-
1
-
-
84948763294
-
Homology-independent metrics for comparative genomics
-
1 Coutinho, T.J., et al. Homology-independent metrics for comparative genomics. Comput. Struct. Biotechnol. J. 13 (2015), 352–357.
-
(2015)
Comput. Struct. Biotechnol. J.
, vol.13
, pp. 352-357
-
-
Coutinho, T.J.1
-
2
-
-
84918817003
-
Identification of a dinucleotide signature that discriminates coding from non–coding long RNAs
-
2 Ulveling, D., et al. Identification of a dinucleotide signature that discriminates coding from non–coding long RNAs. Front. Genet., 5, 2014, 316.
-
(2014)
Front. Genet.
, vol.5
, pp. 316
-
-
Ulveling, D.1
-
3
-
-
0033529862
-
Genome signature comparisons among prokaryote, plasmid, and mitochondrial DNA
-
3 Campbell, A., et al. Genome signature comparisons among prokaryote, plasmid, and mitochondrial DNA. Proc. Natl. Acad. Sci. U. S. A. 96 (1999), 9184–9189.
-
(1999)
Proc. Natl. Acad. Sci. U. S. A.
, vol.96
, pp. 9184-9189
-
-
Campbell, A.1
-
4
-
-
0028931102
-
CpG motifs in bacterial DNA trigger direct B-cell activation
-
4 Krieg, A.M., et al. CpG motifs in bacterial DNA trigger direct B-cell activation. Nature 374 (1995), 546–549.
-
(1995)
Nature
, vol.374
, pp. 546-549
-
-
Krieg, A.M.1
-
5
-
-
46449083518
-
Patterns of evolution and host gene mimicry in influenza and other RNA viruses
-
5 Greenbaum, B.D., et al. Patterns of evolution and host gene mimicry in influenza and other RNA viruses. PLoS Pathog., 4, 2008, e1000079.
-
(2008)
PLoS Pathog.
, vol.4
, pp. e1000079
-
-
Greenbaum, B.D.1
-
6
-
-
84897506284
-
Quantitative theory of entropic forces acting on constrained nucleotide sequences applied to viruses
-
6 Greenbaum, B.D., et al. Quantitative theory of entropic forces acting on constrained nucleotide sequences applied to viruses. Proc. Natl. Acad. Sci. U. S. A. 111 (2014), 5054–5059.
-
(2014)
Proc. Natl. Acad. Sci. U. S. A.
, vol.111
, pp. 5054-5059
-
-
Greenbaum, B.D.1
-
7
-
-
0028221062
-
Why is CpG suppressed in the genomes of virtually all small eukaryotic viruses but not in those of large eukaryotic viruses?
-
7 Karlin, S., et al. Why is CpG suppressed in the genomes of virtually all small eukaryotic viruses but not in those of large eukaryotic viruses?. J. Virol. 68 (1994), 2889–2897.
-
(1994)
J. Virol.
, vol.68
, pp. 2889-2897
-
-
Karlin, S.1
-
8
-
-
0030726485
-
Dinucleotide and stop codon frequencies in single-stranded RNA viruses
-
8 Rima, B.K., McFerran, N.V., Dinucleotide and stop codon frequencies in single-stranded RNA viruses. J. Gen. Virol. 78 (1997), 2859–2870.
-
(1997)
J. Gen. Virol.
, vol.78
, pp. 2859-2870
-
-
Rima, B.K.1
McFerran, N.V.2
-
9
-
-
67650169079
-
Patterns of oligonucleotide sequences in viral and host cell RNA identify mediators of the host innate immune system
-
9 Greenbaum, B.D., et al. Patterns of oligonucleotide sequences in viral and host cell RNA identify mediators of the host innate immune system. PLoS One, 4, 2009, e5969.
-
(2009)
PLoS One
, vol.4
, pp. e5969
-
-
Greenbaum, B.D.1
-
10
-
-
67651085081
-
Virus–host coevolution: common patterns of nucleotide motif usage in Flaviviridae and their hosts
-
10 Lobo, F.P., et al. Virus–host coevolution: common patterns of nucleotide motif usage in Flaviviridae and their hosts. PLoS One, 4, 2009, e6282.
-
(2009)
PLoS One
, vol.4
, pp. e6282
-
-
Lobo, F.P.1
-
11
-
-
84898955095
-
The influence of viral RNA secondary structure on interactions with innate host cell defences
-
11 Witteveldt, J., et al. The influence of viral RNA secondary structure on interactions with innate host cell defences. Nucleic Acids Res. 42 (2014), 3314–3329.
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 3314-3329
-
-
Witteveldt, J.1
-
12
-
-
84914112641
-
On the nucleotide composition and structure of retroviral RNA genomes
-
12 van Hemert, F., et al. On the nucleotide composition and structure of retroviral RNA genomes. Virus Res. 193 (2014), 16–23.
-
(2014)
Virus Res.
, vol.193
, pp. 16-23
-
-
van Hemert, F.1
-
13
-
-
84905399319
-
Human APOBEC3 induced mutation of human immunodeficiency virus type-1 contributes to adaptation and evolution in natural infection
-
13 Kim, E.Y., et al. Human APOBEC3 induced mutation of human immunodeficiency virus type-1 contributes to adaptation and evolution in natural infection. PLoS Pathog., 10, 2014, e1004281.
-
(2014)
PLoS Pathog.
, vol.10
, pp. e1004281
-
-
Kim, E.Y.1
-
14
-
-
84859991845
-
The biased nucleotide composition of HIV-1 triggers type I interferon response and correlates with subtype D increased pathogenicity
-
14 Vabret, N., et al. The biased nucleotide composition of HIV-1 triggers type I interferon response and correlates with subtype D increased pathogenicity. PLoS One, 7, 2012, e33502.
-
(2012)
PLoS One
, vol.7
, pp. e33502
-
-
Vabret, N.1
-
15
-
-
84959181916
-
Synonymous virus genome recoding as a tool to impact viral fitness
-
15 Martinez, M.A., et al. Synonymous virus genome recoding as a tool to impact viral fitness. Trends Microbiol. 24 (2016), 134–147.
-
(2016)
Trends Microbiol.
, vol.24
, pp. 134-147
-
-
Martinez, M.A.1
-
16
-
-
33645215084
-
Modulation of poliovirus replicative fitness in HeLa cells by deoptimization of synonymous codon usage in the capsid region
-
16 Burns, C.C., et al. Modulation of poliovirus replicative fitness in HeLa cells by deoptimization of synonymous codon usage in the capsid region. J. Virol. 80 (2006), 3259–3272.
-
(2006)
J. Virol.
, vol.80
, pp. 3259-3272
-
-
Burns, C.C.1
-
17
-
-
33748923860
-
Reduction of the rate of poliovirus protein synthesis through large-scale codon deoptimization causes attenuation of viral virulence by lowering specific infectivity
-
17 Mueller, S., et al. Reduction of the rate of poliovirus protein synthesis through large-scale codon deoptimization causes attenuation of viral virulence by lowering specific infectivity. J. Virol. 80 (2006), 9687–9696.
-
(2006)
J. Virol.
, vol.80
, pp. 9687-9696
-
-
Mueller, S.1
-
18
-
-
46449120581
-
Virus attenuation by genome-scale changes in codon pair bias
-
18 Coleman, J.R., et al. Virus attenuation by genome-scale changes in codon pair bias. Science 320 (2008), 1784–1787.
-
(2008)
Science
, vol.320
, pp. 1784-1787
-
-
Coleman, J.R.1
-
19
-
-
84880860622
-
Changes in codon-pair bias of human immunodeficiency virus type 1 have profound effects on virus replication in cell culture
-
19 Martrus, G., et al. Changes in codon-pair bias of human immunodeficiency virus type 1 have profound effects on virus replication in cell culture. Retrovirology, 10, 2013, 78.
-
(2013)
Retrovirology
, vol.10
, pp. 78
-
-
Martrus, G.1
-
20
-
-
77954482089
-
Live attenuated influenza virus vaccines by computer-aided rational design
-
20 Mueller, S., et al. Live attenuated influenza virus vaccines by computer-aided rational design. Nat. Biotechnol. 28 (2010), 723–726.
-
(2010)
Nat. Biotechnol.
, vol.28
, pp. 723-726
-
-
Mueller, S.1
-
21
-
-
63349106458
-
The A-rich RNA sequences of HIV-1 pol are important for the synthesis of viral cDNA
-
21 Keating, C.P., et al. The A-rich RNA sequences of HIV-1 pol are important for the synthesis of viral cDNA. Nucleic Acids Res. 37 (2009), 945–956.
-
(2009)
Nucleic Acids Res.
, vol.37
, pp. 945-956
-
-
Keating, C.P.1
-
22
-
-
85003348904
-
RNA virus attenuation by codon pair deoptimisation is an artefact of increases in CpG/UpA dinucleotide frequencies
-
22 Tulloch, F., et al. RNA virus attenuation by codon pair deoptimisation is an artefact of increases in CpG/UpA dinucleotide frequencies. Elife, 3, 2014, e04531.
-
(2014)
Elife
, vol.3
, pp. e04531
-
-
Tulloch, F.1
-
23
-
-
79952858062
-
Oligonucleotide motifs that disappear during the evolution of influenza virus in humans increase alpha interferon secretion by plasmacytoid dendritic cells
-
23 Jimenez-Baranda, S., et al. Oligonucleotide motifs that disappear during the evolution of influenza virus in humans increase alpha interferon secretion by plasmacytoid dendritic cells. J. Virol. 85 (2011), 3893–3904.
-
(2011)
J. Virol.
, vol.85
, pp. 3893-3904
-
-
Jimenez-Baranda, S.1
-
24
-
-
84898943386
-
The influence of CpG and UpA dinucleotide frequencies on RNA virus replication and characterization of the innate cellular pathways underlying virus attenuation and enhanced replication
-
24 Atkinson, N.J., et al. The influence of CpG and UpA dinucleotide frequencies on RNA virus replication and characterization of the innate cellular pathways underlying virus attenuation and enhanced replication. Nucleic Acids Res. 42 (2014), 4527–4545.
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 4527-4545
-
-
Atkinson, N.J.1
-
25
-
-
84961279204
-
Elevation of CpG frequencies in influenza A genome attenuates pathogenicity but enhances host response to infection
-
25 Gaunt, E., et al. Elevation of CpG frequencies in influenza A genome attenuates pathogenicity but enhances host response to infection. Elife, 5, 2016, e12735.
-
(2016)
Elife
, vol.5
, pp. e12735
-
-
Gaunt, E.1
-
26
-
-
84958092731
-
Synonymous deoptimization of foot-and-mouth disease virus causes attenuation in vivo while inducing a strong neutralizing antibody response
-
26 Diaz-San Segundo, F., et al. Synonymous deoptimization of foot-and-mouth disease virus causes attenuation in vivo while inducing a strong neutralizing antibody response. J. Virol. 90 (2016), 1298–1310.
-
(2016)
J. Virol.
, vol.90
, pp. 1298-1310
-
-
Diaz-San Segundo, F.1
-
27
-
-
84948844913
-
Innate immune system activation by viral RNA: how to predict it?
-
27 Kondili, M., et al. Innate immune system activation by viral RNA: how to predict it?. Virology 488 (2016), 169–178.
-
(2016)
Virology
, vol.488
, pp. 169-178
-
-
Kondili, M.1
-
28
-
-
84896998604
-
Large-scale nucleotide optimization of simian immunodeficiency virus reduces its capacity to stimulate type I interferon in vitro
-
28 Vabret, N., et al. Large-scale nucleotide optimization of simian immunodeficiency virus reduces its capacity to stimulate type I interferon in vitro. J. Virol. 88 (2014), 4161–4172.
-
(2014)
J. Virol.
, vol.88
, pp. 4161-4172
-
-
Vabret, N.1
-
29
-
-
1542317550
-
Innate antiviral responses by means of TLR7-mediated recognition of single-stranded RNA
-
29 Diebold, S.S., et al. Innate antiviral responses by means of TLR7-mediated recognition of single-stranded RNA. Science 303 (2004), 1529–1531.
-
(2004)
Science
, vol.303
, pp. 1529-1531
-
-
Diebold, S.S.1
-
30
-
-
1542317578
-
Species-specific recognition of single-stranded RNA via toll-like receptor 7 and 8
-
30 Heil, F., et al. Species-specific recognition of single-stranded RNA via toll-like receptor 7 and 8. Science 303 (2004), 1526–1529.
-
(2004)
Science
, vol.303
, pp. 1526-1529
-
-
Heil, F.1
-
31
-
-
44649137559
-
Identification of RNA sequence motifs stimulating sequence-specific TLR8-dependent immune responses
-
31 Forsbach, A., et al. Identification of RNA sequence motifs stimulating sequence-specific TLR8-dependent immune responses. J. Immunol. 180 (2008), 3729–3738.
-
(2008)
J. Immunol.
, vol.180
, pp. 3729-3738
-
-
Forsbach, A.1
-
32
-
-
84869237288
-
Activation of autoreactive B cells by endogenous TLR7 and TLR3 RNA ligands
-
32 Green, N.M., et al. Activation of autoreactive B cells by endogenous TLR7 and TLR3 RNA ligands. J. Biol. Chem. 287 (2012), 39789–39799.
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 39789-39799
-
-
Green, N.M.1
-
33
-
-
84926395729
-
Toll-like receptor 8 senses degradation products of single-stranded RNA
-
33 Tanji, H., et al. Toll-like receptor 8 senses degradation products of single-stranded RNA. Nat. Struct. Mol. Biol. 22 (2015), 109–115.
-
(2015)
Nat. Struct. Mol. Biol.
, vol.22
, pp. 109-115
-
-
Tanji, H.1
-
34
-
-
84994908842
-
Structural analysis reveals that toll-like receptor 7 is a dual receptor for guanosine and single-stranded RNA
-
34 Zhang, Z., et al. Structural analysis reveals that toll-like receptor 7 is a dual receptor for guanosine and single-stranded RNA. Immunity 45 (2016), 737–748.
-
(2016)
Immunity
, vol.45
, pp. 737-748
-
-
Zhang, Z.1
-
35
-
-
0036088492
-
Human TLR7 or TLR8 independently confer responsiveness to the antiviral compound R-848
-
35 Jurk, M., et al. Human TLR7 or TLR8 independently confer responsiveness to the antiviral compound R-848. Nat. Immunol., 3, 2002, 499.
-
(2002)
Nat. Immunol.
, vol.3
, pp. 499
-
-
Jurk, M.1
-
36
-
-
79952608158
-
Optimal oligonucleotide sequences for TLR9 inhibitory activity in human cells: lack of correlation with TLR9 binding
-
36 Ashman, R.F., et al. Optimal oligonucleotide sequences for TLR9 inhibitory activity in human cells: lack of correlation with TLR9 binding. Int. Immunol. 23 (2011), 203–214.
-
(2011)
Int. Immunol.
, vol.23
, pp. 203-214
-
-
Ashman, R.F.1
-
37
-
-
0034650517
-
Mechanism and function of a newly identified CpG DNA motif in human primary B cells
-
37 Hartmann, G., Krieg, A.M., Mechanism and function of a newly identified CpG DNA motif in human primary B cells. J. Immunol. 164 (2000), 944–953.
-
(2000)
J. Immunol.
, vol.164
, pp. 944-953
-
-
Hartmann, G.1
Krieg, A.M.2
-
38
-
-
84928791608
-
Structural basis of CpG and inhibitory DNA recognition by Toll-like receptor 9
-
38 Ohto, U., et al. Structural basis of CpG and inhibitory DNA recognition by Toll-like receptor 9. Nature 520 (2015), 702–705.
-
(2015)
Nature
, vol.520
, pp. 702-705
-
-
Ohto, U.1
-
39
-
-
84898636091
-
RNA:DNA hybrids are a novel molecular pattern sensed by TLR9
-
39 Rigby, R.E., et al. RNA:DNA hybrids are a novel molecular pattern sensed by TLR9. EMBO J. 33 (2014), 542–558.
-
(2014)
EMBO J.
, vol.33
, pp. 542-558
-
-
Rigby, R.E.1
-
40
-
-
33750976374
-
5′-Triphosphate RNA is the ligand for RIG-I
-
40 Hornung, V., et al. 5′-Triphosphate RNA is the ligand for RIG-I. Science 314 (2006), 994–997.
-
(2006)
Science
, vol.314
, pp. 994-997
-
-
Hornung, V.1
-
41
-
-
80054685883
-
Structural insights into RNA recognition by RIG-I
-
41 Luo, D., et al. Structural insights into RNA recognition by RIG-I. Cell 147 (2011), 409–422.
-
(2011)
Cell
, vol.147
, pp. 409-422
-
-
Luo, D.1
-
42
-
-
80054703126
-
Structural basis for the activation of innate immune pattern-recognition receptor RIG-I by viral RNA
-
42 Kowalinski, E., et al. Structural basis for the activation of innate immune pattern-recognition receptor RIG-I by viral RNA. Cell 147 (2011), 423–435.
-
(2011)
Cell
, vol.147
, pp. 423-435
-
-
Kowalinski, E.1
-
43
-
-
81555204380
-
Structural basis of RNA recognition and activation by innate immune receptor RIG-I
-
43 Jiang, F., et al. Structural basis of RNA recognition and activation by innate immune receptor RIG-I. Nature 479 (2011), 423–427.
-
(2011)
Nature
, vol.479
, pp. 423-427
-
-
Jiang, F.1
-
44
-
-
80051775478
-
RNA helicase retinoic acid-inducible gene I as a sensor of Hantaan virus replication
-
44 Lee, M.H., et al. RNA helicase retinoic acid-inducible gene I as a sensor of Hantaan virus replication. J. Gen. Virol. 92 (2011), 2191–2200.
-
(2011)
J. Gen. Virol.
, vol.92
, pp. 2191-2200
-
-
Lee, M.H.1
-
45
-
-
47949092573
-
Innate immunity induced by composition-dependent RIG-I recognition of hepatitis C virus RNA
-
45 Saito, T., et al. Innate immunity induced by composition-dependent RIG-I recognition of hepatitis C virus RNA. Nature 454 (2008), 523–527.
-
(2008)
Nature
, vol.454
, pp. 523-527
-
-
Saito, T.1
-
46
-
-
84937715615
-
Sequence-specific modifications enhance the broad-spectrum antiviral response activated by RIG-I agonists
-
46 Chiang, C., et al. Sequence-specific modifications enhance the broad-spectrum antiviral response activated by RIG-I agonists. J. Virol. 89 (2015), 8011–8025.
-
(2015)
J. Virol.
, vol.89
, pp. 8011-8025
-
-
Chiang, C.1
-
47
-
-
66149114745
-
Nucleotide sequences and modifications that determine RIG-I/RNA binding and signaling activities
-
47 Uzri, D., Gehrke, L., Nucleotide sequences and modifications that determine RIG-I/RNA binding and signaling activities. J. Virol. 83 (2009), 4174–4184.
-
(2009)
J. Virol.
, vol.83
, pp. 4174-4184
-
-
Uzri, D.1
Gehrke, L.2
-
48
-
-
84901376043
-
In vivo ligands of MDA5 and RIG-I in measles virus–infected cells
-
48 Runge, S., et al. In vivo ligands of MDA5 and RIG-I in measles virus–infected cells. PLoS Pathog., 10, 2014, e1004081.
-
(2014)
PLoS Pathog.
, vol.10
, pp. e1004081
-
-
Runge, S.1
-
49
-
-
84964247470
-
Comparative analysis of viral RNA signatures on different RIG-I-like receptors
-
49 Sanchez David, R.Y., et al. Comparative analysis of viral RNA signatures on different RIG-I-like receptors. Elife, 5, 2016, e11275.
-
(2016)
Elife
, vol.5
, pp. e11275
-
-
Sanchez David, R.Y.1
-
50
-
-
77957997708
-
Preference of RIG-I for short viral RNA molecules in infected cells revealed by next-generation sequencing
-
50 Baum, A., et al. Preference of RIG-I for short viral RNA molecules in infected cells revealed by next-generation sequencing. Proc. Natl. Acad. Sci. U. S. A. 107 (2010), 16303–16308.
-
(2010)
Proc. Natl. Acad. Sci. U. S. A.
, vol.107
, pp. 16303-16308
-
-
Baum, A.1
-
51
-
-
84872604349
-
Structural basis for dsRNA recognition, filament formation, and antiviral signal activation by MDA5
-
51 Wu, B., et al. Structural basis for dsRNA recognition, filament formation, and antiviral signal activation by MDA5. Cell 152 (2013), 276–289.
-
(2013)
Cell
, vol.152
, pp. 276-289
-
-
Wu, B.1
-
52
-
-
84865802844
-
Crystal structure of ISG54 reveals a novel RNA binding structure and potential functional mechanisms
-
52 Yang, Z., et al. Crystal structure of ISG54 reveals a novel RNA binding structure and potential functional mechanisms. Cell Res. 22 (2012), 1328–1338.
-
(2012)
Cell Res.
, vol.22
, pp. 1328-1338
-
-
Yang, Z.1
-
53
-
-
84908397042
-
Stem-loop recognition by DDX17 facilitates miRNA processing and antiviral defense
-
53 Moy, R.H., et al. Stem-loop recognition by DDX17 facilitates miRNA processing and antiviral defense. Cell 158 (2014), 764–777.
-
(2014)
Cell
, vol.158
, pp. 764-777
-
-
Moy, R.H.1
-
54
-
-
84896847445
-
Hippo signaling regulates microprocessor and links cell-density-dependent miRNA biogenesis to cancer
-
54 Mori, M., et al. Hippo signaling regulates microprocessor and links cell-density-dependent miRNA biogenesis to cancer. Cell 156 (2014), 893–906.
-
(2014)
Cell
, vol.156
, pp. 893-906
-
-
Mori, M.1
-
55
-
-
84879408976
-
Structural mechanism of cytosolic DNA sensing by cGAS
-
55 Civril, F., et al. Structural mechanism of cytosolic DNA sensing by cGAS. Nature 498 (2013), 332–337.
-
(2013)
Nature
, vol.498
, pp. 332-337
-
-
Civril, F.1
-
56
-
-
84878309796
-
Cyclic [G(2′,5′)pA(3′,5′)p] is the metazoan second messenger produced by DNA-activated cyclic GMP-AMP synthase
-
56 Gao, P., et al. Cyclic [G(2′,5′)pA(3′,5′)p] is the metazoan second messenger produced by DNA-activated cyclic GMP-AMP synthase. Cell 153 (2013), 1094–1107.
-
(2013)
Cell
, vol.153
, pp. 1094-1107
-
-
Gao, P.1
-
57
-
-
84941954118
-
Sequence-specific activation of the DNA sensor cGAS by Y-form DNA structures as found in primary HIV-1 cDNA
-
57 Herzner, A.M., et al. Sequence-specific activation of the DNA sensor cGAS by Y-form DNA structures as found in primary HIV-1 cDNA. Nat. Immunol. 16 (2015), 1025–1033.
-
(2015)
Nat. Immunol.
, vol.16
, pp. 1025-1033
-
-
Herzner, A.M.1
-
58
-
-
84925412026
-
Sox2 functions as a sequence-specific DNA sensor in neutrophils to initiate innate immunity against microbial infection
-
58 Xia, P., et al. Sox2 functions as a sequence-specific DNA sensor in neutrophils to initiate innate immunity against microbial infection. Nat. Immunol. 16 (2015), 366–375.
-
(2015)
Nat. Immunol.
, vol.16
, pp. 366-375
-
-
Xia, P.1
-
59
-
-
31144448042
-
AU-rich elements and associated factors: are there unifying principles?
-
59 Barreau, C., et al. AU-rich elements and associated factors: are there unifying principles?. Nucleic Acids Res. 33 (2005), 7138–7150.
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 7138-7150
-
-
Barreau, C.1
-
60
-
-
84857464812
-
Networks controlling mRNA decay in the immune system
-
60 Schott, J., Stoecklin, G., Networks controlling mRNA decay in the immune system. Wiley Interdiscip. Rev. RNA 1 (2010), 432–456.
-
(2010)
Wiley Interdiscip. Rev. RNA
, vol.1
, pp. 432-456
-
-
Schott, J.1
Stoecklin, G.2
-
61
-
-
84886001593
-
Cellular mRNA decay protein AUF1 negatively regulates enterovirus and human rhinovirus infections
-
61 Cathcart, A.L., et al. Cellular mRNA decay protein AUF1 negatively regulates enterovirus and human rhinovirus infections. J. Virol. 87 (2013), 10423–10434.
-
(2013)
J. Virol.
, vol.87
, pp. 10423-10434
-
-
Cathcart, A.L.1
-
62
-
-
80053144075
-
Zinc-finger antiviral protein inhibits HIV-1 infection by selectively targeting multiply spliced viral mRNAs for degradation
-
62 Zhu, Y., et al. Zinc-finger antiviral protein inhibits HIV-1 infection by selectively targeting multiply spliced viral mRNAs for degradation. Proc. Natl. Acad. Sci. U. S. A. 108 (2011), 15834–15839.
-
(2011)
Proc. Natl. Acad. Sci. U. S. A.
, vol.108
, pp. 15834-15839
-
-
Zhu, Y.1
-
63
-
-
84861305735
-
Structure of N-terminal domain of ZAP indicates how a zinc-finger protein recognizes complex RNA
-
63 Chen, S., et al. Structure of N-terminal domain of ZAP indicates how a zinc-finger protein recognizes complex RNA. Nat. Struct. Mol. Biol. 19 (2012), 430–435.
-
(2012)
Nat. Struct. Mol. Biol.
, vol.19
, pp. 430-435
-
-
Chen, S.1
-
64
-
-
34547960175
-
Small self-RNA generated by RNase L amplifies antiviral innate immunity
-
64 Malathi, K., et al. Small self-RNA generated by RNase L amplifies antiviral innate immunity. Nature 448 (2007), 816–819.
-
(2007)
Nature
, vol.448
, pp. 816-819
-
-
Malathi, K.1
-
65
-
-
84896045262
-
Structure of human RNase L reveals the basis for regulated RNA decay in the IFN response
-
65 Han, Y., et al. Structure of human RNase L reveals the basis for regulated RNA decay in the IFN response. Science 343 (2014), 1244–1248.
-
(2014)
Science
, vol.343
, pp. 1244-1248
-
-
Han, Y.1
-
66
-
-
84890122841
-
Endogenous retroviruses: acquisition, amplification and taming of genome invaders
-
66 Dewannieux, M., Heidmann, T., Endogenous retroviruses: acquisition, amplification and taming of genome invaders. Curr. Opin. Virol. 3 (2013), 646–656.
-
(2013)
Curr. Opin. Virol.
, vol.3
, pp. 646-656
-
-
Dewannieux, M.1
Heidmann, T.2
-
67
-
-
84899112356
-
The enemy within: endogenous retroelements and autoimmune disease
-
67 Volkman, H.E., Stetson, D.B., The enemy within: endogenous retroelements and autoimmune disease. Nat. Immunol. 15 (2014), 415–422.
-
(2014)
Nat. Immunol.
, vol.15
, pp. 415-422
-
-
Volkman, H.E.1
Stetson, D.B.2
-
68
-
-
84899495767
-
Gain-of-function mutations in IFIH1 cause a spectrum of human disease phenotypes associated with upregulated type I interferon signaling
-
68 Rice, G.I., et al. Gain-of-function mutations in IFIH1 cause a spectrum of human disease phenotypes associated with upregulated type I interferon signaling. Nat. Genet. 46 (2014), 503–509.
-
(2014)
Nat. Genet.
, vol.46
, pp. 503-509
-
-
Rice, G.I.1
-
69
-
-
84947245185
-
Activation of cyclic GMP-AMP synthase by self-DNA causes autoimmune diseases
-
69 Gao, D., et al. Activation of cyclic GMP-AMP synthase by self-DNA causes autoimmune diseases. Proc. Natl. Acad. Sci. U. S. A. 112 (2015), E5699–E5705.
-
(2015)
Proc. Natl. Acad. Sci. U. S. A.
, vol.112
, pp. E5699-E5705
-
-
Gao, D.1
-
70
-
-
84927720839
-
Type I interferon controls propagation of long interspersed element-1
-
70 Yu, Q., et al. Type I interferon controls propagation of long interspersed element-1. J. Biol. Chem. 290 (2015), 10191–10199.
-
(2015)
J. Biol. Chem.
, vol.290
, pp. 10191-10199
-
-
Yu, Q.1
-
71
-
-
84904775469
-
Microarray analysis reveals global modulation of endogenous retroelement transcription by microbes
-
71 Young, G.R., et al. Microarray analysis reveals global modulation of endogenous retroelement transcription by microbes. Retrovirology, 11, 2014, 59.
-
(2014)
Retrovirology
, vol.11
, pp. 59
-
-
Young, G.R.1
-
72
-
-
84944810495
-
The Ro60 autoantigen binds endogenous retroelements and regulates inflammatory gene expression
-
72 Hung, T., et al. The Ro60 autoantigen binds endogenous retroelements and regulates inflammatory gene expression. Science 350 (2015), 455–459.
-
(2015)
Science
, vol.350
, pp. 455-459
-
-
Hung, T.1
-
73
-
-
84919443956
-
MAVS, cGAS, and endogenous retroviruses in T-independent B cell responses
-
73 Zeng, M., et al. MAVS, cGAS, and endogenous retroviruses in T-independent B cell responses. Science 346 (2014), 1486–1492.
-
(2014)
Science
, vol.346
, pp. 1486-1492
-
-
Zeng, M.1
-
74
-
-
84948972914
-
Infection-induced retrotransposon-derived noncoding rnas enhance herpesviral gene expression via the NF-kappaB pathway
-
74 Karijolich, J., et al. Infection-induced retrotransposon-derived noncoding rnas enhance herpesviral gene expression via the NF-kappaB pathway. PLoS Pathog., 11, 2015, e1005260.
-
(2015)
PLoS Pathog.
, vol.11
, pp. e1005260
-
-
Karijolich, J.1
-
75
-
-
84970967206
-
Beyond transcription factors: how oncogenic signalling reshapes the epigenetic landscape
-
75 Liu, F., et al. Beyond transcription factors: how oncogenic signalling reshapes the epigenetic landscape. Nat. Rev. Cancer 16 (2016), 359–372.
-
(2016)
Nat. Rev. Cancer
, vol.16
, pp. 359-372
-
-
Liu, F.1
-
76
-
-
84940381273
-
Inhibiting DNA methylation causes an interferon response in cancer via dsRNA including endogenous retroviruses
-
76 Chiappinelli, K.B., et al. Inhibiting DNA methylation causes an interferon response in cancer via dsRNA including endogenous retroviruses. Cell 162 (2015), 974–986.
-
(2015)
Cell
, vol.162
, pp. 974-986
-
-
Chiappinelli, K.B.1
-
77
-
-
84940403834
-
DNA-demethylating agents target colorectal cancer cells by inducing viral mimicry by endogenous transcripts
-
77 Roulois, D., et al. DNA-demethylating agents target colorectal cancer cells by inducing viral mimicry by endogenous transcripts. Cell 162 (2015), 961–973.
-
(2015)
Cell
, vol.162
, pp. 961-973
-
-
Roulois, D.1
-
78
-
-
79551642322
-
Aberrant overexpression of satellite repeats in pancreatic and other epithelial cancers
-
78 Ting, D.T., et al. Aberrant overexpression of satellite repeats in pancreatic and other epithelial cancers. Science 331 (2011), 593–596.
-
(2011)
Science
, vol.331
, pp. 593-596
-
-
Ting, D.T.1
-
79
-
-
84949257409
-
Distinguishing the immunostimulatory properties of noncoding RNAs expressed in cancer cells
-
79 Tanne, A., et al. Distinguishing the immunostimulatory properties of noncoding RNAs expressed in cancer cells. Proc. Natl. Acad. Sci. U. S. A. 112 (2015), 15154–15159.
-
(2015)
Proc. Natl. Acad. Sci. U. S. A.
, vol.112
, pp. 15154-15159
-
-
Tanne, A.1
-
80
-
-
84949289216
-
Pericentromeric satellite repeat expansions through RNA-derived DNA intermediates in cancer
-
80 Bersani, F., et al. Pericentromeric satellite repeat expansions through RNA-derived DNA intermediates in cancer. Proc. Natl. Acad. Sci. U. S. A. 112 (2015), 15148–15153.
-
(2015)
Proc. Natl. Acad. Sci. U. S. A.
, vol.112
, pp. 15148-15153
-
-
Bersani, F.1
-
81
-
-
84943451638
-
Structural basis for specific recognition of single-stranded RNA by Toll-like receptor 13
-
81 Song, W., et al. Structural basis for specific recognition of single-stranded RNA by Toll-like receptor 13. Nat. Struct. Mol. Biol. 22 (2015), 782–787.
-
(2015)
Nat. Struct. Mol. Biol.
, vol.22
, pp. 782-787
-
-
Song, W.1
-
82
-
-
84877579519
-
Sequence specific detection of bacterial 23S ribosomal RNA by TLR13
-
82 Li, X.D., Chen, Z.J., Sequence specific detection of bacterial 23S ribosomal RNA by TLR13. Elife, 1, 2012, e00102.
-
(2012)
Elife
, vol.1
, pp. e00102
-
-
Li, X.D.1
Chen, Z.J.2
-
83
-
-
84865571191
-
TLR13 recognizes bacterial 23S rRNA devoid of erythromycin resistance-forming modification
-
83 Oldenburg, M., et al. TLR13 recognizes bacterial 23S rRNA devoid of erythromycin resistance-forming modification. Science 337 (2012), 1111–1115.
-
(2012)
Science
, vol.337
, pp. 1111-1115
-
-
Oldenburg, M.1
-
84
-
-
84914680429
-
On the normalization of the minimum free energy of RNAs by sequence length
-
84 Trotta, E., On the normalization of the minimum free energy of RNAs by sequence length. PLoS One, 9, 2014, e113380.
-
(2014)
PLoS One
, vol.9
, pp. e113380
-
-
Trotta, E.1
-
85
-
-
84975860039
-
Nucleotide composition of the Zika virus RNA genome and its codon usage
-
85 van Hemert, F., Berkhout, B., Nucleotide composition of the Zika virus RNA genome and its codon usage. Virol. J., 13, 2016, 95.
-
(2016)
Virol. J.
, vol.13
, pp. 95
-
-
van Hemert, F.1
Berkhout, B.2
-
86
-
-
84930045052
-
On the biased nucleotide composition of the human coronavirus RNA genome
-
86 Berkhout, B., van Hemert, F., On the biased nucleotide composition of the human coronavirus RNA genome. Virus Res. 202 (2015), 41–47.
-
(2015)
Virus Res.
, vol.202
, pp. 41-47
-
-
Berkhout, B.1
van Hemert, F.2
-
87
-
-
0035909372
-
Recognition of double-stranded RNA and activation of NF-kappaB by Toll-like receptor 3
-
87 Alexopoulou, L., et al. Recognition of double-stranded RNA and activation of NF-kappaB by Toll-like receptor 3. Nature 413 (2001), 732–738.
-
(2001)
Nature
, vol.413
, pp. 732-738
-
-
Alexopoulou, L.1
-
88
-
-
38349115933
-
The TLR3 signaling complex forms by cooperative receptor dimerization
-
88 Leonard, J.N., et al. The TLR3 signaling complex forms by cooperative receptor dimerization. Proc. Natl. Acad. Sci. U. S. A. 105 (2008), 258–263.
-
(2008)
Proc. Natl. Acad. Sci. U. S. A.
, vol.105
, pp. 258-263
-
-
Leonard, J.N.1
-
89
-
-
42349090335
-
Structural basis of toll-like receptor 3 signaling with double-stranded RNA
-
89 Liu, L., et al. Structural basis of toll-like receptor 3 signaling with double-stranded RNA. Science 320 (2008), 379–381.
-
(2008)
Science
, vol.320
, pp. 379-381
-
-
Liu, L.1
-
90
-
-
84894267102
-
Beyond dsRNA: Toll-like receptor 3 signalling in RNA-induced immune responses
-
90 Tatematsu, M., et al. Beyond dsRNA: Toll-like receptor 3 signalling in RNA-induced immune responses. Biochem. J. 458 (2014), 195–201.
-
(2014)
Biochem. J.
, vol.458
, pp. 195-201
-
-
Tatematsu, M.1
-
91
-
-
84975806516
-
Discriminating self and non-self by RNA: roles for RNA structure, misfolding, and modification in regulating the innate immune sensor PKR
-
91 Hull, C.M., Bevilacqua, P.C., Discriminating self and non-self by RNA: roles for RNA structure, misfolding, and modification in regulating the innate immune sensor PKR. Acc. Chem. Res. 49 (2016), 1242–1249.
-
(2016)
Acc. Chem. Res.
, vol.49
, pp. 1242-1249
-
-
Hull, C.M.1
Bevilacqua, P.C.2
-
92
-
-
84925301356
-
The RNA structurome: transcriptome-wide structure probing with next-generation sequencing
-
92 Kwok, C.K., et al. The RNA structurome: transcriptome-wide structure probing with next-generation sequencing. Trends Biochem. Sci. 40 (2015), 221–232.
-
(2015)
Trends Biochem. Sci.
, vol.40
, pp. 221-232
-
-
Kwok, C.K.1
-
93
-
-
84988579221
-
The DEAD-box protein Dhh1p couples mRNA decay and translation by monitoring codon Optimality
-
122–132 e129
-
93 Radhakrishnan, A., et al. The DEAD-box protein Dhh1p couples mRNA decay and translation by monitoring codon Optimality. Cell, 167, 2016 122–132 e129.
-
(2016)
Cell
, vol.167
-
-
Radhakrishnan, A.1
-
94
-
-
84868377002
-
Codon-usage-based inhibition of HIV protein synthesis by human schlafen 11
-
94 Li, M., et al. Codon-usage-based inhibition of HIV protein synthesis by human schlafen 11. Nature 491 (2012), 125–128.
-
(2012)
Nature
, vol.491
, pp. 125-128
-
-
Li, M.1
-
95
-
-
84892173964
-
Sensing microbial RNA in the cytosol
-
95 Vabret, N., Blander, J.M., Sensing microbial RNA in the cytosol. Front. Immunol., 4, 2013, 468.
-
(2013)
Front. Immunol.
, vol.4
, pp. 468
-
-
Vabret, N.1
Blander, J.M.2
|