-
2
-
-
0026722407
-
Origins of genes: "big bang" or continuous creation?
-
Keese PK, Gibbs A, (1992) Origins of genes: "big bang" or continuous creation? Proc Natl Acad Sci U S A 89: 9489-9493.
-
(1992)
Proc Natl Acad Sci U S A
, vol.89
, pp. 9489-9493
-
-
Keese, P.K.1
Gibbs, A.2
-
3
-
-
33645539406
-
Origin and evolution of overlapping genes in the family Microviridae
-
Pavesi A, (2006) Origin and evolution of overlapping genes in the family Microviridae. J Gen Virol 87: 1013-1017.
-
(2006)
J Gen Virol
, vol.87
, pp. 1013-1017
-
-
Pavesi, A.1
-
4
-
-
77049090444
-
Evidence for ribosomal frameshifting and a novel overlapping gene in the genomes of insect-specific flaviviruses
-
Firth AE, Blitvich BJ, Wills NM, Miller CL, Atkins JF, (2010) Evidence for ribosomal frameshifting and a novel overlapping gene in the genomes of insect-specific flaviviruses. Virology 399: 153-166.
-
(2010)
Virology
, vol.399
, pp. 153-166
-
-
Firth, A.E.1
Blitvich, B.J.2
Wills, N.M.3
Miller, C.L.4
Atkins, J.F.5
-
5
-
-
70349737853
-
Overlapping genes produce proteins with unusual sequence properties and offer insight into de novo protein creation
-
Rancurel C, Khosravi M, Dunker AK, Romero PR, Karlin D, (2009) Overlapping genes produce proteins with unusual sequence properties and offer insight into de novo protein creation. J Virol 83: 10719-10736.
-
(2009)
J Virol
, vol.83
, pp. 10719-10736
-
-
Rancurel, C.1
Khosravi, M.2
Dunker, A.K.3
Romero, P.R.4
Karlin, D.5
-
6
-
-
84869060468
-
Evolution of viral proteins originated de novo by overprinting
-
Sabath N, Wagner A, Karlin D, (2012) Evolution of viral proteins originated de novo by overprinting. Mol Biol Evol 29: 3767-3780.
-
(2012)
Mol Biol Evol
, vol.29
, pp. 3767-3780
-
-
Sabath, N.1
Wagner, A.2
Karlin, D.3
-
7
-
-
0017798436
-
Evolution of overlapping genes
-
Miyata T, Yasunaga T, (1978) Evolution of overlapping genes. Nature 272: 532-535.
-
(1978)
Nature
, vol.272
, pp. 532-535
-
-
Miyata, T.1
Yasunaga, T.2
-
8
-
-
0033921799
-
Detection of signature sequences in overlapping genes and prediction of a novel overlapping gene in hepatitis G virus
-
Pavesi A, (2000) Detection of signature sequences in overlapping genes and prediction of a novel overlapping gene in hepatitis G virus. J Mol Evol 50: 284-295.
-
(2000)
J Mol Evol
, vol.50
, pp. 284-295
-
-
Pavesi, A.1
-
9
-
-
0030976687
-
On the informational content of overlapping genes in prokaryotic and eukaryotic viruses
-
Pavesi A, De Iaco B, Granero MI, Porati A, (1997) On the informational content of overlapping genes in prokaryotic and eukaryotic viruses. J Mol Evol 44: 625-631.
-
(1997)
J Mol Evol
, vol.44
, pp. 625-631
-
-
Pavesi, A.1
De Iaco, B.2
Granero, M.I.3
Porati, A.4
-
10
-
-
13844294363
-
Detecting overlapping coding sequences with pairwise alignments
-
Firth AE, Brown CM, (2005) Detecting overlapping coding sequences with pairwise alignments. Bioinformatics 21: 282-292.
-
(2005)
Bioinformatics
, vol.21
, pp. 282-292
-
-
Firth, A.E.1
Brown, C.M.2
-
11
-
-
70350639742
-
A potentially novel overlapping gene in the genomes of Israeli acute paralysis virus and its relatives
-
Sabath N, Price N, Graur D, (2009) A potentially novel overlapping gene in the genomes of Israeli acute paralysis virus and its relatives. Virol J 6: 144.
-
(2009)
Virol J
, vol.6
, pp. 144
-
-
Sabath, N.1
Price, N.2
Graur, D.3
-
12
-
-
44249085878
-
Safety and efficacy of gene transfer for Leber's congenital amaurosis
-
Maguire AM, Simonelli F, Pierce EA, Pugh EN Jr, Mingozzi F, et al. (2008) Safety and efficacy of gene transfer for Leber's congenital amaurosis. N Engl J Med 358: 2240-2248.
-
(2008)
N Engl J Med
, vol.358
, pp. 2240-2248
-
-
Maguire, A.M.1
Simonelli, F.2
Pierce, E.A.3
Pugh Jr., E.N.4
Mingozzi, F.5
-
13
-
-
33644820684
-
Successful transduction of liver in hemophilia by AAV-Factor IX and limitations imposed by the host immune response
-
Manno CS, Pierce GF, Arruda VR, Glader B, Ragni M, et al. (2006) Successful transduction of liver in hemophilia by AAV-Factor IX and limitations imposed by the host immune response. Nat Med 12: 342-347.
-
(2006)
Nat Med
, vol.12
, pp. 342-347
-
-
Manno, C.S.1
Pierce, G.F.2
Arruda, V.R.3
Glader, B.4
Ragni, M.5
-
14
-
-
77957725001
-
Dystrophin immunity in Duchenne's muscular dystrophy
-
Mendell JR, Campbell K, Rodino-Klapac L, Sahenk Z, Shilling C, et al. (2010) Dystrophin immunity in Duchenne's muscular dystrophy. N Engl J Med 363: 1429-1437.
-
(2010)
N Engl J Med
, vol.363
, pp. 1429-1437
-
-
Mendell, J.R.1
Campbell, K.2
Rodino-Klapac, L.3
Sahenk, Z.4
Shilling, C.5
-
15
-
-
84855161388
-
Adenovirus-associated virus vector-mediated gene transfer in hemophilia B
-
Nathwani AC, Tuddenham EG, Rangarajan S, Rosales C, McIntosh J, et al. (2011) Adenovirus-associated virus vector-mediated gene transfer in hemophilia B. N Engl J Med. 365: 2357-2365.
-
(2011)
N Engl J Med
, vol.365
, pp. 2357-2365
-
-
Nathwani, A.C.1
Tuddenham, E.G.2
Rangarajan, S.3
Rosales, C.4
McIntosh, J.5
-
16
-
-
81255179983
-
The assembly-activating protein promotes capsid assembly of different adeno-associated virus serotypes
-
Sonntag F, Kother K, Schmidt K, Weghofer M, Raupp C, et al. (2011) The assembly-activating protein promotes capsid assembly of different adeno-associated virus serotypes. J Virol 85: 12686-12697.
-
(2011)
J Virol
, vol.85
, pp. 12686-12697
-
-
Sonntag, F.1
Kother, K.2
Schmidt, K.3
Weghofer, M.4
Raupp, C.5
-
17
-
-
77953439661
-
A viral assembly factor promotes AAV2 capsid formation in the nucleolus
-
Sonntag F, Schmidt K, Kleinschmidt JA, (2010) A viral assembly factor promotes AAV2 capsid formation in the nucleolus. Proc Natl Acad Sci U S A 107: 10220-10225.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 10220-10225
-
-
Sonntag, F.1
Schmidt, K.2
Kleinschmidt, J.A.3
-
18
-
-
84869208042
-
Properties of the adeno-associated virus assembly-activating protein
-
Naumer M, Sonntag F, Schmidt K, Nieto K, Panke C, et al. (2012) Properties of the adeno-associated virus assembly-activating protein. J Virol 86: 13038-13048.
-
(2012)
J Virol
, vol.86
, pp. 13038-13048
-
-
Naumer, M.1
Sonntag, F.2
Schmidt, K.3
Nieto, K.4
Panke, C.5
-
19
-
-
84862025459
-
Directed evolution of novel adeno-associated viruses for therapeutic gene delivery
-
Bartel MA, Weinstein JR, Schaffer DV, (2012) Directed evolution of novel adeno-associated viruses for therapeutic gene delivery. Gene Ther 19: 694-700.
-
(2012)
Gene Ther
, vol.19
, pp. 694-700
-
-
Bartel, M.A.1
Weinstein, J.R.2
Schaffer, D.V.3
-
20
-
-
44949131860
-
In vitro and in vivo gene therapy vector evolution via multispecies interbreeding and retargeting of adeno-associated viruses
-
Grimm D, Lee JS, Wang L, Desai T, Akache B, et al. (2008) In vitro and in vivo gene therapy vector evolution via multispecies interbreeding and retargeting of adeno-associated viruses. J Virol 82: 5887-5911.
-
(2008)
J Virol
, vol.82
, pp. 5887-5911
-
-
Grimm, D.1
Lee, J.S.2
Wang, L.3
Desai, T.4
Akache, B.5
-
21
-
-
36749056244
-
Dissecting protein structure and function using directed evolution
-
Yuen CM, Liu DR, (2007) Dissecting protein structure and function using directed evolution. Nat Methods 4: 995-997.
-
(2007)
Nat Methods
, vol.4
, pp. 995-997
-
-
Yuen, C.M.1
Liu, D.R.2
-
22
-
-
78149421208
-
A new recombinant adeno-associated virus (AAV)-based random peptide display library system: Infection-defective AAV1.9-3 as a novel detargeted platform for vector evolution
-
Adachi K, Nakai H, (2010) A new recombinant adeno-associated virus (AAV)-based random peptide display library system: Infection-defective AAV1.9-3 as a novel detargeted platform for vector evolution. Gene Ther Regul 5: 31-55.
-
(2010)
Gene Ther Regul
, vol.5
, pp. 31-55
-
-
Adachi, K.1
Nakai, H.2
-
23
-
-
55549089660
-
Accurate whole human genome sequencing using reversible terminator chemistry
-
Bentley DR, Balasubramanian S, Swerdlow HP, Smith GP, Milton J, et al. (2008) Accurate whole human genome sequencing using reversible terminator chemistry. Nature 456: 53-59.
-
(2008)
Nature
, vol.456
, pp. 53-59
-
-
Bentley, D.R.1
Balasubramanian, S.2
Swerdlow, H.P.3
Smith, G.P.4
Milton, J.5
-
24
-
-
0035375033
-
Evolutionary computation
-
Foster JA, (2001) Evolutionary computation. Nat Rev Genet 2: 428-436.
-
(2001)
Nat Rev Genet
, vol.2
, pp. 428-436
-
-
Foster, J.A.1
-
25
-
-
0036678455
-
The atomic structure of adeno-associated virus (AAV-2), a vector for human gene therapy
-
Xie Q, Bu W, Bhatia S, Hare J, Somasundaram T, et al. (2002) The atomic structure of adeno-associated virus (AAV-2), a vector for human gene therapy. Proc Natl Acad Sci U S A 99: 10405-10410.
-
(2002)
Proc Natl Acad Sci U S A
, vol.99
, pp. 10405-10410
-
-
Xie, Q.1
Bu, W.2
Bhatia, S.3
Hare, J.4
Somasundaram, T.5
-
26
-
-
0020475449
-
A simple method for displaying the hydropathic character of a protein
-
Kyte J, Doolittle RF, (1982) A simple method for displaying the hydropathic character of a protein. J Mol Biol 157: 105-132.
-
(1982)
J Mol Biol
, vol.157
, pp. 105-132
-
-
Kyte, J.1
Doolittle, R.F.2
-
27
-
-
0029804192
-
Identification and application of the concepts important for accurate and reliable protein secondary structure prediction
-
King RD, Sternberg MJ, (1996) Identification and application of the concepts important for accurate and reliable protein secondary structure prediction. Protein Sci 5: 2298-2310.
-
(1996)
Protein Sci
, vol.5
, pp. 2298-2310
-
-
King, R.D.1
Sternberg, M.J.2
-
28
-
-
0033851104
-
Mutational analysis of the adeno-associated virus type 2 (AAV2) capsid gene and construction of AAV2 vectors with altered tropism
-
Wu P, Xiao W, Conlon T, Hughes J, Agbandje-McKenna M, et al. (2000) Mutational analysis of the adeno-associated virus type 2 (AAV2) capsid gene and construction of AAV2 vectors with altered tropism. J Virol 74: 8635-8647.
-
(2000)
J Virol
, vol.74
, pp. 8635-8647
-
-
Wu, P.1
Xiao, W.2
Conlon, T.3
Hughes, J.4
Agbandje-McKenna, M.5
-
29
-
-
33744457709
-
A novel method for detecting intramolecular coevolution: adding a further dimension to selective constraints analyses
-
Fares MA, Travers SA, (2006) A novel method for detecting intramolecular coevolution: adding a further dimension to selective constraints analyses. Genetics 173: 9-23.
-
(2006)
Genetics
, vol.173
, pp. 9-23
-
-
Fares, M.A.1
Travers, S.A.2
-
30
-
-
69549084780
-
A computational approach identifies two regions of Hepatitis C Virus E1 protein as interacting domains involved in viral fusion process
-
Bruni R, Costantino A, Tritarelli E, Marcantonio C, Ciccozzi M, et al. (2009) A computational approach identifies two regions of Hepatitis C Virus E1 protein as interacting domains involved in viral fusion process. BMC Struct Biol 9: 48.
-
(2009)
BMC Struct Biol
, vol.9
, pp. 48
-
-
Bruni, R.1
Costantino, A.2
Tritarelli, E.3
Marcantonio, C.4
Ciccozzi, M.5
-
31
-
-
84864564078
-
Computational identification of novel amino-acid interactions in HIV Gag via correlated evolution
-
Kalinina OV, Oberwinkler H, Glass B, Krausslich HG, Russell RB, et al. (2012) Computational identification of novel amino-acid interactions in HIV Gag via correlated evolution. PLoS One 7: e42468.
-
(2012)
PLoS One
, vol.7
-
-
Kalinina, O.V.1
Oberwinkler, H.2
Glass, B.3
Krausslich, H.G.4
Russell, R.B.5
-
32
-
-
37549013377
-
A study of the coevolutionary patterns operating within the env gene of the HIV-1 group M subtypes
-
Travers SA, Tully DC, McCormack GP, Fares MA, (2007) A study of the coevolutionary patterns operating within the env gene of the HIV-1 group M subtypes. Mol Biol Evol 24: 2787-2801.
-
(2007)
Mol Biol Evol
, vol.24
, pp. 2787-2801
-
-
Travers, S.A.1
Tully, D.C.2
McCormack, G.P.3
Fares, M.A.4
-
33
-
-
0027297096
-
Covariation of mutations in the V3 loop of human immunodeficiency virus type 1 envelope protein: an information theoretic analysis
-
Korber BT, Farber RM, Wolpert DH, Lapedes AS, (1993) Covariation of mutations in the V3 loop of human immunodeficiency virus type 1 envelope protein: an information theoretic analysis. Proc Natl Acad Sci U S A 90: 7176-7180.
-
(1993)
Proc Natl Acad Sci U S A
, vol.90
, pp. 7176-7180
-
-
Korber, B.T.1
Farber, R.M.2
Wolpert, D.H.3
Lapedes, A.S.4
-
34
-
-
77954150960
-
Molecular coevolution of kisspeptins and their receptors from fish to mammals
-
Um HN, Han JM, Hwang JI, Hong SI, Vaudry H, et al. (2010) Molecular coevolution of kisspeptins and their receptors from fish to mammals. Ann N Y Acad Sci 1200: 67-74.
-
(2010)
Ann N Y Acad Sci
, vol.1200
, pp. 67-74
-
-
Um, H.N.1
Han, J.M.2
Hwang, J.I.3
Hong, S.I.4
Vaudry, H.5
-
35
-
-
0033607305
-
Coexpression of factor VIII heavy and light chain adeno-associated viral vectors produces biologically active protein
-
Burton M, Nakai H, Colosi P, Cunningham J, Mitchell R, et al. (1999) Coexpression of factor VIII heavy and light chain adeno-associated viral vectors produces biologically active protein. Proc Natl Acad Sci USA 96: 12725-12730.
-
(1999)
Proc Natl Acad Sci USA
, vol.96
, pp. 12725-12730
-
-
Burton, M.1
Nakai, H.2
Colosi, P.3
Cunningham, J.4
Mitchell, R.5
-
36
-
-
0141482003
-
Preclinical in vivo evaluation of pseudotyped adeno-associated virus vectors for liver gene therapy
-
Grimm D, Zhou S, Nakai H, Thomas CE, Storm TA, et al. (2003) Preclinical in vivo evaluation of pseudotyped adeno-associated virus vectors for liver gene therapy. Blood 102: 2412-2419.
-
(2003)
Blood
, vol.102
, pp. 2412-2419
-
-
Grimm, D.1
Zhou, S.2
Nakai, H.3
Thomas, C.E.4
Storm, T.A.5
-
37
-
-
53249132629
-
Identification of genetic variants using bar-coded multiplexed sequencing
-
Craig DW, Pearson JV, Szelinger S, Sekar A, Redman M, et al. (2008) Identification of genetic variants using bar-coded multiplexed sequencing. Nat Methods 5: 887-893.
-
(2008)
Nat Methods
, vol.5
, pp. 887-893
-
-
Craig, D.W.1
Pearson, J.V.2
Szelinger, S.3
Sekar, A.4
Redman, M.5
-
39
-
-
2542445427
-
ConSurf: identification of functional regions in proteins by surface-mapping of phylogenetic information
-
Glaser F, Pupko T, Paz I, Bell RE, Bechor-Shental D, et al. (2003) ConSurf: identification of functional regions in proteins by surface-mapping of phylogenetic information. Bioinformatics 19: 163-164.
-
(2003)
Bioinformatics
, vol.19
, pp. 163-164
-
-
Glaser, F.1
Pupko, T.2
Paz, I.3
Bell, R.E.4
Bechor-Shental, D.5
-
40
-
-
30344485673
-
Exploiting heterogeneous sequence properties improves prediction of protein disorder
-
Obradovic Z, Peng K, Vucetic S, Radivojac P, Dunker AK, (2005) Exploiting heterogeneous sequence properties improves prediction of protein disorder. Proteins 61Suppl 7: 176-182.
-
(2005)
Proteins
, vol.61
, pp. 176-182
-
-
Obradovic, Z.1
Peng, K.2
Vucetic, S.3
Radivojac, P.4
Dunker, A.K.5
|