for personalized medicine
-
G.H. Fernald, E. Capriotti, R. Daneshjou, K.J. Karczewski, and R.B. Altman Bioinformatics challenges for personalized medicine Bioinformatics 27 2011 1741 1748
-
(2011)
Bioinformatics
, vol.27
, pp. 1741-1748
-
-
Fernald, G.H.1
Capriotti, E.2
Daneshjou, R.3
Karczewski, K.J.4
Altman, R.B.5
-
5
-
-
17244367767
-
Bioinformatics approaches and resources for single nucleotide polymorphism functional analysis
-
S. Mooney Bioinformatics approaches and resources for single nucleotide polymorphism functional analysis Brief Bioinform 6 2005 44 56
-
(2005)
Brief Bioinform
, vol.6
, pp. 44-56
-
-
Mooney, S.1
-
6
-
-
33751013750
-
Predicting the insurgence of human genetic diseases associated to single point protein mutations with support vector machines and evolutionary information
-
E. Capriotti, R. Calabrese, and R. Casadio Predicting the insurgence of human genetic diseases associated to single point protein mutations with support vector machines and evolutionary information Bioinformatics 22 2006 2729 2734
-
(2006)
Bioinformatics
, vol.22
, pp. 2729-2734
-
-
Capriotti, E.1
Calabrese, R.2
Casadio, R.3
-
7
-
-
0030688004
-
Variations on a theme: Cataloging human DNA sequence variation
-
F.S. Collins, M.S. Guyer, and A. Chakravarti Variations on a theme: cataloging human DNA sequence variation Science 278 1997 1580 1581
-
(1997)
Science
, vol.278
, pp. 1580-1581
-
-
Collins, F.S.1
Guyer, M.S.2
Chakravarti, A.3
-
8
-
-
0035173378
-
DbSNP: The NCBI database of genetic variation
-
S.T. Sherry, M.H. Ward, M. Kholodov, J. Baker, L. Phan, and E.M. Smigielski dbSNP: the NCBI database of genetic variation Nucleic Acids Res 29 2001 308 311
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 308-311
-
-
Sherry, S.T.1
Ward, M.H.2
Kholodov, M.3
Baker, J.4
Phan, L.5
Smigielski, E.M.6
-
9
-
-
80053474802
-
Mapping rare and common causal alleles for complex human diseases
-
S. Raychaudhuri Mapping rare and common causal alleles for complex human diseases Cell 147 2011 57 69
-
(2011)
Cell
, vol.147
, pp. 57-69
-
-
Raychaudhuri, S.1
-
11
-
-
0034969437
-
Are rare variants responsible for susceptibility to complex diseases
-
J.K. Pritchard Are rare variants responsible for susceptibility to complex diseases Am J Hum Genet 69 2001 124 137
-
(2001)
Am J Hum Genet
, vol.69
, pp. 124-137
-
-
Pritchard, J.K.1
-
12
-
-
3843056691
-
Multiple rare alleles contribute to low plasma levels of HDL cholesterol
-
J.C. Cohen, R.S. Kiss, A. Pertsemlidis, Y.L. Marcel, R. McPherson, and H.H. Hobbs Multiple rare alleles contribute to low plasma levels of HDL cholesterol Science 305 2004 869 872
-
(2004)
Science
, vol.305
, pp. 869-872
-
-
Cohen, J.C.1
Kiss, R.S.2
Pertsemlidis, A.3
Marcel, Y.L.4
McPherson, R.5
Hobbs, H.H.6
-
13
-
-
32444441330
-
Multiple rare variants in NPC1L1 associated with reduced sterol absorption and plasma low-density lipoprotein levels
-
J.C. Cohen, A. Pertsemlidis, S. Fahmi, S. Esmail, G.L. Vega, and S.M. Grundy Multiple rare variants in NPC1L1 associated with reduced sterol absorption and plasma low-density lipoprotein levels Proc Natl Acad Sci USA 103 2006 1810 1815
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 1810-1815
-
-
Cohen, J.C.1
Pertsemlidis, A.2
Fahmi, S.3
Esmail, S.4
Vega, G.L.5
Grundy, S.M.6
-
14
-
-
84863541347
-
An abundance of rare functional variants in 202 drug target genes sequenced in 14,002 people
-
M.R. Nelson, D. Wegmann, M.G. Ehm, D. Kessner, P. St Jean, and C. Verzilli An abundance of rare functional variants in 202 drug target genes sequenced in 14,002 people Science 337 2012 100 104
-
(2012)
Science
, vol.337
, pp. 100-104
-
-
Nelson, M.R.1
Wegmann, D.2
Ehm, M.G.3
Kessner, D.4
St Jean, P.5
Verzilli, C.6
-
15
-
-
84863556835
-
Evolution and functional impact of rare coding variation from deep sequencing of human exomes
-
J.A. Tennessen, A.W. Bigham, T.D. O'Connor, W. Fu, E.E. Kenny, and S. Gravel Evolution and functional impact of rare coding variation from deep sequencing of human exomes Science 337 2012 64 69
-
(2012)
Science
, vol.337
, pp. 64-69
-
-
Tennessen, J.A.1
Bigham, A.W.2
O'Connor, T.D.3
Fu, W.4
Kenny, E.E.5
Gravel, S.6
-
16
-
-
44349132708
-
Common and rare variants in multifactorial susceptibility to common diseases
-
W. Bodmer, and C. Bonilla Common and rare variants in multifactorial susceptibility to common diseases Nat Genet 40 2008 695 701
-
(2008)
Nat Genet
, vol.40
, pp. 695-701
-
-
Bodmer, W.1
Bonilla, C.2
-
17
-
-
84863970074
-
De novo mutations in human genetic disease
-
J.A. Veltman, and H.G. Brunner De novo mutations in human genetic disease Nat Rev Genet 13 2012 565 575
-
(2012)
Nat Rev Genet
, vol.13
, pp. 565-575
-
-
Veltman, J.A.1
Brunner, H.G.2
-
18
-
-
77956642100
-
Exome sequencing identifies MLL2 mutations as a cause of Kabuki syndrome
-
S.B. Ng, A.W. Bigham, K.J. Buckingham, M.C. Hannibal, M.J. McMillin, and H.I. Gildersleeve Exome sequencing identifies MLL2 mutations as a cause of Kabuki syndrome Nat Genet 42 2010 790 793
-
(2010)
Nat Genet
, vol.42
, pp. 790-793
-
-
Ng, S.B.1
Bigham, A.W.2
Buckingham, K.J.3
Hannibal, M.C.4
McMillin, M.J.5
Gildersleeve, H.I.6
-
19
-
-
38349113850
-
Physicochemical feature-based classification of amino acid mutations
-
B. Shen, J. Bai, and M. Vihinen Physicochemical feature-based classification of amino acid mutations Protein Eng Des Sel 21 2008 37 44
-
(2008)
Protein Eng des Sel
, vol.21
, pp. 37-44
-
-
Shen, B.1
Bai, J.2
Vihinen, M.3
-
20
-
-
0037816165
-
Understanding the function-structure and function-mutation relationships of p53 tumor suppressor protein by high-resolution missense mutation analysis
-
S. Kato, S.-Y. Han, W. Liu, K. Otsuka, H. Shibata, and R. Kanamaru Understanding the function-structure and function-mutation relationships of p53 tumor suppressor protein by high-resolution missense mutation analysis Proc Natl Acad Sci 100 2003 8424 8429
-
(2003)
Proc Natl Acad Sci
, vol.100
, pp. 8424-8429
-
-
Kato, S.1
Han, S.-Y.2
Liu, W.3
Otsuka, K.4
Shibata, H.5
Kanamaru, R.6
-
21
-
-
41949118839
-
Approaches and resources for prediction of the effects of non-synonymous single nucleotide polymorphism on protein function and interactions
-
S. Teng, E. Michonova-Alexova, and E. Alexov Approaches and resources for prediction of the effects of non-synonymous single nucleotide polymorphism on protein function and interactions Curr Pharm Biotechnol 9 2008 123 133
-
(2008)
Curr Pharm Biotechnol
, vol.9
, pp. 123-133
-
-
Teng, S.1
Michonova-Alexova, E.2
Alexov, E.3
-
23
-
-
84867644046
-
A fundamental protein property, thermodynamic stability, revealed solely from large-scale measurements of protein function
-
C.L. Araya, D.M. Fowler, W. Chen, I. Muniez, J.W. Kelly, and S. Fields A fundamental protein property, thermodynamic stability, revealed solely from large-scale measurements of protein function Proc Natl Acad Sci 109 2012 16858 16863
-
(2012)
Proc Natl Acad Sci
, vol.109
, pp. 16858-16863
-
-
Araya, C.L.1
Fowler, D.M.2
Chen, W.3
Muniez, I.4
Kelly, J.W.5
Fields, S.6
-
24
-
-
77955785242
-
On the pH-optimum of activity and stability of proteins
-
K. Talley, and E. Alexov On the pH-optimum of activity and stability of proteins Proteins 78 2010 2699 2706
-
(2010)
Proteins
, vol.78
, pp. 2699-2706
-
-
Talley, K.1
Alexov, E.2
-
25
-
-
84863241652
-
Predicting folding free energy changes upon single point mutations
-
Z. Zhang, L. Wang, Y. Gao, J. Zhang, M. Zhenirovskyy, and E. Alexov Predicting folding free energy changes upon single point mutations Bioinformatics 28 2012 664 671
-
(2012)
Bioinformatics
, vol.28
, pp. 664-671
-
-
Zhang, Z.1
Wang, L.2
Gao, Y.3
Zhang, J.4
Zhenirovskyy, M.5
Alexov, E.6
-
26
-
-
79959942908
-
SDM - A server for predicting effects of mutations on protein stability and malfunction
-
C.L. Worth, R. Preissner, and T.L. Blundell SDM - a server for predicting effects of mutations on protein stability and malfunction Nucleic Acids Res 39 2011 W215 W222
-
(2011)
Nucleic Acids Res
, vol.39
-
-
Worth, C.L.1
Preissner, R.2
Blundell, T.L.3
-
27
-
-
61849134386
-
Robust prediction of mutation-induced protein stability change by property encoding of amino acids
-
S. Kang, G. Chen, and G. Xiao Robust prediction of mutation-induced protein stability change by property encoding of amino acids Protein Eng Des Sel 22 2009 75 83
-
(2009)
Protein Eng des Sel
, vol.22
, pp. 75-83
-
-
Kang, S.1
Chen, G.2
Xiao, G.3
-
28
-
-
84878520431
-
Myopathic lamin mutations impair nuclear stability in cells and tissue and disrupt nucleo-cytoskeletal coupling
-
M. Zwerger, D.E. Jaalouk, M.L. Lombardi, P. Isermann, M. Mauermann, and G. Dialynas Myopathic lamin mutations impair nuclear stability in cells and tissue and disrupt nucleo-cytoskeletal coupling Hum Mol Genet 22 2013 2335 2349
-
(2013)
Hum Mol Genet
, vol.22
, pp. 2335-2349
-
-
Zwerger, M.1
Jaalouk, D.E.2
Lombardi, M.L.3
Isermann, P.4
Mauermann, M.5
Dialynas, G.6
-
29
-
-
84874785770
-
Mechanisms by which von Willebrand disease mutations destabilize the A2 domain
-
A.J. Xu, and T.A. Springer Mechanisms by which von Willebrand disease mutations destabilize the A2 domain J Biol Chem 288 2013 6317 6324
-
(2013)
J Biol Chem
, vol.288
, pp. 6317-6324
-
-
Xu, A.J.1
Springer, T.A.2
-
30
-
-
78650855405
-
Analysis of disease-linked rhodopsin mutations based on structure, function, and protein stability calculations
-
E.P. Rakoczy, C. Kiel, R. McKeone, F. Stricher, and L. Serrano Analysis of disease-linked rhodopsin mutations based on structure, function, and protein stability calculations J Mol Biol 405 2011 584 606
-
(2011)
J Mol Biol
, vol.405
, pp. 584-606
-
-
Rakoczy, E.P.1
Kiel, C.2
McKeone, R.3
Stricher, F.4
Serrano, L.5
-
31
-
-
84881309795
-
Structural and functional analysis of perforin mutations in association with clinical data of familial hemophagocytic lymphohistiocytosis type 2 (FHL2) patients
-
O. An, A. Gursoy, A. Gurgey, and O. Keskin Structural and functional analysis of perforin mutations in association with clinical data of familial hemophagocytic lymphohistiocytosis type 2 (FHL2) patients Protein Sci 22 2013 823 839
-
(2013)
Protein Sci
, vol.22
, pp. 823-839
-
-
An, O.1
Gursoy, A.2
Gurgey, A.3
Keskin, O.4
-
32
-
-
0035092422
-
Spectrum of perforin gene mutations in familial hemophagocytic lymphohistiocytosis
-
K. Goransdotter Ericson, B. Fadeel, S. Nilsson-Ardnor, C. Soderhall, A. Samuelsson, and G. Janka Spectrum of perforin gene mutations in familial hemophagocytic lymphohistiocytosis Am J Hum Genet 68 2001 590 597
-
(2001)
Am J Hum Genet
, vol.68
, pp. 590-597
-
-
Goransdotter Ericson, K.1
Fadeel, B.2
Nilsson-Ardnor, S.3
Soderhall, C.4
Samuelsson, A.5
Janka, G.6
-
33
-
-
0025910229
-
Molecular biology of prion diseases
-
S. Prusiner Molecular biology of prion diseases Science 252 1991 1515 1522
-
(1991)
Science
, vol.252
, pp. 1515-1522
-
-
Prusiner, S.1
-
34
-
-
0034916581
-
Prion diseases of humans and animals: Their causes and molecular basis
-
J. Collinge Prion diseases of humans and animals: their causes and molecular basis Annu Rev Neurosci 24 2001 519 550
-
(2001)
Annu Rev Neurosci
, vol.24
, pp. 519-550
-
-
Collinge, J.1
-
35
-
-
84876271672
-
Prion disease: A tale of folds and strains
-
H. Kretzschmar, and J. Tatzelt Prion disease: a tale of folds and strains Brain Pathol 23 2013 321 332
-
(2013)
Brain Pathol
, vol.23
, pp. 321-332
-
-
Kretzschmar, H.1
Tatzelt, J.2
-
36
-
-
84873504625
-
Nanopore analysis of wild-type and mutant prion protein (PrP(C)): Single molecule discrimination and PrP(C) kinetics
-
N.N. Jetha, V. Semenchenko, D.S. Wishart, N.R. Cashman, and A. Marziali Nanopore analysis of wild-type and mutant prion protein (PrP(C)): single molecule discrimination and PrP(C) kinetics PLoS One 8 2013 e54982
-
(2013)
PLoS One
, vol.8
, pp. 54982
-
-
Jetha, N.N.1
Semenchenko, V.2
Wishart, D.S.3
Cashman, N.R.4
Marziali, A.5
-
37
-
-
45249112594
-
Characterization of PINK1 processing, stability, and subcellular localization
-
W. Lin, and U.J. Kang Characterization of PINK1 processing, stability, and subcellular localization J Neurochem 106 2008 464 474
-
(2008)
J Neurochem
, vol.106
, pp. 464-474
-
-
Lin, W.1
Kang, U.J.2
-
38
-
-
77954104112
-
Genetic etiology of Parkinson disease associated with mutations in the SNCA, PARK2, PINK1, PARK7, and LRRK2 genes: A mutation update
-
K. Nuytemans, J. Theuns, M. Cruts, and C. Van Broeckhoven Genetic etiology of Parkinson disease associated with mutations in the SNCA, PARK2, PINK1, PARK7, and LRRK2 genes: a mutation update Hum Mutat 31 2010 763 780
-
(2010)
Hum Mutat
, vol.31
, pp. 763-780
-
-
Nuytemans, K.1
Theuns, J.2
Cruts, M.3
Van Broeckhoven, C.4
-
39
-
-
77953666757
-
Parkinson's disease mutations in PINK1 result in decreased complex i activity and deficient synaptic function
-
V.A. Morais, P. Verstreken, A. Roethig, J. Smet, A. Snellinx, and M. Vanbrabant Parkinson's disease mutations in PINK1 result in decreased complex I activity and deficient synaptic function EMBO Mol Med 1 2009 99 111
-
(2009)
EMBO Mol Med
, vol.1
, pp. 99-111
-
-
Morais, V.A.1
Verstreken, P.2
Roethig, A.3
Smet, J.4
Snellinx, A.5
Vanbrabant, M.6
-
40
-
-
36749011859
-
Familial Alzheimer's disease mutations alter the stability of the amyloid beta-protein monomer folding nucleus
-
M.A. Grant, N.D. Lazo, A. Lomakin, M.M. Condron, H. Arai, and G. Yamin Familial Alzheimer's disease mutations alter the stability of the amyloid beta-protein monomer folding nucleus Proc Natl Acad Sci USA 104 2007 16522 16527
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 16522-16527
-
-
Grant, M.A.1
Lazo, N.D.2
Lomakin, A.3
Condron, M.M.4
Arai, H.5
Yamin, G.6
-
41
-
-
79955907500
-
The structural impact of cancer-associated missense mutations in oncogenes and tumor suppressors
-
H. Stehr, S.H. Jang, J.M. Duarte, C. Wierling, H. Lehrach, and M. Lappe The structural impact of cancer-associated missense mutations in oncogenes and tumor suppressors Mol Cancer 10 2011 54
-
(2011)
Mol Cancer
, vol.10
, pp. 54
-
-
Stehr, H.1
Jang, S.H.2
Duarte, J.M.3
Wierling, C.4
Lehrach, H.5
Lappe, M.6
-
42
-
-
80054757853
-
Structural and functional impact of cancer-related missense somatic mutations
-
Z. Shi, and J. Moult Structural and functional impact of cancer-related missense somatic mutations J Mol Biol 413 2011 495 512
-
(2011)
J Mol Biol
, vol.413
, pp. 495-512
-
-
Shi, Z.1
Moult, J.2
-
43
-
-
79960091949
-
A missense mutation in CLIC2 associated with intellectual disability is predicted by in silico modeling to affect protein stability and dynamics
-
S. Witham, K. Takano, C. Schwartz, and E. Alexov A missense mutation in CLIC2 associated with intellectual disability is predicted by in silico modeling to affect protein stability and dynamics Proteins 79 2011 2444 2454
-
(2011)
Proteins
, vol.79
, pp. 2444-2454
-
-
Witham, S.1
Takano, K.2
Schwartz, C.3
Alexov, E.4
-
44
-
-
84867115345
-
An X-linked channelopathy with cardiomegaly due to a CLIC2 mutation enhancing ryanodine receptor channel activity
-
K. Takano, D. Liu, P. Tarpey, E. Gallant, A. Lam, and S. Witham An X-linked channelopathy with cardiomegaly due to a CLIC2 mutation enhancing ryanodine receptor channel activity Hum Mol Genet 21 2012 4497 4507
-
(2012)
Hum Mol Genet
, vol.21
, pp. 4497-4507
-
-
Takano, K.1
Liu, D.2
Tarpey, P.3
Gallant, E.4
Lam, A.5
Witham, S.6
-
45
-
-
0034620528
-
Rational modification of protein stability by the mutation of charged surface residues †
-
S. Spector, M. Wang, S.A. Carp, J. Robblee, Z.S. Hendsch, and R. Fairman Rational modification of protein stability by the mutation of charged surface residues † Biochemistry 39 2000 872 879
-
(2000)
Biochemistry
, vol.39
, pp. 872-879
-
-
Spector, S.1
Wang, M.2
Carp, S.A.3
Robblee, J.4
Hendsch, Z.S.5
Fairman, R.6
-
46
-
-
79957582046
-
In silico and in vitro investigations of the mutability of disease-causing missense mutation sites in spermine synthase
-
Z. Zhang, J. Norris, C. Schwartz, and E. Alexov In silico and in vitro investigations of the mutability of disease-causing missense mutation sites in spermine synthase PLoS One 6 2011 e20373
-
(2011)
PLoS One
, vol.6
, pp. 20373
-
-
Zhang, Z.1
Norris, J.2
Schwartz, C.3
Alexov, E.4
-
47
-
-
66149102833
-
Modeling effects of human single nucleotide polymorphisms on protein-protein interactions
-
S. Teng, T. Madej, A. Panchenko, and E. Alexov Modeling effects of human single nucleotide polymorphisms on protein-protein interactions Biophys J 96 2009 2178 2188
-
(2009)
Biophys J
, vol.96
, pp. 2178-2188
-
-
Teng, S.1
Madej, T.2
Panchenko, A.3
Alexov, E.4
-
48
-
-
84879157943
-
Cancer missense mutations alter binding properties of proteins and their interaction networks
-
H. Nishi, M. Tyagi, S. Teng, B.A. Shoemaker, K. Hashimoto, and E. Alexov Cancer missense mutations alter binding properties of proteins and their interaction networks PLoS One 8 2013 e66273
-
(2013)
PLoS One
, vol.8
, pp. 66273
-
-
Nishi, H.1
Tyagi, M.2
Teng, S.3
Shoemaker, B.A.4
Hashimoto, K.5
Alexov, E.6
-
50
-
-
84882989863
-
A Y328C missense mutation in spermine synthase causes a mild form of Snyder-Robinson syndrome
-
[Epub ahead of print, PMID: 23696453, in press]
-
Z. Zhang, J. Norris, V. Kalscheuer, T. Wood, L. Wang, and C. Schwartz A Y328C missense mutation in spermine synthase causes a mild form of Snyder-Robinson syndrome Hum Mol Genet 2013 [Epub ahead of print, PMID: 23696453, in press]
-
(2013)
Hum Mol Genet
-
-
Zhang, Z.1
Norris, J.2
Kalscheuer, V.3
Wood, T.4
Wang, L.5
Schwartz, C.6
-
51
-
-
77956285978
-
Sequence feature-based prediction of protein stability changes upon amino acid substitutions
-
S. Teng, A.K. Srivastava, and L. Wang Sequence feature-based prediction of protein stability changes upon amino acid substitutions BMC Genomics 11 2010 S5
-
(2010)
BMC Genomics
, vol.11
, pp. 5
-
-
Teng, S.1
Srivastava, A.K.2
Wang, L.3
-
52
-
-
23144461249
-
I-Mutant2.0: Predicting stability changes upon mutation from the protein sequence or structure
-
E. Capriotti, P. Fariselli, and R. Casadio I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure Nucleic Acids Res 33 2005 W306 W310
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Capriotti, E.1
Fariselli, P.2
Casadio, R.3
-
53
-
-
33644847172
-
Prediction of protein stability changes for single-site mutations using support vector machines
-
J. Cheng, A. Randall, and P. Baldi Prediction of protein stability changes for single-site mutations using support vector machines Proteins Struct Funct Bioinf 62 2006 1125 1132
-
(2006)
Proteins Struct Funct Bioinf
, vol.62
, pp. 1125-1132
-
-
Cheng, J.1
Randall, A.2
Baldi, P.3
-
54
-
-
70349847872
-
Fast and accurate predictions of protein stability changes upon mutations using statistical potentials and neural networks: PoPMuSiC-2.0
-
Y. Dehouck, A. Grosfils, B. Folch, D. Gilis, P. Bogaerts, and M. Rooman Fast and accurate predictions of protein stability changes upon mutations using statistical potentials and neural networks: PoPMuSiC-2.0 Bioinformatics 25 2009 2537 2543
-
(2009)
Bioinformatics
, vol.25
, pp. 2537-2543
-
-
Dehouck, Y.1
Grosfils, A.2
Folch, B.3
Gilis, D.4
Bogaerts, P.5
Rooman, M.6
-
55
-
-
0043122919
-
SIFT: Predicting amino acid changes that affect protein function
-
P.C. Ng, and S. Henikoff SIFT: predicting amino acid changes that affect protein function Nucleic Acids Res 31 2003 3812 3814
-
(2003)
Nucleic Acids Res
, vol.31
, pp. 3812-3814
-
-
Ng, P.C.1
Henikoff, S.2
-
56
-
-
0036713510
-
Human non-synonymous SNPs: Server and survey
-
V. Ramensky, P. Bork, and S. Sunyaev Human non-synonymous SNPs: server and survey Nucleic Acids Res 30 2002 3894 3900
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 3894-3900
-
-
Ramensky, V.1
Bork, P.2
Sunyaev, S.3
-
57
-
-
77951640946
-
A method and server for predicting damaging missense mutations
-
I.A. Adzhubei, S. Schmidt, L. Peshkin, V.E. Ramensky, A. Gerasimova, and P. Bork A method and server for predicting damaging missense mutations Nat Methods 7 2010 248 249
-
(2010)
Nat Methods
, vol.7
, pp. 248-249
-
-
Adzhubei, I.A.1
Schmidt, S.2
Peshkin, L.3
Ramensky, V.E.4
Gerasimova, A.5
Bork, P.6
-
58
-
-
84864555615
-
Structure-based mutant stability predictions on proteins of unknown structure
-
G. Gonnelli, M. Rooman, and Y. Dehouck Structure-based mutant stability predictions on proteins of unknown structure J Biotechnol 161 2012 287 293
-
(2012)
J Biotechnol
, vol.161
, pp. 287-293
-
-
Gonnelli, G.1
Rooman, M.2
Dehouck, Y.3
-
60
-
-
0036291145
-
Predicting changes in the stability of proteins and protein complexes: A study of more than 1000 mutations
-
R. Guerois, J.E. Nielsen, and L. Serrano Predicting changes in the stability of proteins and protein complexes: a study of more than 1000 mutations J Mol Biol 320 2002 369 387
-
(2002)
J Mol Biol
, vol.320
, pp. 369-387
-
-
Guerois, R.1
Nielsen, J.E.2
Serrano, L.3
-
61
-
-
33746639718
-
Emergence of protein fold families through rational design
-
F. Ding, and N.V. Dokholyan Emergence of protein fold families through rational design PLoS Comput Biol 2 2006 e85
-
(2006)
PLoS Comput Biol
, vol.2
, pp. 85
-
-
Ding, F.1
Dokholyan, N.V.2
-
62
-
-
70350671733
-
Automated inference of molecular mechanisms of disease from amino acid substitutions
-
B. Li, V.G. Krishnan, M.E. Mort, F. Xin, K.K. Kamati, and D.N. Cooper Automated inference of molecular mechanisms of disease from amino acid substitutions Bioinformatics 25 2009 2744 2750
-
(2009)
Bioinformatics
, vol.25
, pp. 2744-2750
-
-
Li, B.1
Krishnan, V.G.2
Mort, M.E.3
Xin, F.4
Kamati, K.K.5
Cooper, D.N.6
-
63
-
-
58149247893
-
Predicting free energy changes using structural ensembles
-
A. Benedix, C.M. Becker, B.L. de Groot, A. Caflisch, and R.A. Bockmann Predicting free energy changes using structural ensembles Nat Methods 6 2009 3 4
-
(2009)
Nat Methods
, vol.6
, pp. 3-4
-
-
Benedix, A.1
Becker, C.M.2
De Groot, B.L.3
Caflisch, A.4
Bockmann, R.A.5
-
64
-
-
0030931612
-
Prediction of protein conformational freedom from distance constraints
-
B.L. de Groot, D.M. van Aalten, R.M. Scheek, A. Amadei, G. Vriend, and H.J. Berendsen Prediction of protein conformational freedom from distance constraints Proteins 29 1997 240 251
-
(1997)
Proteins
, vol.29
, pp. 240-251
-
-
De Groot, B.L.1
Van Aalten, D.M.2
Scheek, R.M.3
Amadei, A.4
Vriend, G.5
Berendsen, H.J.6
-
65
-
-
84871742701
-
DelPhi: A comprehensive suite for DelPhi software and associated resources
-
L. Li, C. Li, S. Sarkar, J. Zhang, S. Witham, and Z. Zhang DelPhi: a comprehensive suite for DelPhi software and associated resources BMC Biophys 5 2012 9
-
(2012)
BMC Biophys
, vol.5
, pp. 9
-
-
Li, L.1
Li, C.2
Sarkar, S.3
Zhang, J.4
Witham, S.5
Zhang, Z.6
-
66
-
-
78049484011
-
Protein structure analysis of mutations causing inheritable diseases: An e-Science approach with life scientist friendly interfaces
-
H. Venselaar, T.A. Te Beek, R.K. Kuipers, M.L. Hekkelman, and G. Vriend Protein structure analysis of mutations causing inheritable diseases: an e-Science approach with life scientist friendly interfaces BMC Bioinf 11 2010 548
-
(2010)
BMC Bioinf
, vol.11
, pp. 548
-
-
Venselaar, H.1
Te Beek, T.A.2
Kuipers, R.K.3
Hekkelman, M.L.4
Vriend, G.5
-
67
-
-
77952706843
-
Performance of protein stability predictors
-
S. Khan, and M. Vihinen Performance of protein stability predictors Hum Mutat 31 2010 675 684
-
(2010)
Hum Mutat
, vol.31
, pp. 675-684
-
-
Khan, S.1
Vihinen, M.2
-
68
-
-
51749110028
-
Accurate prediction of stability changes in protein mutants by combining machine learning with structure based computational mutagenesis
-
M. Masso, and I.I. Vaisman Accurate prediction of stability changes in protein mutants by combining machine learning with structure based computational mutagenesis Bioinformatics 24 2008 2002 2009
-
(2008)
Bioinformatics
, vol.24
, pp. 2002-2009
-
-
Masso, M.1
Vaisman, I.I.2
-
69
-
-
74549207309
-
Assessing computational methods for predicting protein stability upon mutation: Good on average but not in the details
-
V. Potapov, M. Cohen, and G. Schreiber Assessing computational methods for predicting protein stability upon mutation: good on average but not in the details Protein Eng Des Sel 22 2009 553 560
-
(2009)
Protein Eng des Sel
, vol.22
, pp. 553-560
-
-
Potapov, V.1
Cohen, M.2
Schreiber, G.3
-
70
-
-
84868133037
-
Assessing predictors of changes in protein stability upon mutation using self-consistency
-
G. Thiltgen, and R.A. Goldstein Assessing predictors of changes in protein stability upon mutation using self-consistency PLoS One 7 2012 e46084
-
(2012)
PLoS One
, vol.7
, pp. 46084
-
-
Thiltgen, G.1
Goldstein, R.A.2
-
71
-
-
84868026028
-
How to evaluate performance of prediction methods Measures and their interpretation in variation effect analysis
-
M. Vihinen How to evaluate performance of prediction methods Measures and their interpretation in variation effect analysis BMC Genomics 13 2012 S2
-
(2012)
BMC Genomics
, vol.13
, pp. 2
-
-
Vihinen, M.1
-
72
-
-
79952764520
-
Performance of mutation pathogenicity prediction methods on missense variants
-
J. Thusberg, A. Olatubosun, and M. Vihinen Performance of mutation pathogenicity prediction methods on missense variants Hum Mutat 32 2011 358 368
-
(2011)
Hum Mutat
, vol.32
, pp. 358-368
-
-
Thusberg, J.1
Olatubosun, A.2
Vihinen, M.3
-
73
-
-
0036838311
-
Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction
-
H. Zhou, and Y. Zhou Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction Protein Sci 11 2002 2714 2726
-
(2002)
Protein Sci
, vol.11
, pp. 2714-2726
-
-
Zhou, H.1
Zhou, Y.2
-
74
-
-
36448967447
-
Four-body scoring function for mutagenesis
-
C. Deutsch, and B. Krishnamoorthy Four-body scoring function for mutagenesis Bioinformatics 23 2007 3009 3015
-
(2007)
Bioinformatics
, vol.23
, pp. 3009-3015
-
-
Deutsch, C.1
Krishnamoorthy, B.2
-
75
-
-
0037620640
-
SCide: Identification of stabilization centers in proteins
-
Z. Dosztanyi, C. Magyar, G. Tusnady, and I. Simon SCide: identification of stabilization centers in proteins Bioinformatics 19 2003 899 900
-
(2003)
Bioinformatics
, vol.19
, pp. 899-900
-
-
Dosztanyi, Z.1
Magyar, C.2
Tusnady, G.3
Simon, I.4
-
76
-
-
44349134514
-
SCPRED: Accurate prediction of protein structural class for sequences of twilight-zone similarity with predicting sequences
-
L. Kurgan, K. Cios, and K. Chen SCPRED: accurate prediction of protein structural class for sequences of twilight-zone similarity with predicting sequences BMC Bioinf 9 2008 226
-
(2008)
BMC Bioinf
, vol.9
, pp. 226
-
-
Kurgan, L.1
Cios, K.2
Chen, K.3
-
77
-
-
23144441494
-
SRide: A server for identifying stabilizing residues in proteins
-
C. Magyar, M.M. Gromiha, G. Pujadas, G.E. Tusnady, and I. Simon SRide: a server for identifying stabilizing residues in proteins Nucleic Acids Res 33 2005 W303 W305
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Magyar, C.1
Gromiha, M.M.2
Pujadas, G.3
Tusnady, G.E.4
Simon, I.5
-
78
-
-
23144437332
-
NsSNPAnalyzer: Identifying disease-associated nonsynonymous single nucleotide polymorphisms
-
L. Bao, M. Zhou, and Y. Cui nsSNPAnalyzer: identifying disease-associated nonsynonymous single nucleotide polymorphisms Nucleic Acids Res 33 2005 W480 W482
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Bao, L.1
Zhou, M.2
Cui, Y.3
-
79
-
-
0141742293
-
PANTHER: A library of protein families and subfamilies indexed by function
-
P.D. Thomas, M.J. Campbell, A. Kejariwal, H. Mi, B. Karlak, and R. Daverman PANTHER: a library of protein families and subfamilies indexed by function Genome Res 13 2003 2129 2141
-
(2003)
Genome Res
, vol.13
, pp. 2129-2141
-
-
Thomas, P.D.1
Campbell, M.J.2
Kejariwal, A.3
Mi, H.4
Karlak, B.5
Daverman, R.6
-
80
-
-
34547100092
-
SNAP: Predict effect of non-synonymous polymorphisms on function
-
Y. Bromberg, and B. Rost SNAP: predict effect of non-synonymous polymorphisms on function Nucleic Acids Res 35 2007 3823 3835
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 3823-3835
-
-
Bromberg, Y.1
Rost, B.2
-
81
-
-
67749137351
-
Functional annotations improve the predictive score of human disease-related mutations in proteins
-
R. Calabrese, E. Capriotti, P. Fariselli, P.L. Martelli, and R. Casadio Functional annotations improve the predictive score of human disease-related mutations in proteins Hum Mutat 30 2009 1237 1244
-
(2009)
Hum Mutat
, vol.30
, pp. 1237-1244
-
-
Calabrese, R.1
Capriotti, E.2
Fariselli, P.3
Martelli, P.L.4
Casadio, R.5
-
82
-
-
80052213471
-
Machine learning algorithms for predicting protein folding rates and stability of mutant proteins: Comparison with statistical methods
-
M.M. Gromiha, and L.T. Huang Machine learning algorithms for predicting protein folding rates and stability of mutant proteins: comparison with statistical methods Curr Protein Pept Sci 12 2011 490 502
-
(2011)
Curr Protein Pept Sci
, vol.12
, pp. 490-502
-
-
Gromiha, M.M.1
Huang, L.T.2
-
83
-
-
69749093207
-
Positional conservation and amino acids shape the correct diagnosis and population frequencies of benign and damaging personal amino acid mutations
-
S. Kumar, M.P. Suleski, G.J. Markov, S. Lawrence, A. Marco, and A.J. Filipski Positional conservation and amino acids shape the correct diagnosis and population frequencies of benign and damaging personal amino acid mutations Genome Res 19 2009 1562 1569
-
(2009)
Genome Res
, vol.19
, pp. 1562-1569
-
-
Kumar, S.1
Suleski, M.P.2
Markov, G.J.3
Lawrence, S.4
Marco, A.5
Filipski, A.J.6
-
84
-
-
84866847054
-
Key stabilizing elements of protein structure identified through pressure and temperature perturbation of its hydrogen bond network
-
L. Nisius, and S. Grzesiek Key stabilizing elements of protein structure identified through pressure and temperature perturbation of its hydrogen bond network Nat Chem 4 2012 711 717
-
(2012)
Nat Chem
, vol.4
, pp. 711-717
-
-
Nisius, L.1
Grzesiek, S.2
-
85
-
-
70349314263
-
Structural and functional restraints in the evolution of protein families and superfamilies
-
S. Gong, C.L. Worth, G.R. Bickerton, S. Lee, D. Tanramluk, and T.L. Blundell Structural and functional restraints in the evolution of protein families and superfamilies Biochem Soc Trans 37 2009 727 733
-
(2009)
Biochem Soc Trans
, vol.37
, pp. 727-733
-
-
Gong, S.1
Worth, C.L.2
Bickerton, G.R.3
Lee, S.4
Tanramluk, D.5
Blundell, T.L.6
-
86
-
-
84871083428
-
Carbon-oxygen hydrogen bonding in biological structure and function
-
S. Horowitz, and R.C. Trievel Carbon-oxygen hydrogen bonding in biological structure and function J Biol Chem 287 2012 41576 41582
-
(2012)
J Biol Chem
, vol.287
, pp. 41576-41582
-
-
Horowitz, S.1
Trievel, R.C.2
-
87
-
-
84873254221
-
Identification and analysis of a novel mutation in PEPD gene in two Kashmiri siblings with prolidase enzyme deficiency
-
R.A. Pandit, C.J. Chen, T.A. Butt, and N. Islam Identification and analysis of a novel mutation in PEPD gene in two Kashmiri siblings with prolidase enzyme deficiency Gene 516 2013 316 319
-
(2013)
Gene
, vol.516
, pp. 316-319
-
-
Pandit, R.A.1
Chen, C.J.2
Butt, T.A.3
Islam, N.4
-
88
-
-
77954657876
-
Five novel mutations in CYP11B2 gene detected in patients with aldosterone synthase deficiency type I: Functional characterization and structural analyses
-
H.H. Nguyen, F. Hannemann, M.F. Hartmann, E.M. Malunowicz, S.A. Wudy, and R. Bernhardt Five novel mutations in CYP11B2 gene detected in patients with aldosterone synthase deficiency type I: functional characterization and structural analyses Mol Genet Metab 100 2010 357 364
-
(2010)
Mol Genet Metab
, vol.100
, pp. 357-364
-
-
Nguyen, H.H.1
Hannemann, F.2
Hartmann, M.F.3
Malunowicz, E.M.4
Wudy, S.A.5
Bernhardt, R.6
-
89
-
-
84883399133
-
A novel mutation in CPT1A resulting in hepatic CPT deficiency
-
M. Fontaine, A.F. Dessein, C. Douillard, D. Dobbelaere, M. Brivet, and A. Boutron A novel mutation in CPT1A resulting in hepatic CPT deficiency JIMD Rep 6 2012 7 14
-
(2012)
JIMD Rep
, vol.6
, pp. 7-14
-
-
Fontaine, M.1
Dessein, A.F.2
Douillard, C.3
Dobbelaere, D.4
Brivet, M.5
Boutron, A.6
-
90
-
-
79959903255
-
Molecular basis for the reduced catalytic activity of the naturally occurring T560M mutant of human 12/15-lipoxygenase that has been implicated in coronary artery disease
-
K. Schurmann, M. Anton, I. Ivanov, C. Richter, H. Kuhn, and M. Walther Molecular basis for the reduced catalytic activity of the naturally occurring T560M mutant of human 12/15-lipoxygenase that has been implicated in coronary artery disease J Biol Chem 286 2011 23920 23927
-
(2011)
J Biol Chem
, vol.286
, pp. 23920-23927
-
-
Schurmann, K.1
Anton, M.2
Ivanov, I.3
Richter, C.4
Kuhn, H.5
Walther, M.6
-
91
-
-
84870943728
-
Increasing betaB1-crystallin sensitivity to proteolysis caused by the congenital cataract-microcornea syndrome mutation S129R
-
S. Wang, W.J. Zhao, H. Liu, H. Gong, and Y.B. Yan Increasing betaB1-crystallin sensitivity to proteolysis caused by the congenital cataract-microcornea syndrome mutation S129R Biochim Biophys Acta 1832 2013 302 311
-
(2013)
Biochim Biophys Acta
, vol.1832
, pp. 302-311
-
-
Wang, S.1
Zhao, W.J.2
Liu, H.3
Gong, H.4
Yan, Y.B.5
-
92
-
-
84874979750
-
Carnosine inhibits Abeta42 aggregation by perturbing the H-bond network in and around the central hydrophobic cluster
-
F. Attanasio, M. Convertino, A. Magno, A. Caflisch, A. Corazza, and H. Haridas Carnosine inhibits Abeta42 aggregation by perturbing the H-bond network in and around the central hydrophobic cluster ChemBioChem 14 2013 583 592
-
(2013)
ChemBioChem
, vol.14
, pp. 583-592
-
-
Attanasio, F.1
Convertino, M.2
Magno, A.3
Caflisch, A.4
Corazza, A.5
Haridas, H.6
-
93
-
-
66349085914
-
Amyloid beta-protein: Experiment and theory on the 21-30 fragment
-
M.M. Murray, M.G. Krone, S.L. Bernstein, A. Baumketner, M.M. Condron, and N.D. Lazo Amyloid beta-protein: experiment and theory on the 21-30 fragment J Phys Chem B 113 2009 6041 6046
-
(2009)
J Phys Chem B
, vol.113
, pp. 6041-6046
-
-
Murray, M.M.1
Krone, M.G.2
Bernstein, S.L.3
Baumketner, A.4
Condron, M.M.5
Lazo, N.D.6
-
94
-
-
84861440792
-
Quaternary structure, aggregation and cytotoxicity of transthyretin
-
M. Mizuguchi, T. Yokoyama, Y. Nabeshima, K. Kawano, I. Tanaka, and N. Niimura Quaternary structure, aggregation and cytotoxicity of transthyretin Amyloid 19 2012 5 7
-
(2012)
Amyloid
, vol.19
, pp. 5-7
-
-
Mizuguchi, M.1
Yokoyama, T.2
Nabeshima, Y.3
Kawano, K.4
Tanaka, I.5
Niimura, N.6
-
95
-
-
84861790146
-
Computational investigation of pathogenic nsSNPs in CEP63 protein
-
A. Kumar, and R. Purohit Computational investigation of pathogenic nsSNPs in CEP63 protein Gene 503 2012 75 82
-
(2012)
Gene
, vol.503
, pp. 75-82
-
-
Kumar, A.1
Purohit, R.2
-
96
-
-
33645243798
-
Analyses of variant acid β-glucosidases: Effects of gaucher disease mutations
-
B. Liou, A. Kazimierczuk, M. Zhang, C.R. Scott, R.S. Hegde, and G.A. Grabowski Analyses of variant acid β-glucosidases: effects of gaucher disease mutations J Biol Chem 281 2006 4242 4253
-
(2006)
J Biol Chem
, vol.281
, pp. 4242-4253
-
-
Liou, B.1
Kazimierczuk, A.2
Zhang, M.3
Scott, C.R.4
Hegde, R.S.5
Grabowski, G.A.6
-
97
-
-
77952786165
-
The catecholaminergic polymorphic ventricular tachycardia mutation R33Q disrupts the N-terminal structural motif that regulates reversible calsequestrin polymerization
-
N.C. Bal, A. Sharon, S.C. Gupta, N. Jena, S. Shaikh, and S. Gyorke The catecholaminergic polymorphic ventricular tachycardia mutation R33Q disrupts the N-terminal structural motif that regulates reversible calsequestrin polymerization J Biol Chem 285 2010 17188 17196
-
(2010)
J Biol Chem
, vol.285
, pp. 17188-17196
-
-
Bal, N.C.1
Sharon, A.2
Gupta, S.C.3
Jena, N.4
Shaikh, S.5
Gyorke, S.6
-
98
-
-
84872270918
-
Computational screening and molecular dynamics simulation of disease associated nsSNPs in CENP-E
-
A. Kumar, and R. Purohit Computational screening and molecular dynamics simulation of disease associated nsSNPs in CENP-E Mutat Res 738-739 2012 28 37
-
(2012)
Mutat Res
, vol.738-739
, pp. 28-37
-
-
Kumar, A.1
Purohit, R.2
-
99
-
-
0346734282
-
Altered subcellular localization and low frequency of mutations of ING1 in human brain tumors
-
D. Vieyra, D.L. Senger, T. Toyama, H. Muzik, P.M. Brasher, and R.N. Johnston Altered subcellular localization and low frequency of mutations of ING1 in human brain tumors Clin Cancer Res 9 2003 5952 5961
-
(2003)
Clin Cancer Res
, vol.9
, pp. 5952-5961
-
-
Vieyra, D.1
Senger, D.L.2
Toyama, T.3
Muzik, H.4
Brasher, P.M.5
Johnston, R.N.6
-
100
-
-
0037245023
-
Immunofluorescence analysis of neutrophil nonmuscle myosin heavy chain-A in MYH9 disorders: Association of subcellular localization with MYH9 mutations
-
S. Kunishima, T. Matsushita, T. Kojima, M. Sako, F. Kimura, and E.K. Jo Immunofluorescence analysis of neutrophil nonmuscle myosin heavy chain-A in MYH9 disorders: association of subcellular localization with MYH9 mutations Lab Invest 83 2003 115 122
-
(2003)
Lab Invest
, vol.83
, pp. 115-122
-
-
Kunishima, S.1
Matsushita, T.2
Kojima, T.3
Sako, M.4
Kimura, F.5
Jo, E.K.6
-
101
-
-
84857031868
-
Hydrogen-bond network and pH sensitivity in transthyretin: Neutron crystal structure of human transthyretin
-
T. Yokoyama, M. Mizuguchi, Y. Nabeshima, K. Kusaka, T. Yamada, and T. Hosoya Hydrogen-bond network and pH sensitivity in transthyretin: neutron crystal structure of human transthyretin J Struct Biol 177 2012 283 290
-
(2012)
J Struct Biol
, vol.177
, pp. 283-290
-
-
Yokoyama, T.1
Mizuguchi, M.2
Nabeshima, Y.3
Kusaka, K.4
Yamada, T.5
Hosoya, T.6
-
102
-
-
79960487572
-
Self-association and stability of the ApoE isoforms at low pH: Implications for ApoE-lipid interactions
-
K. Garai, B. Baban, and C. Frieden Self-association and stability of the ApoE isoforms at low pH: implications for ApoE-lipid interactions Biochemistry 50 2011 6356 6364
-
(2011)
Biochemistry
, vol.50
, pp. 6356-6364
-
-
Garai, K.1
Baban, B.2
Frieden, C.3
-
103
-
-
82255174935
-
Molecular characterization of 82 patients with pyruvate dehydrogenase complex deficiency. Structural implications of novel amino acid substitutions in E1 protein
-
A. Imbard, A. Boutron, C. Vequaud, M. Zater, P. de Lonlay, and H.O. de Baulny Molecular characterization of 82 patients with pyruvate dehydrogenase complex deficiency. Structural implications of novel amino acid substitutions in E1 protein Mol Genet Metab 104 2011 507 516
-
(2011)
Mol Genet Metab
, vol.104
, pp. 507-516
-
-
Imbard, A.1
Boutron, A.2
Vequaud, C.3
Zater, M.4
De Lonlay, P.5
De Baulny, H.O.6
-
104
-
-
84865121607
-
Effect of the disease-causing R266K mutation on the heme and PLP environments of human cystathionine beta-synthase
-
A.T. Smith, Y. Su, D.J. Stevens, T. Majtan, J.P. Kraus, and J.N. Burstyn Effect of the disease-causing R266K mutation on the heme and PLP environments of human cystathionine beta-synthase Biochemistry 51 2012 6360 6370
-
(2012)
Biochemistry
, vol.51
, pp. 6360-6370
-
-
Smith, A.T.1
Su, Y.2
Stevens, D.J.3
Majtan, T.4
Kraus, J.P.5
Burstyn, J.N.6
-
105
-
-
84857568783
-
Mechanisms of loss of functions of human angiogenin variants implicated in amyotrophic lateral sclerosis
-
A.K. Padhi, H. Kumar, S.V. Vasaikar, B. Jayaram, and J. Gomes Mechanisms of loss of functions of human angiogenin variants implicated in amyotrophic lateral sclerosis PLoS One 7 2012 e32479
-
(2012)
PLoS One
, vol.7
, pp. 32479
-
-
Padhi, A.K.1
Kumar, H.2
Vasaikar, S.V.3
Jayaram, B.4
Gomes, J.5
-
106
-
-
71449085791
-
Molecular basis of reduced pyridoxine 5′-phosphate oxidase catalytic activity in neonatal epileptic encephalopathy disorder
-
F.N. Musayev, M.L. Di Salvo, M.A. Saavedra, R. Contestabile, M.S. Ghatge, and A. Haynes Molecular basis of reduced pyridoxine 5′-phosphate oxidase catalytic activity in neonatal epileptic encephalopathy disorder J Biol Chem 284 2009 30949 30956
-
(2009)
J Biol Chem
, vol.284
, pp. 30949-30956
-
-
Musayev, F.N.1
Di Salvo, M.L.2
Saavedra, M.A.3
Contestabile, R.4
Ghatge, M.S.5
Haynes, A.6
-
107
-
-
77956276773
-
Computational analysis of missense mutations causing Snyder-Robinson syndrome
-
Z. Zhang, S. Teng, L. Wang, C.E. Schwartz, and E. Alexov Computational analysis of missense mutations causing Snyder-Robinson syndrome Hum Mutat 31 2010 1043 1049
-
(2010)
Hum Mutat
, vol.31
, pp. 1043-1049
-
-
Zhang, Z.1
Teng, S.2
Wang, L.3
Schwartz, C.E.4
Alexov, E.5
-
109
-
-
59649087258
-
Structure, formation and propagation of amyloid fibrils
-
Y. Goto, H. Yagi, K. Yamaguchi, E. Chatani, and T. Ban Structure, formation and propagation of amyloid fibrils Curr Pharm Des 14 2008 3205 3218
-
(2008)
Curr Pharm des
, vol.14
, pp. 3205-3218
-
-
Goto, Y.1
Yagi, H.2
Yamaguchi, K.3
Chatani, E.4
Ban, T.5
-
110
-
-
39349110541
-
Molecular mechanisms of polypeptide aggregation in human diseases
-
S.D. Khare, and N.V. Dokholyan Molecular mechanisms of polypeptide aggregation in human diseases Curr Protein Pept Sci 8 2007 573 579
-
(2007)
Curr Protein Pept Sci
, vol.8
, pp. 573-579
-
-
Khare, S.D.1
Dokholyan, N.V.2
-
111
-
-
80955166037
-
Defective protein folding and aggregation as the basis of neurodegenerative diseases: The darker aspect of proteins
-
A. Naeem, and N.A. Fazili Defective protein folding and aggregation as the basis of neurodegenerative diseases: the darker aspect of proteins Cell Biochem Biophys 61 2011 237 250
-
(2011)
Cell Biochem Biophys
, vol.61
, pp. 237-250
-
-
Naeem, A.1
Fazili, N.A.2
-
113
-
-
64549119050
-
Structural and functional consequences of the substitution of glycine 65 with arginine in the N-lobe of human transferrin
-
A.B. Mason, P.J. Halbrooks, N.G. James, S.L. Byrne, J.K. Grady, and N.D. Chasteen Structural and functional consequences of the substitution of glycine 65 with arginine in the N-lobe of human transferrin Biochemistry 48 2009 1945 1953
-
(2009)
Biochemistry
, vol.48
, pp. 1945-1953
-
-
Mason, A.B.1
Halbrooks, P.J.2
James, N.G.3
Byrne, S.L.4
Grady, J.K.5
Chasteen, N.D.6
-
114
-
-
72849108234
-
Adaptations of proteins to cellular and subcellular pH
-
B. Garcia-Moreno Adaptations of proteins to cellular and subcellular pH J Biol 8 2009 98
-
(2009)
J Biol
, vol.8
, pp. 98
-
-
Garcia-Moreno, B.1
-
115
-
-
79551474943
-
In silico modeling of pH-optimum of protein-protein binding
-
R.C. Mitra, Z. Zhang, and E. Alexov In silico modeling of pH-optimum of protein-protein binding Proteins 79 2011 925 936
-
(2011)
Proteins
, vol.79
, pp. 925-936
-
-
Mitra, R.C.1
Zhang, Z.2
Alexov, E.3
-
116
-
-
70450248465
-
Evidence for the adaptation of protein pH-dependence to subcellular pH
-
P. Chan, and J. Warwicker Evidence for the adaptation of protein pH-dependence to subcellular pH BMC Biol 7 2009 69
-
(2009)
BMC Biol
, vol.7
, pp. 69
-
-
Chan, P.1
Warwicker, J.2
-
117
-
-
78649658935
-
Two independent histidines, one in human prolactin and one in its receptor, are critical for pH-dependent receptor recognition and activation
-
M.V. Kulkarni, M.C. Tettamanzi, J.W. Murphy, C. Keeler, D.G. Myszka, and N.E. Chayen Two independent histidines, one in human prolactin and one in its receptor, are critical for pH-dependent receptor recognition and activation J Biol Chem 285 2010 38524 38533
-
(2010)
J Biol Chem
, vol.285
, pp. 38524-38533
-
-
Kulkarni, M.V.1
Tettamanzi, M.C.2
Murphy, J.W.3
Keeler, C.4
Myszka, D.G.5
Chayen, N.E.6
-
118
-
-
84866324158
-
In silico investigation of pH-dependence of prolactin and human growth hormone binding to human prolactin receptor
-
10.4208/cicp.170911.131011s
-
L. Wang, S. Witham, Z. Zhang, L. Li, M. Hodsdon, and E. Alexov In silico investigation of pH-dependence of prolactin and human growth hormone binding to human prolactin receptor Commun. Comput. Phys. 13 1 2013 207 222 10.4208/cicp.170911.131011s
-
(2013)
Commun. Comput. Phys.
, vol.13
, Issue.1
, pp. 207-222
-
-
Wang, L.1
Witham, S.2
Zhang, Z.3
Li, L.4
Hodsdon, M.5
Alexov, E.6
-
119
-
-
77956290593
-
KCNJ10 gene mutations causing EAST syndrome (epilepsy, ataxia, sensorineural deafness, and tubulopathy) disrupt channel function
-
M. Reichold, A.A. Zdebik, E. Lieberer, M. Rapedius, K. Schmidt, and S. Bandulik KCNJ10 gene mutations causing EAST syndrome (epilepsy, ataxia, sensorineural deafness, and tubulopathy) disrupt channel function Proc Natl Acad Sci USA 107 2010 14490 14495
-
(2010)
Proc Natl Acad Sci USA
, vol.107
, pp. 14490-14495
-
-
Reichold, M.1
Zdebik, A.A.2
Lieberer, E.3
Rapedius, M.4
Schmidt, K.5
Bandulik, S.6
-
120
-
-
0034100295
-
Mutation-dependent alteration in cellular distribution of peripheral myelin protein 22 in nerve biopsies from Charcot-Marie-Tooth type 1A
-
C.O. Hanemann, D. D'Urso, A.A. Gabreels-Festen, and H.W. Muller Mutation-dependent alteration in cellular distribution of peripheral myelin protein 22 in nerve biopsies from Charcot-Marie-Tooth type 1A Brain 123 2000 1001 1006
-
(2000)
Brain
, vol.123
, pp. 1001-1006
-
-
Hanemann, C.O.1
D'Urso, D.2
Gabreels-Festen, A.A.3
Muller, H.W.4
-
121
-
-
84878652881
-
The role of protonation states in ligand-receptor recognition and binding
-
M. Petukh, S. Stefl, and E. Alexov The role of protonation states in ligand-receptor recognition and binding Curr Pharm Des 19 2012 4182 4190
-
(2012)
Curr Pharm des
, vol.19
, pp. 4182-4190
-
-
Petukh, M.1
Stefl, S.2
Alexov, E.3
-
122
-
-
8344276781
-
NAMD: A parallel, object-oriented molecular dynamics program
-
M.T. Nelson, W. Humphrey, A. Gursoy, A. Dalke, L.V. Kalé, and R.D. Skeel NAMD: a parallel, object-oriented molecular dynamics program Int J Supercomp Applic High Perf Comp 10 1996 251 268
-
(1996)
Int J Supercomp Applic High Perf Comp
, vol.10
, pp. 251-268
-
-
Nelson, M.T.1
Humphrey, W.2
Gursoy, A.3
Dalke, A.4
Kalé, L.V.5
Skeel, R.D.6
-
123
-
-
84986512474
-
CHARMM: A program for macromolecular energy, minimization, and dynamics calculations
-
B.R. Brooks, R.E. Bruccoleri, B.D. Olafson, D.J. States, S. Swaminathan, and M. Karplus CHARMM: a program for macromolecular energy, minimization, and dynamics calculations J Comput Chem 4 1983 187 217
-
(1983)
J Comput Chem
, vol.4
, pp. 187-217
-
-
Brooks, B.R.1
Bruccoleri, R.E.2
Olafson, B.D.3
States, D.J.4
Swaminathan, S.5
Karplus, M.6
-
124
-
-
23444454552
-
The Amber biomolecular simulation programs
-
D.A. Case, T.E. Cheatham, T. Darden, H. Gohlke, R. Luo, and K.M. Merz The Amber biomolecular simulation programs J Comput Chem 26 2005 1668 1688
-
(2005)
J Comput Chem
, vol.26
, pp. 1668-1688
-
-
Case, D.A.1
Cheatham, T.E.2
Darden, T.3
Gohlke, H.4
Luo, R.5
Merz, K.M.6
-
125
-
-
30444448249
-
The GROMOS software for biomolecular simulation: GROMOS05
-
M. Christen, P.H. Hunenberger, D. Bakowies, R. Baron, R. Burgi, and D.P. Geerke The GROMOS software for biomolecular simulation: GROMOS05 J Comput Chem 26 2005 1719 1751
-
(2005)
J Comput Chem
, vol.26
, pp. 1719-1751
-
-
Christen, M.1
Hunenberger, P.H.2
Bakowies, D.3
Baron, R.4
Burgi, R.5
Geerke, D.P.6
-
127
-
-
0033614004
-
Asparagine and glutamine: Using hydrogen atom contacts in the choice of side-chain amide orientation
-
J.M. Word, S.C. Lovell, J.S. Richardson, and D.C. Richardson Asparagine and glutamine: using hydrogen atom contacts in the choice of side-chain amide orientation J Mol Biol 285 1999 1735 1747
-
(1999)
J Mol Biol
, vol.285
, pp. 1735-1747
-
-
Word, J.M.1
Lovell, S.C.2
Richardson, J.S.3
Richardson, D.C.4
-
128
-
-
34547559704
-
PDB2PQR: Expanding and upgrading automated preparation of biomolecular structures for molecular simulations
-
T.J. Dolinsky, P. Czodrowski, H. Li, J.E. Nielsen, J.H. Jensen, and G. Klebe PDB2PQR: expanding and upgrading automated preparation of biomolecular structures for molecular simulations Nucleic Acids Res 35 2007 W522 W525
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Dolinsky, T.J.1
Czodrowski, P.2
Li, H.3
Nielsen, J.E.4
Jensen, J.H.5
Klebe, G.6
-
129
-
-
80053894476
-
HBonanza: A computer algorithm for molecular-dynamics-trajectory hydrogen-bond analysis
-
J.D. Durrant, and J.A. McCammon HBonanza: a computer algorithm for molecular-dynamics-trajectory hydrogen-bond analysis J Mol Graphics Modell 31 2011 5 9
-
(2011)
J Mol Graphics Modell
, vol.31
, pp. 5-9
-
-
Durrant, J.D.1
McCammon, J.A.2
-
130
-
-
84907105229
-
A routine method for the quantification of physical change in melanocytic naevi using digital image processing
-
A.E. Murray A routine method for the quantification of physical change in melanocytic naevi using digital image processing J Audiov Media Med 11 1988 52 57
-
(1988)
J Audiov Media Med
, vol.11
, pp. 52-57
-
-
Murray, A.E.1
-
131
-
-
0036787760
-
Combining conformational flexibility and continuum electrostatics for calculating pK(a)s in proteins
-
R.E. Georgescu, E.G. Alexov, and M.R. Gunner Combining conformational flexibility and continuum electrostatics for calculating pK(a)s in proteins Biophys J 83 2002 1731 1748
-
(2002)
Biophys J
, vol.83
, pp. 1731-1748
-
-
Georgescu, R.E.1
Alexov, E.G.2
Gunner, M.R.3
-
132
-
-
28644432877
-
Very fast empirical prediction and rationalization of protein pKa values
-
H. Li, A.D. Robertson, and J.H. Jensen Very fast empirical prediction and rationalization of protein pKa values Proteins 61 2005 704 721
-
(2005)
Proteins
, vol.61
, pp. 704-721
-
-
Li, H.1
Robertson, A.D.2
Jensen, J.H.3
-
133
-
-
23144457576
-
H++: A server for estimating pKas and adding missing hydrogens to macromolecules
-
J.C. Gordon, J.B. Myers, T. Folta, V. Shoja, L.S. Heath, and A. Onufriev H++: a server for estimating pKas and adding missing hydrogens to macromolecules Nucleic Acids Res 33 2005 W368 W371
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Gordon, J.C.1
Myers, J.B.2
Folta, T.3
Shoja, V.4
Heath, L.S.5
Onufriev, A.6
-
135
-
-
70549108206
-
Macromolecular micromovements: How RNA polymerase translocates
-
V. Svetlov, and E. Nudler Macromolecular micromovements: how RNA polymerase translocates Curr Opin Struct Biol 19 2009 701 707
-
(2009)
Curr Opin Struct Biol
, vol.19
, pp. 701-707
-
-
Svetlov, V.1
Nudler, E.2
-
137
-
-
1442326004
-
Promiscuous beta-strand interactions and the conformational diseases
-
M.K. Chow, D.A. Lomas, and S.P. Bottomley Promiscuous beta-strand interactions and the conformational diseases Curr Med Chem 11 2004 491 499
-
(2004)
Curr Med Chem
, vol.11
, pp. 491-499
-
-
Chow, M.K.1
Lomas, D.A.2
Bottomley, S.P.3
-
138
-
-
84872119730
-
Utilization of protein intrinsic disorder knowledge in structural proteomics
-
C.J. Oldfield, B. Xue, Y.Y. Van, E.L. Ulrich, J.L. Markley, and A.K. Dunker Utilization of protein intrinsic disorder knowledge in structural proteomics Biochim Biophys Acta 1834 2013 487 498
-
(2013)
Biochim Biophys Acta
, vol.1834
, pp. 487-498
-
-
Oldfield, C.J.1
Xue, B.2
Van, Y.Y.3
Ulrich, E.L.4
Markley, J.L.5
Dunker, A.K.6
-
139
-
-
84859701551
-
Orderly order in protein intrinsic disorder distribution: Disorder in 3500 proteomes from viruses and the three domains of life
-
B. Xue, A.K. Dunker, and V.N. Uversky Orderly order in protein intrinsic disorder distribution: disorder in 3500 proteomes from viruses and the three domains of life J Biomol Struct Dyn 30 2012 137 149
-
(2012)
J Biomol Struct Dyn
, vol.30
, pp. 137-149
-
-
Xue, B.1
Dunker, A.K.2
Uversky, V.N.3
-
140
-
-
84885180170
-
Mutations in DNA-binding loop of NFAT5 transcription factor produce unique outcomes on protein-DNA binding and dynamics
-
[Epub ahead of print, PMID: 23734591
-
M. Li, B.A. Shoemaker, R.R. Thangudu, J.D. Ferraris, M.B. Burg, and A.R. Panchenko Mutations in DNA-binding loop of NFAT5 transcription factor produce unique outcomes on protein-DNA binding and dynamics J Phys Chem B 2013 [Epub ahead of print, PMID: 23734591, http://dx.doi.org/10.1021/jp403310a
-
(2013)
J Phys Chem B
-
-
Li, M.1
Shoemaker, B.A.2
Thangudu, R.R.3
Ferraris, J.D.4
Burg, M.B.5
Panchenko, A.R.6
-
141
-
-
84988112508
-
TINKER molecular modeling package
-
J. Ponder, and F. Richards TINKER molecular modeling package J Comput Chem 8 1987 1016 1024
-
(1987)
J Comput Chem
, vol.8
, pp. 1016-1024
-
-
Ponder, J.1
Richards, F.2
-
142
-
-
84878111284
-
A new insight into structural and functional impact of single-nucleotide polymorphisms in PTEN gene
-
C. George Priya Doss, and B. Rajith A new insight into structural and functional impact of single-nucleotide polymorphisms in PTEN gene Cell Biochem Biophys 66 2012 249 263
-
(2012)
Cell Biochem Biophys
, vol.66
, pp. 249-263
-
-
George Priya Doss, C.1
Rajith, B.2
-
143
-
-
84861857352
-
Structural and functional consequences of the cardiac troponin C L48Q Ca(2 +)-sensitizing mutation
-
D. Wang, I.M. Robertson, M.X. Li, M.E. McCully, M.L. Crane, and Z. Luo Structural and functional consequences of the cardiac troponin C L48Q Ca(2 +)-sensitizing mutation Biochemistry 51 2012 4473 4487
-
(2012)
Biochemistry
, vol.51
, pp. 4473-4487
-
-
Wang, D.1
Robertson, I.M.2
Li, M.X.3
McCully, M.E.4
Crane, M.L.5
Luo, Z.6
-
144
-
-
84857926856
-
Structural dynamics associated with intermediate formation in an archetypal conformational disease
-
M.P. Nyon, L. Segu, L.D. Cabrita, G.R. Levy, J. Kirkpatrick, and B.D. Roussel Structural dynamics associated with intermediate formation in an archetypal conformational disease Structure 20 2012 504 512
-
(2012)
Structure
, vol.20
, pp. 504-512
-
-
Nyon, M.P.1
Segu, L.2
Cabrita, L.D.3
Levy, G.R.4
Kirkpatrick, J.5
Roussel, B.D.6
-
145
-
-
84877003219
-
Quantitative structural insight into human variegate porphyria disease
-
B. Wang, X. Wen, X. Qin, Z. Wang, Y. Tan, and Y. Shen Quantitative structural insight into human variegate porphyria disease J Biol Chem 17 2013 11731 11740
-
(2013)
J Biol Chem
, vol.17
, pp. 11731-11740
-
-
Wang, B.1
Wen, X.2
Qin, X.3
Wang, Z.4
Tan, Y.5
Shen, Y.6
-
147
-
-
84861886186
-
Correlation assessment among clinical phenotypes, expression analysis and molecular modeling of 14 novel variations in the human galactose-1-phosphate uridylyltransferase gene
-
M. Tang, A. Facchiano, R. Rachamadugu, F. Calderon, R. Mao, and L. Milanesi Correlation assessment among clinical phenotypes, expression analysis and molecular modeling of 14 novel variations in the human galactose-1-phosphate uridylyltransferase gene Hum Mutat 33 2012 1107 1115
-
(2012)
Hum Mutat
, vol.33
, pp. 1107-1115
-
-
Tang, M.1
Facchiano, A.2
Rachamadugu, R.3
Calderon, F.4
Mao, R.5
Milanesi, L.6
-
148
-
-
84861535115
-
Novel mutation in spectrin-like repeat 1 of dystrophin central domain causes protein misfolding and mild Becker muscular dystrophy
-
G. Acsadi, S.A. Moore, A. Cheron, O. Delalande, L. Bennett, and W. Kupsky Novel mutation in spectrin-like repeat 1 of dystrophin central domain causes protein misfolding and mild Becker muscular dystrophy J Biol Chem 287 2012 18153 18162
-
(2012)
J Biol Chem
, vol.287
, pp. 18153-18162
-
-
Acsadi, G.1
Moore, S.A.2
Cheron, A.3
Delalande, O.4
Bennett, L.5
Kupsky, W.6
-
149
-
-
67650369989
-
Unfoldomics of human diseases: Linking protein intrinsic disorder with diseases
-
V.N. Uversky, C.J. Oldfield, U. Midic, H. Xie, B. Xue, and S. Vucetic Unfoldomics of human diseases: linking protein intrinsic disorder with diseases BMC Genomics 10 2009 S7
-
(2009)
BMC Genomics
, vol.10
, pp. 7
-
-
Uversky, V.N.1
Oldfield, C.J.2
Midic, U.3
Xie, H.4
Xue, B.5
Vucetic, S.6
-
150
-
-
84875723510
-
Protein disorder and human genetic disease
-
John Wiley & Sons, Ltd
-
V.N. Uversky, L.M. Iakoucheva, and A.K. Dunker Protein disorder and human genetic disease eLS 2001 John Wiley & Sons, Ltd
-
(2001)
ELS
-
-
Uversky, V.N.1
Iakoucheva, L.M.2
Dunker, A.K.3
-
151
-
-
84862651054
-
Conformational properties of the disease-causing Z variant of alpha1-antitrypsin revealed by theory and experiment
-
I. Kass, A.S. Knaupp, S.P. Bottomley, and A.M. Buckle Conformational properties of the disease-causing Z variant of alpha1-antitrypsin revealed by theory and experiment Biophys J 102 2012 2856 2865
-
(2012)
Biophys J
, vol.102
, pp. 2856-2865
-
-
Kass, I.1
Knaupp, A.S.2
Bottomley, S.P.3
Buckle, A.M.4
-
152
-
-
0342950220
-
Serine proteinase inhibitor therapy in alpha(1)-antitrypsin inhibitor deficiency and cystic fibrosis
-
G. Doring Serine proteinase inhibitor therapy in alpha(1)-antitrypsin inhibitor deficiency and cystic fibrosis Pediatr Pulmonol 28 1999 363 375
-
(1999)
Pediatr Pulmonol
, vol.28
, pp. 363-375
-
-
Doring, G.1
-
153
-
-
84885175757
-
Systematic investigation of predicted effect of nonsynonymous SNPs in human prion protein gene: A molecular modeling and molecular dynamics study
-
[Epub ahead of print, PMID: 23527686, in press]
-
S. Jahandideh, and D. Zhi Systematic investigation of predicted effect of nonsynonymous SNPs in human prion protein gene: a molecular modeling and molecular dynamics study J Biomol Struct Dyn 2013 [Epub ahead of print, PMID: 23527686, in press]
-
(2013)
J Biomol Struct Dyn
-
-
Jahandideh, S.1
Zhi, D.2
-
154
-
-
84879227620
-
Exploring the mechanism of a regulatory SNP of KLK3 by molecular dynamics simulation
-
Z. Zhang, M. Liu, B. Li, Y. Wang, J. Yue, and L. Liang Exploring the mechanism of a regulatory SNP of KLK3 by molecular dynamics simulation J Biomol Struct Dyn 31 2013 426 440
-
(2013)
J Biomol Struct Dyn
, vol.31
, pp. 426-440
-
-
Zhang, Z.1
Liu, M.2
Li, B.3
Wang, Y.4
Yue, J.5
Liang, L.6
-
155
-
-
79959731094
-
Identification of a novel prostate cancer susceptibility variant in the KLK3 gene transcript
-
Z. Kote-Jarai, A. Amin Al Olama, D. Leongamornlert, M. Tymrakiewicz, E. Saunders, and M. Guy Identification of a novel prostate cancer susceptibility variant in the KLK3 gene transcript Hum Genet 129 2011 687 694
-
(2011)
Hum Genet
, vol.129
, pp. 687-694
-
-
Kote-Jarai, Z.1
Amin Al Olama, A.2
Leongamornlert, D.3
Tymrakiewicz, M.4
Saunders, E.5
Guy, M.6
-
156
-
-
80051480296
-
Kallikrein-related peptidase 3 (KLK3/PSA) single nucleotide polymorphisms and ovarian cancer survival
-
T.A. O'Mara, C.M. Nagle, J. Batra, M.A. Kedda, J.A. Clements, and A.B. Spurdle Kallikrein-related peptidase 3 (KLK3/PSA) single nucleotide polymorphisms and ovarian cancer survival Twin Res Hum Genet 14 2011 323 327
-
(2011)
Twin Res Hum Genet
, vol.14
, pp. 323-327
-
-
O'Mara, T.A.1
Nagle, C.M.2
Batra, J.3
Kedda, M.A.4
Clements, J.A.5
Spurdle, A.B.6
-
157
-
-
82855165043
-
D184E mutation in aquaporin-4 gene impairs water permeability and links to deafness
-
G.P. Nicchia, R. Ficarella, A. Rossi, I. Giangreco, O. Nicolotti, and A. Carotti D184E mutation in aquaporin-4 gene impairs water permeability and links to deafness Neuroscience 197 2011 80 88
-
(2011)
Neuroscience
, vol.197
, pp. 80-88
-
-
Nicchia, G.P.1
Ficarella, R.2
Rossi, A.3
Giangreco, I.4
Nicolotti, O.5
Carotti, A.6
-
158
-
-
0036408751
-
Intrinsic disorder in cell-signaling and cancer-associated proteins
-
L.M. Iakoucheva, C.J. Brown, J.D. Lawson, Z. Obradovic, and A.K. Dunker Intrinsic disorder in cell-signaling and cancer-associated proteins J Mol Biol 323 2002 573 584
-
(2002)
J Mol Biol
, vol.323
, pp. 573-584
-
-
Iakoucheva, L.M.1
Brown, C.J.2
Lawson, J.D.3
Obradovic, Z.4
Dunker, A.K.5
-
159
-
-
84866419575
-
Structural features and domain organization of huntingtin fibrils
-
C.W. Bugg, J.M. Isas, T. Fischer, P.H. Patterson, and R. Langen Structural features and domain organization of huntingtin fibrils J Biol Chem 287 2012 31739 31746
-
(2012)
J Biol Chem
, vol.287
, pp. 31739-31746
-
-
Bugg, C.W.1
Isas, J.M.2
Fischer, T.3
Patterson, P.H.4
Langen, R.5
-
160
-
-
84255163346
-
Changes in predicted protein disorder tendency may contribute to disease risk
-
Y. Hu, Y. Liu, J. Jung, A.K. Dunker, and Y. Wang Changes in predicted protein disorder tendency may contribute to disease risk BMC Genomics 12 2011 S2
-
(2011)
BMC Genomics
, vol.12
, pp. 2
-
-
Hu, Y.1
Liu, Y.2
Jung, J.3
Dunker, A.K.4
Wang, Y.5
-
161
-
-
82655179908
-
Disease mutations in disordered regions - Exception to the rule
-
V. Vacic, and L.M. Iakoucheva Disease mutations in disordered regions - exception to the rule Mol Biosyst 8 2012 27 32
-
(2012)
Mol Biosyst
, vol.8
, pp. 27-32
-
-
Vacic, V.1
Iakoucheva, L.M.2
-
162
-
-
80051517324
-
Structural basis for the Trembler-J phenotype of Charcot-Marie-Tooth disease
-
M. Sakakura, A. Hadziselimovic, Z. Wang, K.L. Schey, and C.R. Sanders Structural basis for the Trembler-J phenotype of Charcot-Marie-Tooth disease Structure 19 2011 1160 1169
-
(2011)
Structure
, vol.19
, pp. 1160-1169
-
-
Sakakura, M.1
Hadziselimovic, A.2
Wang, Z.3
Schey, K.L.4
Sanders, C.R.5
-
163
-
-
78149417303
-
Pathogenic mutations in the hydrophobic core of the human prion protein can promote structural instability and misfolding
-
M.W. van der Kamp, and V. Daggett Pathogenic mutations in the hydrophobic core of the human prion protein can promote structural instability and misfolding J Mol Biol 404 2010 732 748
-
(2010)
J Mol Biol
, vol.404
, pp. 732-748
-
-
Van Der Kamp, M.W.1
Daggett, V.2
-
164
-
-
84892988933
-
Molecular dynamics simulations show how the FMRP Ile304Asn mutation destabilizes the KH2 domain structure and affects its function
-
[Epub ahead of print, PMID: 23527791, in press]
-
D. Di Marino, T. Achsel, C. Lacoux, M. Falconi, and C. Bagni Molecular dynamics simulations show how the FMRP Ile304Asn mutation destabilizes the KH2 domain structure and affects its function J Biomol Struct Dyn 2013 [Epub ahead of print, PMID: 23527791, in press]
-
(2013)
J Biomol Struct Dyn
-
-
Di Marino, D.1
Achsel, T.2
Lacoux, C.3
Falconi, M.4
Bagni, C.5
-
166
-
-
34250195718
-
Relating destabilizing regions to known functional sites in proteins
-
B.H. Dessailly, M.F. Lensink, and S.J. Wodak Relating destabilizing regions to known functional sites in proteins BMC Bioinf 8 2007 141
-
(2007)
BMC Bioinf
, vol.8
, pp. 141
-
-
Dessailly, B.H.1
Lensink, M.F.2
Wodak, S.J.3
-
167
-
-
0035965145
-
Prediction of functionally important residues based solely on the computed energetics of protein structure
-
A.H. Elcock Prediction of functionally important residues based solely on the computed energetics of protein structure J Mol Biol 312 2001 885 896
-
(2001)
J Mol Biol
, vol.312
, pp. 885-896
-
-
Elcock, A.H.1
-
168
-
-
84872474093
-
Residue mutations and their impact on protein structure and function: Detecting beneficial and pathogenic changes
-
R.A. Studer, B.H. Dessailly, and C.A. Orengo Residue mutations and their impact on protein structure and function: detecting beneficial and pathogenic changes Biochem J 449 2013 581 594
-
(2013)
Biochem J
, vol.449
, pp. 581-594
-
-
Studer, R.A.1
Dessailly, B.H.2
Orengo, C.A.3
-
169
-
-
0026723477
-
Effect of active site residues in barnase on activity and stability
-
E.M. Meiering, L. Serrano, and A.R. Fersht Effect of active site residues in barnase on activity and stability J Mol Biol 225 1992 585 589
-
(1992)
J Mol Biol
, vol.225
, pp. 585-589
-
-
Meiering, E.M.1
Serrano, L.2
Fersht, A.R.3
-
171
-
-
6944227836
-
Automated prediction of protein function and detection of functional sites from structure
-
F. Pazos, and M.J. Sternberg Automated prediction of protein function and detection of functional sites from structure Proc Natl Acad Sci USA 101 2004 14754 14759
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 14754-14759
-
-
Pazos, F.1
Sternberg, M.J.2
-
172
-
-
34547575992
-
Firestar - Prediction of functionally important residues using structural templates and alignment reliability
-
G. Lopez, A. Valencia, and M.L. Tress firestar - prediction of functionally important residues using structural templates and alignment reliability Nucleic Acids Res 35 2007 W573 W577
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Lopez, G.1
Valencia, A.2
Tress, M.L.3
-
173
-
-
84857784008
-
IBIS (Inferred Biomolecular Interaction Server) reports, predicts and integrates multiple types of conserved interactions for proteins
-
B.A. Shoemaker, D. Zhang, M. Tyagi, R.R. Thangudu, J.H. Fong, and A. Marchler-Bauer IBIS (Inferred Biomolecular Interaction Server) reports, predicts and integrates multiple types of conserved interactions for proteins Nucleic Acids Res 40 2012 D834 D840
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Shoemaker, B.A.1
Zhang, D.2
Tyagi, M.3
Thangudu, R.R.4
Fong, J.H.5
Marchler-Bauer, A.6
-
174
-
-
74549149999
-
Predicting protein ligand binding sites by combining evolutionary sequence conservation and 3D structure
-
J.A. Capra, R.A. Laskowski, J.M. Thornton, M. Singh, and T.A. Funkhouser Predicting protein ligand binding sites by combining evolutionary sequence conservation and 3D structure PLoS Comput Biol 5 2009 e1000585
-
(2009)
PLoS Comput Biol
, vol.5
, pp. 1000585
-
-
Capra, J.A.1
Laskowski, R.A.2
Thornton, J.M.3
Singh, M.4
Funkhouser, T.A.5
-
175
-
-
84874761289
-
Enhancing human spermine synthase activity by engineered mutations
-
Z. Zhang, Y. Zheng, M. Petukh, A. Pegg, Y. Ikeguchi, and E. Alexov Enhancing human spermine synthase activity by engineered mutations PLoS Comput Biol 9 2013 e1002924
-
(2013)
PLoS Comput Biol
, vol.9
, pp. 1002924
-
-
Zhang, Z.1
Zheng, Y.2
Petukh, M.3
Pegg, A.4
Ikeguchi, Y.5
Alexov, E.6
-
176
-
-
33747399806
-
Specific mutations in ABCA1 have discrete effects on ABCA1 function and lipid phenotypes both in vivo and in vitro
-
R.R. Singaraja, H. Visscher, E.R. James, A. Chroni, J.M. Coutinho, and L.R. Brunham Specific mutations in ABCA1 have discrete effects on ABCA1 function and lipid phenotypes both in vivo and in vitro Circ Res 99 2006 389 397
-
(2006)
Circ Res
, vol.99
, pp. 389-397
-
-
Singaraja, R.R.1
Visscher, H.2
James, E.R.3
Chroni, A.4
Coutinho, J.M.5
Brunham, L.R.6
-
177
-
-
67650529056
-
Sodium taurocholate-dependent lipid efflux by ABCA1: Effects of W590S mutation on lipid translocation and apolipoprotein A-I dissociation
-
K. Nagao, Y. Zhao, K. Takahashi, Y. Kimura, and K. Ueda Sodium taurocholate-dependent lipid efflux by ABCA1: effects of W590S mutation on lipid translocation and apolipoprotein A-I dissociation J Lipid Res 50 2009 1165 1172
-
(2009)
J Lipid Res
, vol.50
, pp. 1165-1172
-
-
Nagao, K.1
Zhao, Y.2
Takahashi, K.3
Kimura, Y.4
Ueda, K.5
-
178
-
-
79953229584
-
Molecular characterization of the NPC1L1 variants identified from cholesterol low absorbers
-
L.J. Wang, J. Wang, N. Li, L. Ge, B.L. Li, and B.L. Song Molecular characterization of the NPC1L1 variants identified from cholesterol low absorbers J Biol Chem 286 2011 7397 7408
-
(2011)
J Biol Chem
, vol.286
, pp. 7397-7408
-
-
Wang, L.J.1
Wang, J.2
Li, N.3
Ge, L.4
Li, B.L.5
Song, B.L.6
-
179
-
-
0036014925
-
Functional expression of mutations in the human NaCl cotransporter: Evidence for impaired routing mechanisms in Gitelman's syndrome
-
J.C. De Jong, W.A. Van Der Vliet, L.P. Van Den Heuvel, P.H. Willems, N.V. Knoers, and R.J. Bindels Functional expression of mutations in the human NaCl cotransporter: evidence for impaired routing mechanisms in Gitelman's syndrome J Am Soc Nephrol 13 2002 1442 1448
-
(2002)
J Am Soc Nephrol
, vol.13
, pp. 1442-1448
-
-
De Jong, J.C.1
Van Der Vliet, W.A.2
Van Den Heuvel, L.P.3
Willems, P.H.4
Knoers, N.V.5
Bindels, R.J.6
-
180
-
-
7944231535
-
The road to Src
-
G.S. Martin The road to Src Oncogene 23 2004 7910 7917
-
(2004)
Oncogene
, vol.23
, pp. 7910-7917
-
-
Martin, G.S.1
-
181
-
-
70449923872
-
Cancer-associated mutations are preferentially distributed in protein kinase functional sites
-
J.M. Izarzugaza, O.C. Redfern, C.A. Orengo, and A. Valencia Cancer-associated mutations are preferentially distributed in protein kinase functional sites Proteins 77 2009 892 903
-
(2009)
Proteins
, vol.77
, pp. 892-903
-
-
Izarzugaza, J.M.1
Redfern, O.C.2
Orengo, C.A.3
Valencia, A.4
-
182
-
-
84860870716
-
Oncogenic mutations counteract intrinsic disorder in the EGFR kinase and promote receptor dimerization
-
Y. Shan, M.P. Eastwood, X. Zhang, E.T. Kim, A. Arkhipov, and R.O. Dror Oncogenic mutations counteract intrinsic disorder in the EGFR kinase and promote receptor dimerization Cell 149 2012 860 870
-
(2012)
Cell
, vol.149
, pp. 860-870
-
-
Shan, Y.1
Eastwood, M.P.2
Zhang, X.3
Kim, E.T.4
Arkhipov, A.5
Dror, R.O.6
-
183
-
-
33847406095
-
Structures of lung cancer-derived EGFR mutants and inhibitor complexes: Mechanism of activation and insights into differential inhibitor sensitivity
-
C.H. Yun, T.J. Boggon, Y. Li, M.S. Woo, H. Greulich, and M. Meyerson Structures of lung cancer-derived EGFR mutants and inhibitor complexes: mechanism of activation and insights into differential inhibitor sensitivity Cancer Cell 11 2007 217 227
-
(2007)
Cancer Cell
, vol.11
, pp. 217-227
-
-
Yun, C.H.1
Boggon, T.J.2
Li, Y.3
Woo, M.S.4
Greulich, H.5
Meyerson, M.6
-
184
-
-
33745002702
-
An allosteric mechanism for activation of the kinase domain of epidermal growth factor receptor
-
X. Zhang, J. Gureasko, K. Shen, P.A. Cole, and J. Kuriyan An allosteric mechanism for activation of the kinase domain of epidermal growth factor receptor Cell 125 2006 1137 1149
-
(2006)
Cell
, vol.125
, pp. 1137-1149
-
-
Zhang, X.1
Gureasko, J.2
Shen, K.3
Cole, P.A.4
Kuriyan, J.5
-
185
-
-
40049099220
-
The T790M mutation in EGFR kinase causes drug resistance by increasing the affinity for ATP
-
C.H. Yun, K.E. Mengwasser, A.V. Toms, M.S. Woo, H. Greulich, and K.K. Wong The T790M mutation in EGFR kinase causes drug resistance by increasing the affinity for ATP Proc Natl Acad Sci USA 105 2008 2070 2075
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 2070-2075
-
-
Yun, C.H.1
Mengwasser, K.E.2
Toms, A.V.3
Woo, M.S.4
Greulich, H.5
Wong, K.K.6
-
186
-
-
70149117469
-
Hierarchical modeling of activation mechanisms in the ABL and EGFR kinase domains: Thermodynamic and mechanistic catalysts of kinase activation by cancer mutations
-
A. Dixit, and G.M. Verkhivker Hierarchical modeling of activation mechanisms in the ABL and EGFR kinase domains: thermodynamic and mechanistic catalysts of kinase activation by cancer mutations PLoS Comput Biol 5 2009 e1000487
-
(2009)
PLoS Comput Biol
, vol.5
, pp. 1000487
-
-
Dixit, A.1
Verkhivker, G.M.2
-
187
-
-
84867468266
-
Oncogenic potential is related to activating effect of cancer single and double somatic mutations in receptor tyrosine kinases
-
K. Hashimoto, I.B. Rogozin, and A.R. Panchenko Oncogenic potential is related to activating effect of cancer single and double somatic mutations in receptor tyrosine kinases Hum Mutat 33 2012 1566 1575
-
(2012)
Hum Mutat
, vol.33
, pp. 1566-1575
-
-
Hashimoto, K.1
Rogozin, I.B.2
Panchenko, A.R.3
-
188
-
-
0037022293
-
The unexpected landscape of in vivo somatic mutation in a human epithelial cell lineage
-
L.M. Colgin, A.F. Hackmann, M.J. Emond, and R.J. Monnat The unexpected landscape of in vivo somatic mutation in a human epithelial cell lineage Proc Natl Acad Sci USA 99 2002 1437 1442
-
(2002)
Proc Natl Acad Sci USA
, vol.99
, pp. 1437-1442
-
-
Colgin, L.M.1
Hackmann, A.F.2
Emond, M.J.3
Monnat, R.J.4
-
189
-
-
73349129387
-
Closely spaced multiple mutations as potential signatures of transient hypermutability in human genes
-
J.M. Chen, C. Ferec, and D.N. Cooper Closely spaced multiple mutations as potential signatures of transient hypermutability in human genes Hum Mutat 30 2009 1435 1448
-
(2009)
Hum Mutat
, vol.30
, pp. 1435-1448
-
-
Chen, J.M.1
Ferec, C.2
Cooper, D.N.3
-
190
-
-
56649109612
-
Epidemiology of doublet/multiplet mutations in lung cancers: Evidence that a subset arises by chronocoordinate events
-
Z. Chen, J. Feng, C.H. Buzin, and S.S. Sommer Epidemiology of doublet/multiplet mutations in lung cancers: evidence that a subset arises by chronocoordinate events PLoS One 3 2008 e3714
-
(2008)
PLoS One
, vol.3
, pp. 3714
-
-
Chen, Z.1
Feng, J.2
Buzin, C.H.3
Sommer, S.S.4
-
191
-
-
0032778582
-
Multiple mutations of the p53 gene in human mammary carcinoma
-
L. Meng, L. Lin, H. Zhang, M. Nassiri, A.R. Morales, and M. Nadji Multiple mutations of the p53 gene in human mammary carcinoma Mutat Res 435 1999 263 269
-
(1999)
Mutat Res
, vol.435
, pp. 263-269
-
-
Meng, L.1
Lin, L.2
Zhang, H.3
Nassiri, M.4
Morales, A.R.5
Nadji, M.6
-
192
-
-
0028866435
-
The Swedish mutation causes early-onset Alzheimer's disease by beta-secretase cleavage within the secretory pathway
-
C. Haass, C.A. Lemere, A. Capell, M. Citron, P. Seubert, and D. Schenk The Swedish mutation causes early-onset Alzheimer's disease by beta-secretase cleavage within the secretory pathway Nat Med 1 1995 1291 1296
-
(1995)
Nat Med
, vol.1
, pp. 1291-1296
-
-
Haass, C.1
Lemere, C.A.2
Capell, A.3
Citron, M.4
Seubert, P.5
Schenk, D.6
-
193
-
-
0345732648
-
Fabry disease: Characterization of alpha-galactosidase A double mutations and the D313Y plasma enzyme pseudodeficiency allele
-
M. Yasuda, J. Shabbeer, S.D. Benson, I. Maire, R.M. Burnett, and R.J. Desnick Fabry disease: characterization of alpha-galactosidase A double mutations and the D313Y plasma enzyme pseudodeficiency allele Hum Mutat 22 2003 486 492
-
(2003)
Hum Mutat
, vol.22
, pp. 486-492
-
-
Yasuda, M.1
Shabbeer, J.2
Benson, S.D.3
Maire, I.4
Burnett, R.M.5
Desnick, R.J.6
-
194
-
-
77949465285
-
Structural and functional restraints on the occurrence of single amino acid variations in human proteins
-
S. Gong, and T.L. Blundell Structural and functional restraints on the occurrence of single amino acid variations in human proteins PLoS One 5 2010 e9186
-
(2010)
PLoS One
, vol.5
, pp. 9186
-
-
Gong, S.1
Blundell, T.L.2
|