-
1
-
-
32944464648
-
Pathogen recognition and innate immunity
-
Akira S, Uematsu S, Takeuchi O. 2006. Pathogen recognition and innate immunity. Cell 124: 783-801.
-
(2006)
Cell
, vol.124
, pp. 783-801
-
-
Akira, S.1
Uematsu, S.2
Takeuchi, O.3
-
2
-
-
84863611417
-
piRNAs can trigger a multigenerational epigenetic memory in the germline of C. elegans
-
Ashe A, Sapetschnig A, Weick EM, Mitchell J, Bagijn MP, Cording AC, Doebley AL, Goldstein LD, Lehrbach NJ, Le Pen J, et al. 2012. piRNAs can trigger a multigenerational epigenetic memory in the germline of C. elegans. Cell 150: 88-99.
-
(2012)
Cell
, vol.150
, pp. 88-99
-
-
Ashe, A.1
Sapetschnig, A.2
Weick, E.M.3
Mitchell, J.4
Bagijn, M.P.5
Cording, A.C.6
Doebley, A.L.7
Goldstein, L.D.8
Lehrbach, N.J.9
Le Pen, J.10
-
3
-
-
0037448528
-
Genome-wide RNAi analysis of Caenorhabditis elegans fat regulatory genes
-
Ashrafi K, Chang FY, Watts JL, Fraser AG, Kamath RS, Ahringer J, Ruvkun G. 2003. Genome-wide RNAi analysis of Caenorhabditis elegans fat regulatory genes. Nature 421: 268-272.
-
(2003)
Nature
, vol.421
, pp. 268-272
-
-
Ashrafi, K.1
Chang, F.Y.2
Watts, J.L.3
Fraser, A.G.4
Kamath, R.S.5
Ahringer, J.6
Ruvkun, G.7
-
4
-
-
12344300804
-
Widespread A-to-I RNA editing of Alu-containing mRNAs in the human transcriptome
-
Athanasiadis A, Rich A, Maas S. 2004. Widespread A-to-I RNA editing of Alu-containing mRNAs in the human transcriptome. PLoS Biol 2: e391.
-
(2004)
PLoS Biol
, vol.2
, pp. e391
-
-
Athanasiadis, A.1
Rich, A.2
Maas, S.3
-
5
-
-
0035997389
-
RNA editing by adenosine deaminases that act on RNA
-
Bass BL. 2002. RNA editing by adenosine deaminases that act on RNA. Annu Rev Biochem 71: 817-846.
-
(2002)
Annu Rev Biochem
, vol.71
, pp. 817-846
-
-
Bass, B.L.1
-
6
-
-
84895535383
-
A-to-I RNA editing occurs at over a hundred million genomic sites, located in a majority of human genes
-
Bazak L, Haviv A, Barak M, Jacob-Hirsch J, Deng P, Zhang R, Isaacs FJ, Rechavi G, Li JB, Eisenberg E, et al. 2014. A-to-I RNA editing occurs at over a hundred million genomic sites, located in a majority of human genes. Genome Res 24: 365-376.
-
(2014)
Genome Res
, vol.24
, pp. 365-376
-
-
Bazak, L.1
Haviv, A.2
Barak, M.3
Jacob-Hirsch, J.4
Deng, P.5
Zhang, R.6
Isaacs, F.J.7
Rechavi, G.8
Li, J.B.9
Eisenberg, E.10
-
8
-
-
84878146196
-
Trans-splicing and operons in C. elegans
-
Blumenthal T. 2012. Trans-splicing and operons in C. elegans. WormBook: 1-11.
-
(2012)
WormBook
, pp. 1-11
-
-
Blumenthal, T.1
-
9
-
-
0033994225
-
Determination of preferential binding sites for anti-dsRNA antibodies on double-stranded RNA by scanning force microscopy
-
Bonin M, Oberstrass J, Lukacs N, Ewert K, Oesterschulze E, Kassing R, Nellen W. 2000. Determination of preferential binding sites for anti-dsRNA antibodies on double-stranded RNA by scanning force microscopy. RNA 6: 563-570.
-
(2000)
RNA
, vol.6
, pp. 563-570
-
-
Bonin, M.1
Oberstrass, J.2
Lukacs, N.3
Ewert, K.4
Oesterschulze, E.5
Kassing, R.6
Nellen, W.7
-
10
-
-
84903757908
-
Evaluation of alignment algorithms for discovery and identification of pathogens using RNASeq
-
Borozan I, Watt SN, Ferretti V. 2013. Evaluation of alignment algorithms for discovery and identification of pathogens using RNASeq. PLoS One 8: e76935.
-
(2013)
PLoS One
, vol.8
, pp. e76935
-
-
Borozan, I.1
Watt, S.N.2
Ferretti, V.3
-
11
-
-
84866516239
-
A nuclear Argonaute promotes multigenerational epigenetic inheritance and germline immortality
-
Buckley BA, Burkhart KB, Gu SG, Spracklin G, Kershner A, Fritz H, Kimble J, Fire A, Kennedy S. 2012. A nuclear Argonaute promotes multigenerational epigenetic inheritance and germline immortality. Nature 489: 447-451.
-
(2012)
Nature
, vol.489
, pp. 447-451
-
-
Buckley, B.A.1
Burkhart, K.B.2
Gu, S.G.3
Spracklin, G.4
Kershner, A.5
Fritz, H.6
Kimble, J.7
Fire, A.8
Kennedy, S.9
-
12
-
-
80052978224
-
Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses
-
Cabili MN, Trapnell C, Goff L, Koziol M, Tazon-Vega B, Regev A, Rinn JL. 2011. Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses. Genes Dev 25: 1915-1927.
-
(2011)
Genes Dev
, vol.25
, pp. 1915-1927
-
-
Cabili, M.N.1
Trapnell, C.2
Goff, L.3
Koziol, M.4
Tazon-Vega, B.5
Regev, A.6
Rinn, J.L.7
-
13
-
-
84866918728
-
Inverted Alu dsRNA structures do not affect localization but can alter translation efficiency of human mRNAs independent of RNA editing
-
Capshew CR, Dusenbury KL, Hundley HA. 2012. Inverted Alu dsRNA structures do not affect localization but can alter translation efficiency of human mRNAs independent of RNA editing. Nucleic Acids Res 40: 8637-8645.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 8637-8645
-
-
Capshew, C.R.1
Dusenbury, K.L.2
Hundley, H.A.3
-
14
-
-
0036699596
-
Selection for short introns in highly expressed genes
-
Castillo-Davis CI, Mekhedov SL, Hartl DL, Koonin EV, Kondrashov FA. 2002. Selection for short introns in highly expressed genes. Nat Genet 31: 415-418.
-
(2002)
Nat Genet
, vol.31
, pp. 415-418
-
-
Castillo-Davis, C.I.1
Mekhedov, S.L.2
Hartl, D.L.3
Koonin, E.V.4
Kondrashov, F.A.5
-
15
-
-
84872564405
-
Transcriptome-wide identification of A > I RNA editing sites by inosine specific cleavage
-
Cattenoz PB, Taft RJ, Westhof E, Mattick JS. 2013. Transcriptome-wide identification of A > I RNA editing sites by inosine specific cleavage. RNA 19: 257-270.
-
(2013)
RNA
, vol.19
, pp. 257-270
-
-
Cattenoz, P.B.1
Taft, R.J.2
Westhof, E.3
Mattick, J.S.4
-
16
-
-
75249084378
-
The GNUMAP algorithm: Unbiased probabilistic mapping of oligonucleotides from next-generation sequencing
-
Clement NL, Snell Q, Clement MJ, Hollenhorst PC, Purwar J, Graves BJ, Cairns BR, Johnson WE. 2010. The GNUMAP algorithm: unbiased probabilistic mapping of oligonucleotides from next-generation sequencing. Bioinformatics 26: 38-45.
-
(2010)
Bioinformatics
, vol.26
, pp. 38-45
-
-
Clement, N.L.1
Snell, Q.2
Clement, M.J.3
Hollenhorst, P.C.4
Purwar, J.5
Graves, B.J.6
Cairns, B.R.7
Johnson, W.E.8
-
17
-
-
33846277942
-
The evolution of sex: Empirical insights into the roles of epistasis and drift
-
de Visser JA, Elena SF. 2007. The evolution of sex: empirical insights into the roles of epistasis and drift. Nat Rev Genet 8: 139-149.
-
(2007)
Nat Rev Genet
, vol.8
, pp. 139-149
-
-
De Visser, J.A.1
Elena, S.F.2
-
18
-
-
0030581163
-
Direct evidence of a role for heterochromatin in meiotic chromosome segregation
-
Dernburg AF, Sedat JW, Hawley RS. 1996. Direct evidence of a role for heterochromatin in meiotic chromosome segregation. Cell 86: 135-146.
-
(1996)
Cell
, vol.86
, pp. 135-146
-
-
Dernburg, A.F.1
Sedat, J.W.2
Hawley, R.S.3
-
19
-
-
79956271523
-
Predicting sites of ADAR editing in double-stranded RNA
-
Eggington JM, Greene T, Bass BL. 2011. Predicting sites of ADAR editing in double-stranded RNA. Nat Commun 2: 319.
-
(2011)
Nat Commun
, vol.2
, pp. 319
-
-
Eggington, J.M.1
Greene, T.2
Bass, B.L.3
-
20
-
-
84864580697
-
A-to-I editing of microRNAs in the mammalian brain increases during development
-
Ekdahl Y, Farahani HS, Behm M, Lagergren J, Öhman M. 2012. A-to-I editing of microRNAs in the mammalian brain increases during development. Genome Res 22: 1477-1487.
-
(2012)
Genome Res
, vol.22
, pp. 1477-1487
-
-
Ekdahl, Y.1
Farahani, H.S.2
Behm, M.3
Lagergren, J.4
Öhman, M.5
-
21
-
-
0018409038
-
Analysis of the constancy of DNA sequences during development and evolution of the nematode Caenorhabditis elegans
-
Emmons SW, Klass MR, Hirsh D. 1979. Analysis of the constancy of DNA sequences during development and evolution of the nematode Caenorhabditis elegans. Proc Natl Acad Sci 76: 1333-1337.
-
(1979)
Proc Natl Acad Sci
, vol.76
, pp. 1333-1337
-
-
Emmons, S.W.1
Klass, M.R.2
Hirsh, D.3
-
22
-
-
78650410139
-
Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project
-
Gerstein MB, Lu ZJ, Van Nostrand EL, Cheng C, Arshinoff BI, Liu T, Yip KY, Robilotto R, Rechtsteiner A, Ikegami K, et al. 2010. Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project. Science 330: 1775-1787.
-
(2010)
Science
, vol.330
, pp. 1775-1787
-
-
Gerstein, M.B.1
Lu, Z.J.2
Van Nostrand, E.L.3
Cheng, C.4
Arshinoff, B.I.5
Liu, T.6
Yip, K.Y.7
Robilotto, R.8
Rechtsteiner, A.9
Ikegami, K.10
-
23
-
-
79951495822
-
lncRNAs transactivate STAU1-mediated mRNA decay by duplexing with 3′ UTRs via Alu elements
-
Gong C, Maquat LE. 2011. lncRNAs transactivate STAU1-mediated mRNA decay by duplexing with 3′ UTRs via Alu elements. Nature 470: 284-288.
-
(2011)
Nature
, vol.470
, pp. 284-288
-
-
Gong, C.1
Maquat, L.E.2
-
24
-
-
84885420883
-
mRNA-mRNA duplexes that auto-elicit Staufen1-mediated mRNA decay
-
Gong C, Tang Y, Maquat LE. 2013. mRNA-mRNA duplexes that auto-elicit Staufen1-mediated mRNA decay. Nat Struct Mol Biol 20: 1214-1220.
-
(2013)
Nat Struct Mol Biol
, vol.20
, pp. 1214-1220
-
-
Gong, C.1
Tang, Y.2
Maquat, L.E.3
-
25
-
-
84880723481
-
Biology and mechanisms of short RNAs in Caenorhabditis elegans
-
Grishok A. 2013. Biology and mechanisms of short RNAs in Caenorhabditis elegans. Adv Genet 83: 1-69.
-
(2013)
Adv Genet
, vol.83
, pp. 1-69
-
-
Grishok, A.1
-
26
-
-
84856239588
-
Amplification of siRNA in Caenorhabditis elegans generates a transgenerational sequence-targeted histone H3 lysine 9 methylation footprint
-
Gu SG, Pak J, Guang S, Maniar JM, Kennedy S, Fire A. 2012. Amplification of siRNA in Caenorhabditis elegans generates a transgenerational sequence-targeted histone H3 lysine 9 methylation footprint. Nat Genet 44: 157-164.
-
(2012)
Nat Genet
, vol.44
, pp. 157-164
-
-
Gu, S.G.1
Pak, J.2
Guang, S.3
Maniar, J.M.4
Kennedy, S.5
Fire, A.6
-
27
-
-
0032528327
-
Pausing of reverse transcriptase on retroviral RNA templates is influenced by secondary structures both 5′ and 3′ of the catalytic site
-
Harrison GP, Mayo MS, Hunter E, Lever AM. 1998. Pausing of reverse transcriptase on retroviral RNA templates is influenced by secondary structures both 5′ and 3′ of the catalytic site. Nucleic Acids Res 26: 3433-3442.
-
(1998)
Nucleic Acids Res
, vol.26
, pp. 3433-3442
-
-
Harrison, G.P.1
Mayo, M.S.2
Hunter, E.3
Lever, A.M.4
-
28
-
-
70350336432
-
Editing independent effects of ADARs on the miRNA/siRNA pathways
-
Heale BS, Keegan LP, McGurk L, Michlewski G, Brindle J, Stanton CM, Caceres JF, O'Connell MA. 2009a. Editing independent effects of ADARs on the miRNA/siRNA pathways. EMBO J 28: 3145-3156.
-
(2009)
EMBO J
, vol.28
, pp. 3145-3156
-
-
Heale, B.S.1
Keegan, L.P.2
McGurk, L.3
Michlewski, G.4
Brindle, J.5
Stanton, C.M.6
Caceres, J.F.7
O'Connell, M.A.8
-
30
-
-
51349109743
-
A starvation-induced noncoding RNA modulates expression of Dicer-regulated genes
-
Hellwig S, Bass BL. 2008. A starvation-induced noncoding RNA modulates expression of Dicer-regulated genes. Proc Natl Acad Sci 105: 12897-12902.
-
(2008)
Proc Natl Acad Sci
, vol.105
, pp. 12897-12902
-
-
Hellwig, S.1
Bass, B.L.2
-
31
-
-
84887861336
-
Probabilistic alignment leads to improved accuracy and read coverage for bisulfite sequencing data
-
Hong C, Clement NL, Clement S, Hammoud SS, Carrell DT, Cairns BR, Snell Q, Clement MJ, Johnson WE. 2013. Probabilistic alignment leads to improved accuracy and read coverage for bisulfite sequencing data. BMC Bioinformatics 14: 337.
-
(2013)
BMC Bioinformatics
, vol.14
, pp. 337
-
-
Hong, C.1
Clement, N.L.2
Clement, S.3
Hammoud, S.S.4
Carrell, D.T.5
Cairns, B.R.6
Snell, Q.7
Clement, M.J.8
Johnson, W.E.9
-
32
-
-
52949140596
-
C. elegans and H. sapiens mRNAs with edited 3′ UTRs are present on polysomes
-
Hundley HA, Krauchuk AA, Bass BL. 2008. C. elegans and H. sapiens mRNAs with edited 3′ UTRs are present on polysomes. RNA 14: 2050-2060.
-
(2008)
RNA
, vol.14
, pp. 2050-2060
-
-
Hundley, H.A.1
Krauchuk, A.A.2
Bass, B.L.3
-
33
-
-
79952786337
-
DICER1 deficit induces Alu RNA toxicity in age-related macular degeneration
-
Kaneko H, Dridi S, Tarallo V, Gelfand BD, Fowler BJ, Cho WG, Kleinman ME, Ponicsan SL, Hauswirth WW, Chiodo VA, et al. 2011. DICER1 deficit induces Alu RNA toxicity in age-related macular degeneration. Nature 471: 325-330.
-
(2011)
Nature
, vol.471
, pp. 325-330
-
-
Kaneko, H.1
Dridi, S.2
Tarallo, V.3
Gelfand, B.D.4
Fowler, B.J.5
Cho, W.G.6
Kleinman, M.E.7
Ponicsan, S.L.8
Hauswirth, W.W.9
Chiodo, V.A.10
-
34
-
-
0030016870
-
Centric heterochromatin and the efficiency of achiasmate disjunction in Drosophila female meiosis
-
Karpen GH, Le MH, Le H. 1996. Centric heterochromatin and the efficiency of achiasmate disjunction in Drosophila female meiosis. Science 273: 118-122.
-
(1996)
Science
, vol.273
, pp. 118-122
-
-
Karpen, G.H.1
Le, M.H.2
Le, H.3
-
35
-
-
84887418068
-
TLR-independent and P2X7-dependent signaling mediate Alu RNA-induced NLRP3 inflammasome activation in geographic atrophy
-
Kerur N, Hirano Y, Tarallo V, Fowler BJ, Bastos-Carvalho A, Yasuma T, Yasuma R, Kim Y, Hinton DR, Kirschning CJ, et al. 2013. TLR-independent and P2X7-dependent signaling mediate Alu RNA-induced NLRP3 inflammasome activation in geographic atrophy. Invest Ophthalmol Vis Sci 54: 7395-7401.
-
(2013)
Invest Ophthalmol Vis Sci
, vol.54
, pp. 7395-7401
-
-
Kerur, N.1
Hirano, Y.2
Tarallo, V.3
Fowler, B.J.4
Bastos-Carvalho, A.5
Yasuma, T.6
Yasuma, R.7
Kim, Y.8
Hinton, D.R.9
Kirschning, C.J.10
-
36
-
-
4644324088
-
Widespread RNA editing of embedded Alu elements in the human transcriptome
-
Kim DD, Kim TT, Walsh T, Kobayashi Y, Matise TC, Buyske S, Gabriel A. 2004. Widespread RNA editing of embedded Alu elements in the human transcriptome. Genome Res 14: 1719-1725.
-
(2004)
Genome Res
, vol.14
, pp. 1719-1725
-
-
Kim, D.D.1
Kim, T.T.2
Walsh, T.3
Kobayashi, Y.4
Matise, T.C.5
Buyske, S.6
Gabriel, A.7
-
37
-
-
12944327374
-
Mammalian Staufen1 recruits Upf1 to specific mRNA 3′ UTRs so as to elicit mRNA decay
-
Kim YK, Furic L, Desgroseillers L, Maquat LE. 2005. Mammalian Staufen1 recruits Upf1 to specific mRNA 3′ UTRs so as to elicit mRNA decay. Cell 120: 195-208.
-
(2005)
Cell
, vol.120
, pp. 195-208
-
-
Kim, Y.K.1
Furic, L.2
Desgroseillers, L.3
Maquat, L.E.4
-
38
-
-
34249977890
-
Staufen1 regulates diverse classes of mammalian transcripts
-
Kim YK, Furic L, Parisien M, Major F, DesGroseillers L, Maquat LE. 2007. Staufen1 regulates diverse classes of mammalian transcripts. EMBO J 26: 2670-2681.
-
(2007)
EMBO J
, vol.26
, pp. 2670-2681
-
-
Kim, Y.K.1
Furic, L.2
Parisien, M.3
Major, F.4
DesGroseillers, L.5
Maquat, L.E.6
-
39
-
-
84902459372
-
PKR is activated by cellular dsRNAs during mitosis and acts as a mitotic regulator
-
Kim Y, Lee JH, Park JE, Cho J, Yi H, Kim VN. 2014. PKR is activated by cellular dsRNAs during mitosis and acts as a mitotic regulator. Genes Dev 28: 1310-1322.
-
(2014)
Genes Dev
, vol.28
, pp. 1310-1322
-
-
Kim, Y.1
Lee, J.H.2
Park, J.E.3
Cho, J.4
Yi, H.5
Kim, V.N.6
-
40
-
-
84873867134
-
RNA targets and specificity of Staufen, a double-stranded RNA-binding protein in Caenorhabditis elegans
-
LeGendre JB, Campbell ZT, Kroll-Conner P, Anderson P, Kimble J, Wickens M. 2013. RNA targets and specificity of Staufen, a double-stranded RNA-binding protein in Caenorhabditis elegans. J Biol Chem 288: 2532-2545.
-
(2013)
J Biol Chem
, vol.288
, pp. 2532-2545
-
-
LeGendre, J.B.1
Campbell, Z.T.2
Kroll-Conner, P.3
Anderson, P.4
Kimble, J.5
Wickens, M.6
-
41
-
-
0034711082
-
Double-stranded RNA adenosine deaminases ADAR1 and ADAR2 have overlapping specificities
-
Lehmann KA, Bass BL. 2000. Double-stranded RNA adenosine deaminases ADAR1 and ADAR2 have overlapping specificities. Biochemistry 39: 12875-12884.
-
(2000)
Biochemistry
, vol.39
, pp. 12875-12884
-
-
Lehmann, K.A.1
Bass, B.L.2
-
42
-
-
3543004084
-
Systematic identification of abundant A-to-I editing sites in the human transcriptome
-
Levanon EY, Eisenberg E, Yelin R, Nemzer S, Hallegger M, Shemesh R, Fligelman ZY, Shoshan A, Pollock SR, Sztybel D, et al. 2004. Systematic identification of abundant A-to-I editing sites in the human transcriptome. Nat Biotechnol 22: 1001-1005.
-
(2004)
Nat Biotechnol
, vol.22
, pp. 1001-1005
-
-
Levanon, E.Y.1
Eisenberg, E.2
Yelin, R.3
Nemzer, S.4
Hallegger, M.5
Shemesh, R.6
Fligelman, Z.Y.7
Shoshan, A.8
Pollock, S.R.9
Sztybel, D.10
-
43
-
-
84861121932
-
Global analysis of RNA secondary structure in two metazoans
-
Li F, Zheng Q, Ryvkin P, Dragomir I, Desai Y, Aiyer S, Valladares O, Yang J, Bambina S, Sabin LR, et al. 2012. Global analysis of RNA secondary structure in two metazoans. Cell Rep 1: 69-82.
-
(2012)
Cell Rep
, vol.1
, pp. 69-82
-
-
Li, F.1
Zheng, Q.2
Ryvkin, P.3
Dragomir, I.4
Desai, Y.5
Aiyer, S.6
Valladares, O.7
Yang, J.8
Bambina, S.9
Sabin, L.R.10
-
44
-
-
0029030242
-
Cell stress and translational inhibitors transiently increase the abundance of mammalian SINE transcripts
-
Liu WM, Chu WM, Choudary PV, Schmid CW. 1995. Cell stress and translational inhibitors transiently increase the abundance of mammalian SINE transcripts. Nucleic Acids Res 23: 1758-1765.
-
(1995)
Nucleic Acids Res
, vol.23
, pp. 1758-1765
-
-
Liu, W.M.1
Chu, W.M.2
Choudary, P.V.3
Schmid, C.W.4
-
45
-
-
79551590310
-
Broad chromosomal domains of histone modification patterns in C. elegans
-
Liu T, Rechtsteiner A, Egelhofer TA, Vielle A, Latorre I, Cheung MS, Ercan S, Ikegami K, Jensen M, Kolasinska-Zwierz P, et al. 2011. Broad chromosomal domains of histone modification patterns in C. elegans. Genome Res 21: 227-236.
-
(2011)
Genome Res
, vol.21
, pp. 227-236
-
-
Liu, T.1
Rechtsteiner, A.2
Egelhofer, T.A.3
Vielle, A.4
Latorre, I.5
Cheung, M.S.6
Ercan, S.7
Ikegami, K.8
Jensen, M.9
Kolasinska-Zwierz, P.10
-
46
-
-
82055164092
-
ViennaRNA Package 2.0
-
Lorenz R, Bernhart SH, Höner Zu Siederdissen C, Tafer H, Flamm C, Stadler PF, Hofacker IL. 2011. ViennaRNA Package 2.0. Algorithms Mol Biol 6: 26.
-
(2011)
Algorithms Mol Biol
, vol.6
, pp. 26
-
-
Lorenz, R.1
Bernhart, S.H.2
Höner Zu Siederdissen, C.3
Tafer, H.4
Flamm, C.5
Stadler, P.F.6
Hofacker, I.L.7
-
47
-
-
0028308079
-
Detection of virus infection in plants and differentiation between coexisting viruses by monoclonal antibodies to double-stranded RNA
-
Lukács N. 1994. Detection of virus infection in plants and differentiation between coexisting viruses by monoclonal antibodies to double-stranded RNA. J Virol Methods 47: 255-272.
-
(1994)
J Virol Methods
, vol.47
, pp. 255-272
-
-
Lukács, N.1
-
48
-
-
84912098781
-
The RNA-editing enzyme ADAR1 controls innate immune responses to RNA
-
Mannion NM, Greenwood SM, Young R, Cox S, Brindle J, Read D, Nellåker C, Vesely C, Ponting CP, McLaughlin PJ, et al. 2014. The RNA-editing enzyme ADAR1 controls innate immune responses to RNA. Cell Rep 9: 1482-1494.
-
(2014)
Cell Rep
, vol.9
, pp. 1482-1494
-
-
Mannion, N.M.1
Greenwood, S.M.2
Young, R.3
Cox, S.4
Brindle, J.5
Read, D.6
Nellåker, C.7
Vesely, C.8
Ponting, C.P.9
McLaughlin, P.J.10
-
49
-
-
84934438960
-
UNAFold: Software for nucleic acid folding and hybridization
-
Markham NR, Zuker M. 2008. UNAFold: software for nucleic acid folding and hybridization. Methods Mol Biol 453: 3-31.
-
(2008)
Methods Mol Biol
, vol.453
, pp. 3-31
-
-
Markham, N.R.1
Zuker, M.2
-
50
-
-
0030738705
-
Detection of inosine in messenger RNA by inosine-specific cleavage
-
Morse DP, Bass BL. 1997. Detection of inosine in messenger RNA by inosine-specific cleavage. Biochemistry 36: 8429-8434.
-
(1997)
Biochemistry
, vol.36
, pp. 8429-8434
-
-
Morse, D.P.1
Bass, B.L.2
-
51
-
-
0033022121
-
Long RNA hairpins that contain inosine are present in Caenorhabditis elegans poly(A)+ RNA
-
Morse DP, Bass BL. 1999. Long RNA hairpins that contain inosine are present in Caenorhabditis elegans poly(A)+ RNA. Proc Natl Acad Sci 96: 6048-6053.
-
(1999)
Proc Natl Acad Sci
, vol.96
, pp. 6048-6053
-
-
Morse, D.P.1
Bass, B.L.2
-
52
-
-
0037062438
-
RNA hairpins in noncoding regions of human brain and Caenorhabditis elegans mRNA are edited by adenosine deaminases that act on RNA
-
Morse DP, Aruscavage PJ, Bass BL. 2002. RNA hairpins in noncoding regions of human brain and Caenorhabditis elegans mRNA are edited by adenosine deaminases that act on RNA. Proc Natl Acad Sci 99: 7906-7911.
-
(2002)
Proc Natl Acad Sci
, vol.99
, pp. 7906-7911
-
-
Morse, D.P.1
Aruscavage, P.J.2
Bass, B.L.3
-
53
-
-
75749108288
-
Double-stranded RNA-dependent protein kinase links pathogen sensing with stress and metabolic homeostasis
-
Nakamura T, Furuhashi M, Li P, Cao H, Tuncman G, Sonenberg N, Gorgun CZ, Hotamisligil GS. 2010. Double-stranded RNA-dependent protein kinase links pathogen sensing with stress and metabolic homeostasis. Cell 140: 338-348.
-
(2010)
Cell
, vol.140
, pp. 338-348
-
-
Nakamura, T.1
Furuhashi, M.2
Li, P.3
Cao, H.4
Tuncman, G.5
Sonenberg, N.6
Gorgun, C.Z.7
Hotamisligil, G.S.8
-
54
-
-
84870566023
-
Long noncoding RNAs in C. elegans
-
Nam JW, Bartel DP. 2012. Long noncoding RNAs in C. elegans. Genome Res 22: 2529-2540.
-
(2012)
Genome Res
, vol.22
, pp. 2529-2540
-
-
Nam, J.W.1
Bartel, D.P.2
-
55
-
-
33749256772
-
RNA editing level in the mouse is determined by the genomic repeat repertoire
-
Neeman Y, Levanon EY, Jantsch MF, Eisenberg E. 2006. RNA editing level in the mouse is determined by the genomic repeat repertoire. RNA 12: 1802-1809.
-
(2006)
RNA
, vol.12
, pp. 1802-1809
-
-
Neeman, Y.1
Levanon, E.Y.2
Jantsch, M.F.3
Eisenberg, E.4
-
56
-
-
77952293063
-
Functions and regulation of RNA editing by ADAR deaminases
-
Nishikura K. 2010. Functions and regulation of RNA editing by ADAR deaminases. Annu Rev Biochem 79: 321-349.
-
(2010)
Annu Rev Biochem
, vol.79
, pp. 321-349
-
-
Nishikura, K.1
-
57
-
-
33646186518
-
RDE-4 preferentially binds long dsRNA and its dimerization is necessary for cleavage of dsRNA to siRNA
-
Parker GS, Eckert DM, Bass BL. 2006. RDE-4 preferentially binds long dsRNA and its dimerization is necessary for cleavage of dsRNA to siRNA. RNA 12: 807-818.
-
(2006)
RNA
, vol.12
, pp. 807-818
-
-
Parker, G.S.1
Eckert, D.M.2
Bass, B.L.3
-
58
-
-
71549147194
-
Requirement for the ERI/DICER complex in endogenous RNA interference and sperm development in Caenorhabditis elegans
-
Pavelec DM, Lachowiec J, Duchaine TF, Smith HE, Kennedy S. 2009. Requirement for the ERI/DICER complex in endogenous RNA interference and sperm development in Caenorhabditis elegans. Genetics 183: 1283-1295.
-
(2009)
Genetics
, vol.183
, pp. 1283-1295
-
-
Pavelec, D.M.1
Lachowiec, J.2
Duchaine, T.F.3
Smith, H.E.4
Kennedy, S.5
-
59
-
-
0027967784
-
Preferential selection of adenosines for modification by double-stranded RNA adenosine deaminase
-
Polson AG, Bass BL. 1994. Preferential selection of adenosines for modification by double-stranded RNA adenosine deaminase. EMBO J 13: 5701-5711.
-
(1994)
EMBO J
, vol.13
, pp. 5701-5711
-
-
Polson, A.G.1
Bass, B.L.2
-
60
-
-
1942485873
-
Intron size correlates positively with recombination rate in Caenorhabditis elegans
-
Prachumwat A, DeVincentis L, Palopoli MF. 2004. Intron size correlates positively with recombination rate in Caenorhabditis elegans. Genetics 166: 1585-1590.
-
(2004)
Genetics
, vol.166
, pp. 1585-1590
-
-
Prachumwat, A.1
DeVincentis, L.2
Palopoli, M.F.3
-
61
-
-
77951770756
-
BEDTools: A flexible suite of utilities for comparing genomic features
-
Quinlan AR, Hall IM. 2010. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26: 841-842.
-
(2010)
Bioinformatics
, vol.26
, pp. 841-842
-
-
Quinlan, A.R.1
Hall, I.M.2
-
62
-
-
84873414540
-
Identifying RNA editing sites using RNA sequencing data alone
-
Ramaswami G, Zhang R, Piskol R, Keegan LP, Deng P, O'Connell MA, Li JB. 2013. Identifying RNA editing sites using RNA sequencing data alone. Nat Methods 10: 128-132.
-
(2013)
Nat Methods
, vol.10
, pp. 128-132
-
-
Ramaswami, G.1
Zhang, R.2
Piskol, R.3
Keegan, L.P.4
Deng, P.5
O'Connell, M.A.6
Li, J.B.7
-
63
-
-
44149094073
-
Specificity of ADAR-mediated RNA editing in newly identified targets
-
Riedmann EM, Schopoff S, Hartner JC, Jantsch MF. 2008. Specificity of ADAR-mediated RNA editing in newly identified targets. RNA 14: 1110-1118.
-
(2008)
RNA
, vol.14
, pp. 1110-1118
-
-
Riedmann, E.M.1
Schopoff, S.2
Hartner, J.C.3
Jantsch, M.F.4
-
64
-
-
80053978849
-
Comparative analysis of algorithms for next-generation sequencing read alignment
-
Ruffalo M, LaFramboise T, Koyutürk M. 2011. Comparative analysis of algorithms for next-generation sequencing read alignment. Bioinformatics 27: 2790-2796.
-
(2011)
Bioinformatics
, vol.27
, pp. 2790-2796
-
-
Ruffalo, M.1
LaFramboise, T.2
Koyutürk, M.3
-
65
-
-
84889242806
-
RNA editing regulates transposon-mediated heterochromatic gene silencing
-
Savva YA, Jepson JE, Chang YJ, Whitaker R, Jones BC, St Laurent G, Tackett MR, Kapranov P, Jiang N, Du G, et al. 2013. RNA editing regulates transposon-mediated heterochromatic gene silencing. Nat Commun 4: 2745.
-
(2013)
Nat Commun
, vol.4
, pp. 2745
-
-
Savva, Y.A.1
Jepson, J.E.2
Chang, Y.J.3
Whitaker, R.4
Jones, B.C.5
St Laurent, G.6
Tackett, M.R.7
Kapranov, P.8
Jiang, N.9
Du, G.10
-
66
-
-
0025855933
-
Monoclonal antibodies to double-stranded RNA as probes of RNA structure in crude nucleic acid extracts
-
Schönborn J, Oberstrass J, Breyel E, Tittgen J, Schumacher J, Lukacs N. 1991. Monoclonal antibodies to double-stranded RNA as probes of RNA structure in crude nucleic acid extracts. Nucleic Acids Res 19: 2993-3000.
-
(1991)
Nucleic Acids Res
, vol.19
, pp. 2993-3000
-
-
Schönborn, J.1
Oberstrass, J.2
Breyel, E.3
Tittgen, J.4
Schumacher, J.5
Lukacs, N.6
-
67
-
-
0345306117
-
Transposon silencing in the Caenorhabditis elegans germ line by natural RNAi
-
Sijen T, Plasterk RH. 2003. Transposon silencing in the Caenorhabditis elegans germ line by natural RNAi. Nature 426: 310-314.
-
(2003)
Nature
, vol.426
, pp. 310-314
-
-
Sijen, T.1
Plasterk, R.H.2
-
68
-
-
79551613376
-
A spatial and temporal map of C. elegans gene expression
-
Spencer WC, Zeller G, Watson JD, Henz SR, Watkins KL, McWhirter RD, Petersen S, Sreedharan VT, Widmer C, Jo J, et al. 2011. A spatial and temporal map of C. elegans gene expression. Genome Res 21: 325-341.
-
(2011)
Genome Res
, vol.21
, pp. 325-341
-
-
Spencer, W.C.1
Zeller, G.2
Watson, J.D.3
Henz, S.R.4
Watkins, K.L.5
McWhirter, R.D.6
Petersen, S.7
Sreedharan, V.T.8
Widmer, C.9
Jo, J.10
-
70
-
-
0037188904
-
The dsRNA binding protein RDE-4 interacts with RDE-1, DCR-1, and a DExH-box helicase to direct RNAi in C. elegans
-
Tabara H, Yigit E, Siomi H, Mello CC. 2002. The dsRNA binding protein RDE-4 interacts with RDE-1, DCR-1, and a DExH-box helicase to direct RNAi in C. elegans. Cell 109: 861-871.
-
(2002)
Cell
, vol.109
, pp. 861-871
-
-
Tabara, H.1
Yigit, E.2
Siomi, H.3
Mello, C.C.4
-
71
-
-
84860883878
-
DICER1 loss and Alu RNA induce age-related macular degeneration via the NLRP3 inflammasome and MyD88
-
Tarallo V, Hirano Y, Gelfand BD, Dridi S, Kerur N, Kim Y, Cho WG, Kaneko H, Fowler BJ, Bogdanovich S, et al. 2012. DICER1 loss and Alu RNA induce age-related macular degeneration via the NLRP3 inflammasome and MyD88. Cell 149: 847-859.
-
(2012)
Cell
, vol.149
, pp. 847-859
-
-
Tarallo, V.1
Hirano, Y.2
Gelfand, B.D.3
Dridi, S.4
Kerur, N.5
Kim, Y.6
Cho, W.G.7
Kaneko, H.8
Fowler, B.J.9
Bogdanovich, S.10
-
72
-
-
0032509302
-
Genome sequence of the nematode C. elegans: A platform for investigating biology
-
The C. elegans Sequencing Consortium. 1998. Genome sequence of the nematode C. elegans: a platform for investigating biology. Science 282: 2012-2018.
-
(1998)
Science
, vol.282
, pp. 2012-2018
-
-
-
73
-
-
84879987789
-
lincRNAs: Genomics, evolution, and mechanisms
-
Ulitsky I, Bartel DP. 2013. lincRNAs: genomics, evolution, and mechanisms. Cell 154: 26-46.
-
(2013)
Cell
, vol.154
, pp. 26-46
-
-
Ulitsky, I.1
Bartel, D.P.2
-
74
-
-
84455206362
-
Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution
-
Ulitsky I, Shkumatava A, Jan CH, Sive H, Bartel DP. 2011. Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution. Cell 147: 1537-1550.
-
(2011)
Cell
, vol.147
, pp. 1537-1550
-
-
Ulitsky, I.1
Shkumatava, A.2
Jan, C.H.3
Sive, H.4
Bartel, D.P.5
-
75
-
-
84864622764
-
Adenosine deaminases that act on RNA induce reproducible changes in abundance and sequence of embryonic miRNAs
-
Vesely C, Tauber S, Sedlazeck FJ, von Haeseler A, Jantsch MF. 2012. Adenosine deaminases that act on RNA induce reproducible changes in abundance and sequence of embryonic miRNAs. Genome Res 22: 1468-1476.
-
(2012)
Genome Res
, vol.22
, pp. 1468-1476
-
-
Vesely, C.1
Tauber, S.2
Sedlazeck, F.J.3
Von Haeseler, A.4
Jantsch, M.F.5
-
76
-
-
77956534324
-
ANNOVAR: Functional annotation of genetic variants from high-throughput sequencing data
-
Wang K, Li M, Hakonarson H. 2010. ANNOVAR: functional annotation of genetic variants from high-throughput sequencing data. Nucleic Acids Res 38: e164.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. e164
-
-
Wang, K.1
Li, M.2
Hakonarson, H.3
-
77
-
-
84864614462
-
Effects of ADARs on small RNA processing pathways in C. elegans
-
Warf MB, Shepherd BA, Johnson WE, Bass BL. 2012. Effects of ADARs on small RNA processing pathways in C. elegans. Genome Res 22: 1488-1498.
-
(2012)
Genome Res
, vol.22
, pp. 1488-1498
-
-
Warf, M.B.1
Shepherd, B.A.2
Johnson, W.E.3
Bass, B.L.4
-
78
-
-
84896730394
-
The dsRBP and inactive editor ADR-1 utilizes dsRNA binding to regulate A-to-I RNA editing across the C. elegans transcriptome
-
Washburn MC, Kakaradov B, Sundararaman B, Wheeler E, Hoon S, Yeo GW, Hundley HA. 2014. The dsRBP and inactive editor ADR-1 utilizes dsRNA binding to regulate A-to-I RNA editing across the C. elegans transcriptome. Cell Rep 6: 599-607.
-
(2014)
Cell Rep
, vol.6
, pp. 599-607
-
-
Washburn, M.C.1
Kakaradov, B.2
Sundararaman, B.3
Wheeler, E.4
Hoon, S.5
Yeo, G.W.6
Hundley, H.A.7
-
79
-
-
34250877012
-
Genes misregulated in C. elegans deficient in Dicer, RDE-4, or RDE-1 are enriched for innate immunity genes
-
Welker NC, Habig JW, Bass BL. 2007. Genes misregulated in C. elegans deficient in Dicer, RDE-4, or RDE-1 are enriched for innate immunity genes. RNA 13: 1090-1102.
-
(2007)
RNA
, vol.13
, pp. 1090-1102
-
-
Welker, N.C.1
Habig, J.W.2
Bass, B.L.3
-
80
-
-
77951169802
-
Dicer's helicase domain is required for accumulation of some, but not all, C. elegans endogenous siRNAs
-
Welker NC, Pavelec DM, Nix DA, Duchaine TF, Kennedy S, Bass BL. 2010. Dicer's helicase domain is required for accumulation of some, but not all, C. elegans endogenous siRNAs. RNA 16: 893-903.
-
(2010)
RNA
, vol.16
, pp. 893-903
-
-
Welker, N.C.1
Pavelec, D.M.2
Nix, D.A.3
Duchaine, T.F.4
Kennedy, S.5
Bass, B.L.6
-
81
-
-
80455164552
-
Competition between ADAR and RNAi pathways for an extensive class of RNA targets
-
Wu D, Lamm AT, Fire AZ. 2011. Competition between ADAR and RNAi pathways for an extensive class of RNA targets. Nat Struct Mol Biol 18: 1094-1101.
-
(2011)
Nat Struct Mol Biol
, vol.18
, pp. 1094-1101
-
-
Wu, D.1
Lamm, A.T.2
Fire, A.Z.3
-
82
-
-
13544275929
-
ADAR1 RNA deaminase limits short interfering RNA efficacy in mammalian cells
-
Yang W, Wang Q, Howell KL, Lee JT, Cho DS, Murray JM, Nishikura K. 2005. ADAR1 RNA deaminase limits short interfering RNA efficacy in mammalian cells. J Biol Chem 280: 3946-3953.
-
(2005)
J Biol Chem
, vol.280
, pp. 3946-3953
-
-
Yang, W.1
Wang, Q.2
Howell, K.L.3
Lee, J.T.4
Cho, D.S.5
Murray, J.M.6
Nishikura, K.7
-
83
-
-
0035943347
-
The fate of dsRNA in the nucleus: A p54 (nrb)-containing complex mediates the nuclear retention of promiscuously A-to-I edited RNAs
-
Zhang Z, Carmichael GG. 2001. The fate of dsRNA in the nucleus: a p54 (nrb)-containing complex mediates the nuclear retention of promiscuously A-to-I edited RNAs. Cell 106: 465-475.
-
(2001)
Cell
, vol.106
, pp. 465-475
-
-
Zhang, Z.1
Carmichael, G.G.2
-
84
-
-
84920653910
-
Profiling the RNA editomes of wild-type C. elegans and ADAR mutants
-
Zhao HQ, Zhang P, Gao H, He X, Dou Y, Huang AY, Liu XM, Ye AY, Dong MQ, Wei L. 2015. Profiling the RNA editomes of wild-type C. elegans and ADAR mutants. Genome Res 25: 66-75.
-
(2015)
Genome Res
, vol.25
, pp. 66-75
-
-
Zhao, H.Q.1
Zhang, P.2
Gao, H.3
He, X.4
Dou, Y.5
Huang, A.Y.6
Liu, X.M.7
Ye, A.Y.8
Dong, M.Q.9
Wei, L.10
|