-
1
-
-
43649093915
-
Oxygen sensing by metazoans: the central role of the HIF hydroxylase pathway
-
Kaelin WG, Jr, Ratcliffe PJ. Oxygen sensing by metazoans: the central role of the HIF hydroxylase pathway. Mol Cell 2008; 30: 393-402.
-
(2008)
Mol Cell
, vol.30
, pp. 393-402
-
-
Kaelin Jr, W.G.1
Ratcliffe, P.J.2
-
2
-
-
22544464403
-
Coordinate regulation of the oxygen-dependent degradation domains of hypoxia-inducible factor 1{alpha}
-
Chan DA, Sutphin PD, Yen S-E, Giaccia AJ. Coordinate regulation of the oxygen-dependent degradation domains of hypoxia-inducible factor 1{alpha}. Mol Cell Biol 2005; 25: 6415-6426.
-
(2005)
Mol Cell Biol
, vol.25
, pp. 6415-6426
-
-
Chan, D.A.1
Sutphin, P.D.2
Yen, S.-E.3
Giaccia, A.J.4
-
3
-
-
0041465022
-
HIF prolyl-hydroxylase 2 is the key oxygen sensor setting low steady-state levels of HIF-1alpha in normoxia
-
Berra E, Benizri E, Ginouves A, Volmat V, Roux D, Pouyssegur J. HIF prolyl-hydroxylase 2 is the key oxygen sensor setting low steady-state levels of HIF-1alpha in normoxia. EMBO J 2003; 22: 4082-4090.
-
(2003)
EMBO J
, vol.22
, pp. 4082-4090
-
-
Berra, E.1
Benizri, E.2
Ginouves, A.3
Volmat, V.4
Roux, D.5
Pouyssegur, J.6
-
4
-
-
18444368709
-
Structural basis for the recognition of hydroxyproline in HIF-1α by pVHL
-
Hon WC, Wilson MI, Harlos K, Claridge TDW, Schofield CJ, Pugh CW, Maxwell PH, Ratcliffe PJ, Stuart DI, Jones EY. Structural basis for the recognition of hydroxyproline in HIF-1α by pVHL. Nature 2002; 417: 975-978.
-
(2002)
Nature
, vol.417
, pp. 975-978
-
-
Hon, W.C.1
Wilson, M.I.2
Harlos, K.3
Claridge, T.D.W.4
Schofield, C.J.5
Pugh, C.W.6
Maxwell, P.H.7
Ratcliffe, P.J.8
Stuart, D.I.9
Jones, E.Y.10
-
5
-
-
17944375360
-
C. elegans EGL-9 and mammalian homologs define a family of dioxygenases that regulate HIF by prolyl hydroxylation
-
Epstein ACR, Gleadle JM, McNeill LA, Hewitson KS, O'Rourke J, Mole DR, Mukherji M, Metzen E, Wilson MI, Dhanda A, Tian Y-M, Masson N, Hamilton DL, Jaakkola P, Barstead R, Hodgkin J, Maxwell PH, Pugh CW, Schofield CJ, Ratcliffe PJ. C. elegans EGL-9 and mammalian homologs define a family of dioxygenases that regulate HIF by prolyl hydroxylation. Cell 2001; 107: 43-54.
-
(2001)
Cell
, vol.107
, pp. 43-54
-
-
Epstein, A.C.R.1
Gleadle, J.M.2
McNeill, L.A.3
Hewitson, K.S.4
O'Rourke, J.5
Mole, D.R.6
Mukherji, M.7
Metzen, E.8
Wilson, M.I.9
Dhanda, A.10
Tian, Y.-M.11
Masson, N.12
Hamilton, D.L.13
Jaakkola, P.14
Barstead, R.15
Hodgkin, J.16
Maxwell, P.H.17
Pugh, C.W.18
Schofield, C.J.19
Ratcliffe, P.J.20
more..
-
6
-
-
0035834409
-
A conserved family of prolyl-4-hydroxylases that modify HIF
-
Bruick RK, McKnight SL. A conserved family of prolyl-4-hydroxylases that modify HIF. Science 2001; 294: 1337-1340.
-
(2001)
Science
, vol.294
, pp. 1337-1340
-
-
Bruick, R.K.1
McKnight, S.L.2
-
7
-
-
0035917808
-
2-regulated prolyl hydroxylation
-
2-regulated prolyl hydroxylation. Science 2001; 292: 468-472.
-
(2001)
Science
, vol.292
, pp. 468-472
-
-
Jaakkola, P.1
Mole, D.R.2
Tian, Y.-M.3
Wilson, M.I.4
Gielbert, J.5
Gaskell, S.J.6
Kriegsheim, A.V.7
Hebestreit, H.F.8
Mukherji, M.9
Schofield, C.J.10
Maxwell, P.H.11
Pugh, C.W.12
Ratcliffe, P.J.13
-
8
-
-
0037035851
-
Structure of an HIF-1alpha-pVHL complex: hydroxyproline recognition in signaling
-
Min J-H, Yang H, Ivan M, Gertler F, Kaelin WG, Jr, Pavletich NP. Structure of an HIF-1alpha-pVHL complex: hydroxyproline recognition in signaling. Science 2002; 296: 1886-1889.
-
(2002)
Science
, vol.296
, pp. 1886-1889
-
-
Min, J.-H.1
Yang, H.2
Ivan, M.3
Gertler, F.4
Kaelin Jr, W.G.5
Pavletich, N.P.6
-
9
-
-
0037709883
-
von Hippel-Lindau disease
-
Lonser RR, Glenn GM, Walther M, Chew EY, Libutti SK, Linehan WM, Oldfield EH. von Hippel-Lindau disease. Lancet 2003; 361: 2059-2067.
-
(2003)
Lancet
, vol.361
, pp. 2059-2067
-
-
Lonser, R.R.1
Glenn, G.M.2
Walther, M.3
Chew, E.Y.4
Libutti, S.K.5
Linehan, W.M.6
Oldfield, E.H.7
-
10
-
-
0035339044
-
Contrasting effects on HIF-1{{alpha}} regulation by disease-causing pVHL mutations correlate with patterns of tumourigenesis in von Hippel-Lindau disease
-
Clifford SC, Cockman ME, Smallwood AC, Mole DR, Woodward ER, Maxwell PH, Ratcliffe PJ, Maher ER. Contrasting effects on HIF-1{{alpha}} regulation by disease-causing pVHL mutations correlate with patterns of tumourigenesis in von Hippel-Lindau disease. Hum Mol Genet 2001; 10: 1029-1038.
-
(2001)
Hum Mol Genet
, vol.10
, pp. 1029-1038
-
-
Clifford, S.C.1
Cockman, M.E.2
Smallwood, A.C.3
Mole, D.R.4
Woodward, E.R.5
Maxwell, P.H.6
Ratcliffe, P.J.7
Maher, E.R.8
-
11
-
-
0030804006
-
Genetic predisposition to phaeochromocytoma: analysis of candidate genes GDNF, RET and VHL
-
Woodward ER, Eng C, McMahon R, Voutilainen R, Affara NA, Ponder BAJ, Maher ER. Genetic predisposition to phaeochromocytoma: analysis of candidate genes GDNF, RET and VHL. Hum Mol Genet 1997; 6: 1051-1056.
-
(1997)
Hum Mol Genet
, vol.6
, pp. 1051-1056
-
-
Woodward, E.R.1
Eng, C.2
McMahon, R.3
Voutilainen, R.4
Affara, N.A.5
Ponder, B.A.J.6
Maher, E.R.7
-
12
-
-
16144365122
-
Germline mutations in the Von Hippel-Lindau disease (VHL) gene in families from North America, Europe, and Japan
-
Zbar B, Kishida T, Chen F, Schmidt L, Maher ER, Richards FM, Crossey PA, Webster AR, Affara NA, Ferguson-Smith MA, Brauch H, Glavac D, Neumann HPH, Tisherman S, Mulvihill JJ, Gross DJ, Shuin T, Whaley J, Seizinger B, Kley N, Olschwang S, Boisson C, Richard S, Lips CHM, Linehan WM, Lerman M. Germline mutations in the Von Hippel-Lindau disease (VHL) gene in families from North America, Europe, and Japan. Hum Mutat 1996; 8: 348-357.
-
(1996)
Hum Mutat
, vol.8
, pp. 348-357
-
-
Zbar, B.1
Kishida, T.2
Chen, F.3
Schmidt, L.4
Maher, E.R.5
Richards, F.M.6
Crossey, P.A.7
Webster, A.R.8
Affara, N.A.9
Ferguson-Smith, M.A.10
Brauch, H.11
Glavac, D.12
Neumann, H.P.H.13
Tisherman, S.14
Mulvihill, J.J.15
Gross, D.J.16
Shuin, T.17
Whaley, J.18
Seizinger, B.19
Kley, N.20
Olschwang, S.21
Boisson, C.22
Richard, S.23
Lips, C.H.M.24
Linehan, W.M.25
Lerman, M.26
more..
-
13
-
-
0035253381
-
The von Hippel-Lindau tumor suppressor protein
-
Ivan M, Kaelin WG. The von Hippel-Lindau tumor suppressor protein. Curr Opin Genet Dev 2001; 11: 27-34.
-
(2001)
Curr Opin Genet Dev
, vol.11
, pp. 27-34
-
-
Ivan, M.1
Kaelin, W.G.2
-
14
-
-
4444313558
-
The von Hippel-Lindau tumour suppressor: a multi-faceted inhibitor of tumourigenesis
-
Barry RE, Krek W. The von Hippel-Lindau tumour suppressor: a multi-faceted inhibitor of tumourigenesis. Trends Mol Med 2004; 10: 466-472.
-
(2004)
Trends Mol Med
, vol.10
, pp. 466-472
-
-
Barry, R.E.1
Krek, W.2
-
15
-
-
0033776536
-
Ubiquitination of hypoxia-inducible factor requires direct binding to the beta-domain of the von Hippel-Lindau protein
-
Ohh M, Park CW, Ivan N, Hoffman MA, Kim TY, Huang LE, Pavletich N, Chau V, Kaelin WG. Ubiquitination of hypoxia-inducible factor requires direct binding to the beta-domain of the von Hippel-Lindau protein. Nat Cell Biol 2000; 2: 423-427.
-
(2000)
Nat Cell Biol
, vol.2
, pp. 423-427
-
-
Ohh, M.1
Park, C.W.2
Ivan, N.3
Hoffman, M.A.4
Kim, T.Y.5
Huang, L.E.6
Pavletich, N.7
Chau, V.8
Kaelin, W.G.9
-
16
-
-
9244228551
-
In vitro and in vivo models analyzing von Hippel-Lindau disease-specific mutations
-
Rathmell WK, Hickey MM, Bezman NA, Chmielecki CA, Carraway NC, Simon MC. In vitro and in vivo models analyzing von Hippel-Lindau disease-specific mutations. Cancer Res 2004; 64: 8595-8603.
-
(2004)
Cancer Res
, vol.64
, pp. 8595-8603
-
-
Rathmell, W.K.1
Hickey, M.M.2
Bezman, N.A.3
Chmielecki, C.A.4
Carraway, N.C.5
Simon, M.C.6
-
17
-
-
30944451969
-
Renal cell carcinoma risk in type 2 von Hippel-Lindau disease correlates with defects in pVHL stability and HIF-1 alpha interactions
-
Knauth K, Bex C, Jemth P, Buchberger A. Renal cell carcinoma risk in type 2 von Hippel-Lindau disease correlates with defects in pVHL stability and HIF-1 alpha interactions. Oncogene 2006; 25: 370-377.
-
(2006)
Oncogene
, vol.25
, pp. 370-377
-
-
Knauth, K.1
Bex, C.2
Jemth, P.3
Buchberger, A.4
-
18
-
-
0028981766
-
Germline mutations in the von Hippel-Lindau tumor-suppressor gene: correlations with phenotype
-
Chen F, Kishida T, Yao M, Hustad T, Glavac D, Dean M, Gnarra JR, Orcutt ML, Duh FM, Glenn G, Green J, Hsia YE, Lamiell J, Li H, Wei MH, Schmidt L, Tory K, Kuzmin I, Stackhouse T, Latif F, Linehan WM, Lerman M, Zbar B. Germline mutations in the von Hippel-Lindau tumor-suppressor gene: correlations with phenotype. Hum Mutat 1995; 5: 66-75.
-
(1995)
Hum Mutat
, vol.5
, pp. 66-75
-
-
Chen, F.1
Kishida, T.2
Yao, M.3
Hustad, T.4
Glavac, D.5
Dean, M.6
Gnarra, J.R.7
Orcutt, M.L.8
Duh, F.M.9
Glenn, G.10
Green, J.11
Hsia, Y.E.12
Lamiell, J.13
Li, H.14
Wei, M.H.15
Schmidt, L.16
Tory, K.17
Kuzmin, I.18
Stackhouse, T.19
Latif, F.20
Linehan, W.M.21
Lerman, M.22
Zbar, B.23
more..
-
19
-
-
33846913473
-
Genotype-phenotype correlations in von Hippel-Lindau disease
-
Ong KR, Woodward ER, Killick P, Lim C, Macdonald F, Maher ER. Genotype-phenotype correlations in von Hippel-Lindau disease. Hum Mutat 2007; 28: 143-149.
-
(2007)
Hum Mutat
, vol.28
, pp. 143-149
-
-
Ong, K.R.1
Woodward, E.R.2
Killick, P.3
Lim, C.4
Macdonald, F.5
Maher, E.R.6
-
20
-
-
0037223823
-
Regulation of microtubule stability by the von Hippel-Lindau tumour suppressor protein pVHL
-
Hergovich A, Lisztwan J, Barry R, Ballschmieter P, Krek W. Regulation of microtubule stability by the von Hippel-Lindau tumour suppressor protein pVHL. Nat Cell Biol 2003; 5: 64-70.
-
(2003)
Nat Cell Biol
, vol.5
, pp. 64-70
-
-
Hergovich, A.1
Lisztwan, J.2
Barry, R.3
Ballschmieter, P.4
Krek, W.5
-
22
-
-
0033603394
-
New efficient statistical sequence-dependent structure prediction of short to medium-sized protein loops based on an exhaustive loop classification
-
Wojcik J, Mornon JP, Chomilier J. New efficient statistical sequence-dependent structure prediction of short to medium-sized protein loops based on an exhaustive loop classification. J Mol Biol 1999; 289: 1469-1490.
-
(1999)
J Mol Biol
, vol.289
, pp. 1469-1490
-
-
Wojcik, J.1
Mornon, J.P.2
Chomilier, J.3
-
23
-
-
7844234770
-
Improved detection of germline mutations in the von Hippel Lindau disease tumor suppressor gene
-
Stolle C, Glenn G, Zbar B, Humphrey JS, Choyke P, Walther M, Pack S, Hurley K, Andrey C, Klausner R, Linehan WM. Improved detection of germline mutations in the von Hippel Lindau disease tumor suppressor gene. Hum Mutat 1998; 12: 417-423.
-
(1998)
Hum Mutat
, vol.12
, pp. 417-423
-
-
Stolle, C.1
Glenn, G.2
Zbar, B.3
Humphrey, J.S.4
Choyke, P.5
Walther, M.6
Pack, S.7
Hurley, K.8
Andrey, C.9
Klausner, R.10
Linehan, W.M.11
-
24
-
-
0027986502
-
Germ-line mutations in the von Hipel-Lindau tumor-suppressor gene are similar to somatic von Hippel-Lindau aberrations in sporadi renal-cell carcinoma
-
Whaley JM, Naglich J, Gelbert L, Hsia YE, Lamiell JM, Green JS, Collins D, Neumann HPH, Laidlaw J, Li FP, Kleinszanto AJP, Seizinger BR, Kley N. Germ-line mutations in the von Hipel-Lindau tumor-suppressor gene are similar to somatic von Hippel-Lindau aberrations in sporadi renal-cell carcinoma. Am J Hum Genet 1994; 55: 1092-1102.
-
(1994)
Am J Hum Genet
, vol.55
, pp. 1092-1102
-
-
Whaley, J.M.1
Naglich, J.2
Gelbert, L.3
Hsia, Y.E.4
Lamiell, J.M.5
Green, J.S.6
Collins, D.7
Neumann, H.P.H.8
Laidlaw, J.9
Li, F.P.10
Kleinszanto, A.J.P.11
Seizinger, B.R.12
Kley, N.13
-
25
-
-
0028886723
-
Germline mutations in the von Hippel-Lindau disease (VHL) gene in Japanese VHL
-
Kondo K, Sakai N, Kaneko S, Kobayashi K, Hosaka M, Ito S, Fujii S, Yamamoto I, Kim I, Miyagami M, Shidara N, Shinohara N, Koyanagi T, Kato N, Yamanaka H, Kuratu JI, Fujioka M, Nakatsu H, Shimazaki J, Yoshida J, Sugita K, Hirao Y, Okajima E, Tanigawa T, Sato S, Fujino H, Nagata M, Kanayama H, Kagawa S, Yamashima T, Furuta T, Saito Y, Hara T, Murayama KI, Hiratsuka Y, Shimosegawa T, Maekawa M, Miyahara S, Numata K, Kawamura J, Ogawa O, Yoshida O, Miki M, Takeda N, Tanaka R, Kinoshita H, Sekine T, Yokota J, Kakizoe T, Kogawa T, Kanno H, Yao M, Shuin T. Germline mutations in the von Hippel-Lindau disease (VHL) gene in Japanese VHL. Hum Mol Genet 1995; 4: 2233-2237.
-
(1995)
Hum Mol Genet
, vol.4
, pp. 2233-2237
-
-
Kondo, K.1
Sakai, N.2
Kaneko, S.3
Kobayashi, K.4
Hosaka, M.5
Ito, S.6
Fujii, S.7
Yamamoto, I.8
Kim, I.9
Miyagami, M.10
Shidara, N.11
Shinohara, N.12
Koyanagi, T.13
Kato, N.14
Yamanaka, H.15
Kuratu, J.I.16
Fujioka, M.17
Nakatsu, H.18
Shimazaki, J.19
Yoshida, J.20
Sugita, K.21
Hirao, Y.22
Okajima, E.23
Tanigawa, T.24
Sato, S.25
Fujino, H.26
Nagata, M.27
Kanayama, H.28
Kagawa, S.29
Yamashima, T.30
Furuta, T.31
Saito, Y.32
Hara, T.33
Murayama, K.I.34
Hiratsuka, Y.35
Shimosegawa, T.36
Maekawa, M.37
Miyahara, S.38
Numata, K.39
Kawamura, J.40
Ogawa, O.41
Yoshida, O.42
Miki, M.43
Takeda, N.44
Tanaka, R.45
Kinoshita, H.46
Sekine, T.47
Yokota, J.48
Kakizoe, T.49
Kogawa, T.50
Kanno, H.51
Yao, M.52
Shuin, T.53
more..
-
26
-
-
0027954044
-
Mutations of the VHL tumor-suppressor gene in renal-carcinoma
-
Gnarra JR, Tory K, Weng Y, Schmidt L, Wei MH, Li H, Latif F, Liu S, Chen F, Duh FM, Lubensky I, Duan DR, Florence C, Pozzatti R, Walther MM, Bander NH, Grossman HB, Brauch H, Pomer S, Brooks JD, Isaacs WB, Lerman MI, Zbar B, Linehan WM. Mutations of the VHL tumor-suppressor gene in renal-carcinoma. Nat Genet 1994; 7: 85-90.
-
(1994)
Nat Genet
, vol.7
, pp. 85-90
-
-
Gnarra, J.R.1
Tory, K.2
Weng, Y.3
Schmidt, L.4
Wei, M.H.5
Li, H.6
Latif, F.7
Liu, S.8
Chen, F.9
Duh, F.M.10
Lubensky, I.11
Duan, D.R.12
Florence, C.13
Pozzatti, R.14
Walther, M.M.15
Bander, N.H.16
Grossman, H.B.17
Brauch, H.18
Pomer, S.19
Brooks, J.D.20
Isaacs, W.B.21
Lerman, M.I.22
Zbar, B.23
Linehan, W.M.24
more..
-
27
-
-
0029074707
-
Von Hippel-Lindau (VHL) disease with pheochromocytoma in the black-forest region Germany-evidence for a founder effect
-
Brauch H, Kishida T, Glavac D, Chen F, Pausch F, Hofler H, Latif F, Lerman MI, Zbar B, Neumann HPH. Von Hippel-Lindau (VHL) disease with pheochromocytoma in the black-forest region Germany-evidence for a founder effect. Hum Genet 1995; 95: 551-556.
-
(1995)
Hum Genet
, vol.95
, pp. 551-556
-
-
Brauch, H.1
Kishida, T.2
Glavac, D.3
Chen, F.4
Pausch, F.5
Hofler, H.6
Latif, F.7
Lerman, M.I.8
Zbar, B.9
Neumann, H.P.H.10
-
28
-
-
9344254346
-
Mutations in the VHL tumor suppressor gene and associated lesions in families with von Hippel-Lindau disease from central Europe
-
Glavac D, Neumann HPH, Wittke C, Jaenig H, Masek O, Streicher T, Pausch F, Engelhardt D, Plate KH, Hofler H, Chen F, Zbar B, Brauch H. Mutations in the VHL tumor suppressor gene and associated lesions in families with von Hippel-Lindau disease from central Europe. Hum Genet 1996; 98: 271-280.
-
(1996)
Hum Genet
, vol.98
, pp. 271-280
-
-
Glavac, D.1
Neumann, H.P.H.2
Wittke, C.3
Jaenig, H.4
Masek, O.5
Streicher, T.6
Pausch, F.7
Engelhardt, D.8
Plate, K.H.9
Hofler, H.10
Chen, F.11
Zbar, B.12
Brauch, H.13
-
29
-
-
34248674895
-
The stability effects of protein mutations appear to be universally distributed
-
Tokuriki N, Stricher F, Schymkowitz J, Serrano L, Tawfik DS. The stability effects of protein mutations appear to be universally distributed. J Mol Biol 2007; 369: 1318-1332.
-
(2007)
J Mol Biol
, vol.369
, pp. 1318-1332
-
-
Tokuriki, N.1
Stricher, F.2
Schymkowitz, J.3
Serrano, L.4
Tawfik, D.S.5
-
30
-
-
23144436398
-
The FoldX web server: an online force field
-
Schymkowitz J, Borg J, Stricher F, Nys R, Rousseau F, Serrano L. The FoldX web server: an online force field. Nucleic Acids Res 2005; 33: W382-W388.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Schymkowitz, J.1
Borg, J.2
Stricher, F.3
Nys, R.4
Rousseau, F.5
Serrano, L.6
-
32
-
-
23144461249
-
I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure
-
Capriotti E, Fariselli P, Casadio R. I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure. Nucleic Acids Res 2005; 33: W306-W310.
-
(2005)
Nucleic Acids Res
, vol.33
-
-
Capriotti, E.1
Fariselli, P.2
Casadio, R.3
-
33
-
-
0031023842
-
Prediction of the stability of protein mutants based on structural environment-dependent amino acid substitution and propensity tables
-
Topham CM, Srinivasan N, Blundell TL. Prediction of the stability of protein mutants based on structural environment-dependent amino acid substitution and propensity tables. Protein Eng 1997; 10: 7-21.
-
(1997)
Protein Eng
, vol.10
, pp. 7-21
-
-
Topham, C.M.1
Srinivasan, N.2
Blundell, T.L.3
-
34
-
-
34249777526
-
Eris: an automated estimator of protein stability
-
Yin SY, Ding F, Dokholyan NV. Eris: an automated estimator of protein stability. Nat Methods 2007; 4: 466-467.
-
(2007)
Nat Methods
, vol.4
, pp. 466-467
-
-
Yin, S.Y.1
Ding, F.2
Dokholyan, N.V.3
-
35
-
-
36749018607
-
Modeling backbone flexibility improves protein stability estimation
-
Yin S, Ding F, Dokholyan NV. Modeling backbone flexibility improves protein stability estimation. Structure 2007; 15: 1567-1576.
-
(2007)
Structure
, vol.15
, pp. 1567-1576
-
-
Yin, S.1
Ding, F.2
Dokholyan, N.V.3
-
37
-
-
77955585025
-
Chemical basis for the selectivity of the von Hippel Lindau tumor suppressor pVHL for prolyl-hydroxylated HIF-1 alpha
-
Illingworth CJR, Loenarz C, Schofield CJ, Domene C. Chemical basis for the selectivity of the von Hippel Lindau tumor suppressor pVHL for prolyl-hydroxylated HIF-1 alpha. Biochemistry 2010; 49: 6936-6944.
-
(2010)
Biochemistry
, vol.49
, pp. 6936-6944
-
-
Illingworth, C.J.R.1
Loenarz, C.2
Schofield, C.J.3
Domene, C.4
-
38
-
-
0041784950
-
All-atom empirical potential for molecular modeling and dynamics studies of proteins
-
MacKerell AD, Bashford D, Bellott M, Dunbrack RL, Evanseck JD, Field MJ, Fischer S, Gao J, Guo H, Ha S, Joseph-McCarthy D, Kuchnir L, Kuczera K, Lau FTK, Mattos C, Michnick S, Ngo T, Nguyen DT, Prodhom B, Reiher WE, Roux B, Schlenkrich M, Smith JC, Stote R, Straub J, Watanabe M, Wiorkiewicz-Kuczera J, Yin D, Karplus M. All-atom empirical potential for molecular modeling and dynamics studies of proteins. J Phys Chem B 1998; 102: 3586-3616.
-
(1998)
J Phys Chem B
, vol.102
, pp. 3586-3616
-
-
MacKerell, A.D.1
Bashford, D.2
Bellott, M.3
Dunbrack, R.L.4
Evanseck, J.D.5
Field, M.J.6
Fischer, S.7
Gao, J.8
Guo, H.9
Ha, S.10
Joseph-McCarthy, D.11
Kuchnir, L.12
Kuczera, K.13
Lau, F.T.K.14
Mattos, C.15
Michnick, S.16
Ngo, T.17
Nguyen, D.T.18
Prodhom, B.19
Reiher, W.E.20
Roux, B.21
Schlenkrich, M.22
Smith, J.C.23
Stote, R.24
Straub, J.25
Watanabe, M.26
Wiorkiewicz-Kuczera, J.27
Yin, D.28
Karplus, M.29
more..
-
39
-
-
84986512474
-
CHARMM: a program for macromolecular energy, minimisation, and dynamics calculations
-
Brooks BR, Bruccoleri RE, Olafson BD, States DJ, Swaminathan S, Karplus M. CHARMM: a program for macromolecular energy, minimisation, and dynamics calculations. J Comput Chem 1983; 4: 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
-
40
-
-
0004016501
-
Comparison of simple potential functions for simulations of liquid water
-
Jorgensen WL, Chandrasekhar J, Madura JD, Impey RW, Klein ML. Comparison of simple potential functions for simulations of liquid water. J Chem Phys 1983; 79: 926-935.
-
(1983)
J Chem Phys
, vol.79
, pp. 926-935
-
-
Jorgensen, W.L.1
Chandrasekhar, J.2
Madura, J.D.3
Impey, R.W.4
Klein, M.L.5
-
41
-
-
33645961739
-
A smooth particle mesh Ewald method
-
Essmann U, Perera L, Berkowitz ML, Darden T, Lee H, Pedersen LG. A smooth particle mesh Ewald method. J Chem Phys 1995; 103: 8577-8593.
-
(1995)
J Chem Phys
, vol.103
, pp. 8577-8593
-
-
Essmann, U.1
Perera, L.2
Berkowitz, M.L.3
Darden, T.4
Lee, H.5
Pedersen, L.G.6
-
42
-
-
84986440341
-
SETTLE-an analytical version of the Shake and Rattle algorithm for rigid water models
-
Miyamoto S, Kollman PA. SETTLE-an analytical version of the Shake and Rattle algorithm for rigid water models. J Comput Chem 1992; 13: 952-962.
-
(1992)
J Comput Chem
, vol.13
, pp. 952-962
-
-
Miyamoto, S.1
Kollman, P.A.2
-
43
-
-
33646650705
-
Reversible multiple time scale molecular-dynamics
-
Tuckerman M, Berne BJ, Martyna GJ. Reversible multiple time scale molecular-dynamics. J Chem Phys 1992; 97: 1990-2001.
-
(1992)
J Chem Phys
, vol.97
, pp. 1990-2001
-
-
Tuckerman, M.1
Berne, B.J.2
Martyna, G.J.3
-
44
-
-
36449003554
-
Constant pressure molecular- dynamics algorithms
-
Martyna GJ, Tobias DJ, Klein ML. Constant pressure molecular- dynamics algorithms. J Chem Phys 1994; 101: 4177-4189.
-
(1994)
J Chem Phys
, vol.101
, pp. 4177-4189
-
-
Martyna, G.J.1
Tobias, D.J.2
Klein, M.L.3
-
45
-
-
36449007836
-
Constant-pressure molecular dynamics simulation-the langevin piston method
-
Feller SE, Zhang YH, Pastor RW, Brooks BR. Constant-pressure molecular dynamics simulation-the langevin piston method. J Chem Phys 1995; 103: 4613-4621.
-
(1995)
J Chem Phys
, vol.103
, pp. 4613-4621
-
-
Feller, S.E.1
Zhang, Y.H.2
Pastor, R.W.3
Brooks, B.R.4
-
46
-
-
27344436659
-
Scalable molecular dynamics with NAMD
-
Phillips JC, Braun R, Wang W, Gumbart J, Tajkhorshid E, Villa E, Chipot C, Skeel RD, Kale L, Schulten K. Scalable molecular dynamics with NAMD. J Comput Chem 2005; 26: 1781-1802.
-
(2005)
J Comput Chem
, vol.26
, pp. 1781-1802
-
-
Phillips, J.C.1
Braun, R.2
Wang, W.3
Gumbart, J.4
Tajkhorshid, E.5
Villa, E.6
Chipot, C.7
Skeel, R.D.8
Kale, L.9
Schulten, K.10
-
47
-
-
0042415783
-
Molecular dynamics programs design-NAMD2: greater scalability for parallel molecular dynamics
-
Kale L, Skeel R, Bhandarkar M, Brunner R, Gursoy A, Krawetz N, Philips J, Shinozaki A, Varadarajan K, Schuten K. Molecular dynamics programs design-NAMD2: greater scalability for parallel molecular dynamics. J Comput Phys 1999; 151: 283-312.
-
(1999)
J Comput Phys
, vol.151
, pp. 283-312
-
-
Kale, L.1
Skeel, R.2
Bhandarkar, M.3
Brunner, R.4
Gursoy, A.5
Krawetz, N.6
Philips, J.7
Shinozaki, A.8
Varadarajan, K.9
Schuten, K.10
-
48
-
-
0024292833
-
Aromatic rings act as hydrogen-bond acceptors
-
Levitt M, Perutz MF. Aromatic rings act as hydrogen-bond acceptors. J Mol Biol 1988; 201: 751-754.
-
(1988)
J Mol Biol
, vol.201
, pp. 751-754
-
-
Levitt, M.1
Perutz, M.F.2
-
49
-
-
79251635938
-
Exome sequencing identifies frequent mutation of the SWI/SNF complex gene PBRM1 in renal carcinoma
-
Varela I, Tarpey P, Raine K, Huang D, Ong CK, Stephens P, Davies H, Jones D, Lin ML, Teague J, Bignell G, Butler A, Cho J, Dalgliesh GL, Galappaththige D, Greenman C, Hardy C, Jia MM, Latimer C, Lau KW, Marshall J, McLaren S, Menzies A, Mudie L, Stebbings L, Largaespada DA, Wessels LFA, Richard S, Kahnoski RJ, Anema J, Tuveson DA, Perez-Mancera PA, Mustonen V, Fischer A, Adams DJ, Rust A, Chan-On W, Subimerb C, Dykema K, Furge K, Campbell PJ, Teh BT, Stratton MR, Futreal PA. Exome sequencing identifies frequent mutation of the SWI/SNF complex gene PBRM1 in renal carcinoma. Nature 2011; 469: 539-542.
-
(2011)
Nature
, vol.469
, pp. 539-542
-
-
Varela, I.1
Tarpey, P.2
Raine, K.3
Huang, D.4
Ong, C.K.5
Stephens, P.6
Davies, H.7
Jones, D.8
Lin, M.L.9
Teague, J.10
Bignell, G.11
Butler, A.12
Cho, J.13
Dalgliesh, G.L.14
Galappaththige, D.15
Greenman, C.16
Hardy, C.17
Jia, M.M.18
Latimer, C.19
Lau, K.W.20
Marshall, J.21
McLaren, S.22
Menzies, A.23
Mudie, L.24
Stebbings, L.25
Largaespada, D.A.26
Wessels, L.F.A.27
Richard, S.28
Kahnoski, R.J.29
Anema, J.30
Tuveson, D.A.31
Perez-Mancera, P.A.32
Mustonen, V.33
Fischer, A.34
Adams, D.J.35
Rust, A.36
Chan-On, W.37
Subimerb, C.38
Dykema, K.39
Furge, K.40
Campbell, P.J.41
Teh, B.T.42
Stratton, M.R.43
Futreal, P.A.44
more..
|