-
1
-
-
17444430392
-
microRNA-directed phasing during trans-acting siRNA biogenesis in plants
-
DOI 10.1016/j.cell.2005.04.004
-
Allen E, Xie Z, Gustafson AM, Carrington JC. 2005. microRNA-directed phasing during trans-acting siRNA biogenesis in plants. Cell 121: 207-221. (Pubitemid 40546389)
-
(2005)
Cell
, vol.121
, Issue.2
, pp. 207-221
-
-
Allen, E.1
Xie, Z.2
Gustafson, A.M.3
Carrington, J.C.4
-
2
-
-
0025183708
-
Basic local alignment search tool
-
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. 1990. Basic local alignment search tool. J Mol Biol 215: 403-410.
-
(1990)
J Mol Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
Gish, W.2
Miller, W.3
Myers, E.W.4
Lipman, D.J.5
-
3
-
-
0037737975
-
MicroRNAs and other tiny endogenous RNAs in C. elegans
-
DOI 10.1016/S0960-9822(03)00287-2
-
Ambros V, Lee RC, Lavanway A, Williams PT, Jewell D. 2003. MicroRNAs and other tiny endogenous RNAs in C. elegans. Curr Biol 13: 807-818. (Pubitemid 36573248)
-
(2003)
Current Biology
, vol.13
, Issue.10
, pp. 807-818
-
-
Ambros, V.1
Lee, R.C.2
Lavanway, A.3
Williams, P.T.4
Jewell, D.5
-
4
-
-
75549088870
-
TriTrypDB: A functional genomic resource for the Trypanosomatidae
-
Aslett M, Aurrecoechea C, Berriman M, Brestelli J, Brunk BP, Carrington M, Depledge DP, Fischer S, Gajria B, Gao X, et al. 2010. TriTrypDB: A functional genomic resource for the Trypanosomatidae. Nucleic Acids Res 38(Database issue): D457-D462.
-
(2010)
Nucleic Acids Res
, vol.38
, Issue.DATABASE ISSUE
-
-
Aslett, M.1
Aurrecoechea, C.2
Berriman, M.3
Brestelli, J.4
Brunk, B.P.5
Carrington, M.6
Depledge, D.P.7
Fischer, S.8
Gajria, B.9
Gao, X.10
-
5
-
-
79959340052
-
The emerging world of small silencing RNAs in protozoan parasites
-
Atayde VD, Tschudi C, Ullu E. 2011. The emerging world of small silencing RNAs in protozoan parasites. Trends Parasitol 27: 321-327.
-
(2011)
Trends Parasitol
, vol.27
, pp. 321-327
-
-
Atayde, V.D.1
Tschudi, C.2
Ullu, E.3
-
6
-
-
0030681260
-
The significance of digital gene expression profiles
-
Audic S, Claverie JM. 1997. The significance of digital gene expression profiles. Genome Res 7: 986-995. (Pubitemid 27487763)
-
(1997)
Genome Research
, vol.7
, Issue.10
, pp. 986-995
-
-
Audic, S.1
Claverie, J.-M.2
-
7
-
-
33750440526
-
A Two-Hit Trigger for siRNA Biogenesis in Plants
-
DOI 10.1016/j.cell.2006.09.032, PII S009286740601292X
-
Axtell MJ, Jan C, Rajagopalan R, Bartel DP. 2006. A two-hit trigger for siRNA biogenesis in plants. Cell 127: 565-577. (Pubitemid 44647429)
-
(2006)
Cell
, vol.127
, Issue.3
, pp. 565-577
-
-
Axtell, M.J.1
Jan, C.2
Rajagopalan, R.3
Bartel, D.P.4
-
8
-
-
22244441812
-
The genome of the African trypanosome Trypanosoma brucei
-
Berriman M, Ghedin E, Hertz-Fowler C, Blandin G, Renauld H, Bartholomeu DC, Lennard NJ, Caler E, Hamlin NE, Haas B, et al. 2005. The genome of the African trypanosome Trypanosoma brucei. Science 309: 416-422.
-
(2005)
Science
, vol.309
, pp. 416-422
-
-
Berriman, M.1
Ghedin, E.2
Hertz-Fowler, C.3
Blandin, G.4
Renauld, H.5
Bartholomeu, D.C.6
Lennard, N.J.7
Caler, E.8
Hamlin, N.E.9
Haas, B.10
-
9
-
-
29244490062
-
Endogenous siRNAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis
-
DOI 10.1016/j.cell.2005.11.035, PII S0092867405013309
-
Borsani O, Zhu J, Verslues PE, Sunkar R, Zhu JK. 2005. Endogenous siRNAs derived from a pair of natural cis-antisense transcripts regulate salt tolerance in Arabidopsis. Cell 123: 1279-1291. (Pubitemid 41821785)
-
(2005)
Cell
, vol.123
, Issue.7
, pp. 1279-1291
-
-
Borsani, O.1
Zhu, J.2
Verslues, P.E.3
Sunkar, R.4
Zhu, J.-K.5
-
10
-
-
0037023543
-
Antigenic variation and allelic exclusion
-
DOI 10.1016/S0092-8674(02)00711-0
-
Borst P. 2002. Antigenic variation and allelic exclusion. Cell 109: 5-8. (Pubitemid 34327511)
-
(2002)
Cell
, vol.109
, Issue.1
, pp. 5-8
-
-
Borst, P.1
-
11
-
-
77954063506
-
A complex small RNA repertoire is generated by a plant/fungal-like machinery and effected by a metazoan-like Argonaute in the single-cell human parasite Toxoplasma gondii
-
Braun L, Cannella D, Ortet P, Barakat M, Sautel CF, Kieffer S, Garin J, Bastien O, Voinnet O, Hakimi MA. 2010. A complex small RNA repertoire is generated by a plant/fungal-like machinery and effected by a metazoan-like Argonaute in the single-cell human parasite Toxoplasma gondii. PLoS Pathog 6: e1000920.
-
(2010)
PLoS Pathog
, vol.6
-
-
Braun, L.1
Cannella, D.2
Ortet, P.3
Barakat, M.4
Sautel, C.F.5
Kieffer, S.6
Garin, J.7
Bastien, O.8
Voinnet, O.9
Hakimi, M.A.10
-
12
-
-
0036464010
-
A new, expressed multigene family containing a hot spot for insertion of retroelements is associated with polymorphic subtelomeric regions of Trypanosoma brucei
-
DOI 10.1128/EC.1.1.137-151.2002
-
Bringaud F, Biteau N, Melville SE, Hez S, El-Sayed NM, Leech V, Berriman M, Hall N, Donelson JE, Baltz T. 2002. A new, expressed multigene family containing a hot spot for insertion of retroelements is associated with polymorphic subtelomeric regions of Trypanosoma brucei. Eukaryot Cell 1: 137-151. (Pubitemid 36562357)
-
(2002)
Eukaryotic Cell
, vol.1
, Issue.1
, pp. 137-151
-
-
Bringaud, F.1
Biteau, N.2
Melville, S.E.3
Hez, S.4
El-Sayed, N.M.5
Leech, V.6
Berriman, M.7
Hall, N.8
Donelson, J.E.9
Baltz, T.10
-
14
-
-
34249057729
-
RNAi-Dependent and -Independent RNA Turnover Mechanisms Contribute to Heterochromatic Gene Silencing
-
DOI 10.1016/j.cell.2007.03.038, PII S0092867407004540
-
Buhler M, Haas W, Gygi SP, Moazed D. 2007. RNAi-dependent and -independent RNA turnover mechanisms contribute to heterochromatic gene silencing. Cell 129: 707-721. (Pubitemid 46802379)
-
(2007)
Cell
, vol.129
, Issue.4
, pp. 707-721
-
-
Buhler, M.1
Haas, W.2
Gygi, S.P.3
Moazed, D.4
-
15
-
-
53549105500
-
TRAMP-mediated RNA surveillance prevents spurious entry of RNAs into the Schizosaccharomyces pombe siRNA pathway
-
Buhler M, Spies N, Bartel DP, Moazed D. 2008. TRAMP-mediated RNA surveillance prevents spurious entry of RNAs into the Schizosaccharomyces pombe siRNA pathway. Nat Struct Mol Biol 15: 1015-1023.
-
(2008)
Nat Struct Mol Biol
, vol.15
, pp. 1015-1023
-
-
Buhler, M.1
Spies, N.2
Bartel, D.P.3
Moazed, D.4
-
16
-
-
23044498502
-
Comprehensive analysis of heterochromatin- and RNAi-mediated epigenetic control of the fission yeast genome
-
Cam HP, Sugiyama T, Chen ES, Chen X, FitzGerald PC, Grewal SI. 2005. Comprehensive analysis of heterochromatin- and RNAi-mediated epigenetic control of the fission yeast genome. Nat Genet 37: 809-819.
-
(2005)
Nat Genet
, vol.37
, pp. 809-819
-
-
Cam, H.P.1
Sugiyama, T.2
Chen, E.S.3
Chen, X.4
FitzGerald, P.C.5
Grewal, S.I.6
-
17
-
-
78650942892
-
microRNA complements in deuterostomes: Origin and evolution of microRNAs
-
Campo-Paysaa F, Semon M, Cameron RA, Peterson KJ, Schubert M. 2011. microRNA complements in deuterostomes: Origin and evolution of microRNAs. Evol Dev 13: 15-27.
-
(2011)
Evol Dev
, vol.13
, pp. 15-27
-
-
Campo-Paysaa, F.1
Semon, M.2
Cameron, R.A.3
Peterson, K.J.4
Schubert, M.5
-
18
-
-
0038299558
-
Role of microRNAs in plant and animal development
-
DOI 10.1126/science.1085242
-
Carrington JC, Ambros V. 2003. Role of microRNAs in plant and animal development. Science 301: 336-338. (Pubitemid 36877060)
-
(2003)
Science
, vol.301
, Issue.5631
, pp. 336-338
-
-
Carrington, J.C.1
Ambros, V.2
-
19
-
-
0037090528
-
Life without transcriptional control? From fly to man and back again
-
DOI 10.1093/emboj/21.8.1881
-
Clayton CE. 2002. Life without transcriptional control? From fly to man and back again. EMBO J 21: 1881-1888. (Pubitemid 34437185)
-
(2002)
EMBO Journal
, vol.21
, Issue.8
, pp. 1881-1888
-
-
Clayton, C.E.1
-
20
-
-
71549169628
-
Filtering of deep sequencing data reveals the existence of abundant Dicer-dependent small RNAs derived from tRNAs
-
Cole C, Sobala A, Lu C, Thatcher SR, Bowman A, Brown JW, Green PJ, Barton GJ, Hutvagner G. 2009. Filtering of deep sequencing data reveals the existence of abundant Dicer-dependent small RNAs derived from tRNAs. RNA 15: 2147-2160.
-
(2009)
RNA
, vol.15
, pp. 2147-2160
-
-
Cole, C.1
Sobala, A.2
Lu, C.3
Thatcher, S.R.4
Bowman, A.5
Brown, J.W.6
Green, P.J.7
Barton, G.J.8
Hutvagner, G.9
-
21
-
-
0035160923
-
RNA interference in Trypanosoma brucei: Cloning of small interfering RNAs provides evidence for retroposon-derived 24-26-nucleotide RNAs
-
Djikeng A, Shi H, Tschudi C, Ullu E. 2001. RNA interference in Trypanosoma brucei: Cloning of small interfering RNAs provides evidence for retroposon-derived 24-26-nucleotide RNAs. RNA 7: 1522-1530. (Pubitemid 33078928)
-
(2001)
RNA
, vol.7
, Issue.11
, pp. 1522-1530
-
-
Djikeng, A.1
Shi, H.2
Tschudi, C.3
Ullu, E.4
-
22
-
-
2442597534
-
TbAGO1, an argonaute protein required for RNA interference, is involved in mitosis and chromosome segregation in Trypanosoma brucei
-
Durand-Dubief M, Bastin P. 2003. TbAGO1, an argonaute protein required for RNA interference, is involved in mitosis and chromosome segregation in Trypanosoma brucei. BMC Biol 1: 2.
-
(2003)
BMC Biol
, vol.1
, pp. 2
-
-
Durand-Dubief, M.1
Bastin, P.2
-
23
-
-
35348959885
-
The Argonaute protein TbAGO1 contributes to large and mini-chromosome segregation and is required for control of RIME retroposons and RHS pseudogene-associated transcripts
-
Durand-Dubief M, Absalon S, Menzer L, Ngwabyt S, Ersfeld K, Bastin P. 2007. The Argonaute protein TbAGO1 contributes to large and mini-chromosome segregation and is required for control of RIME retroposons and RHS pseudogene-associated transcripts. Mol Biochem Parasitol 156: 144-153.
-
(2007)
Mol Biochem Parasitol
, vol.156
, pp. 144-153
-
-
Durand-Dubief, M.1
Absalon, S.2
Menzer, L.3
Ngwabyt, S.4
Ersfeld, K.5
Bastin, P.6
-
24
-
-
0035656688
-
Non-coding RNA genes and the modern RNA world
-
DOI 10.1038/35103511
-
Eddy SR. 2001. Non-coding RNA genes and the modern RNA world. Nat Rev Genet 2: 919-929. (Pubitemid 33691089)
-
(2001)
Nature Reviews Genetics
, vol.2
, Issue.12
, pp. 919-929
-
-
Eddy, S.R.1
-
25
-
-
0034633770
-
AGO1, QDE-2, and RDE-1 are related proteins required for post-transcriptional gene silencing in plants, quelling in fungi, and RNA interference in animals
-
Fagard M, Boutet S, Morel JB, Bellini C, Vaucheret H. 2000. AGO1, QDE-2, and RDE-1 are related proteins required for post-transcriptional gene silencing in plants, quelling in fungi, and RNA interference in animals. Proc Natl Acad Sci 97: 11650-11654.
-
(2000)
Proc Natl Acad Sci
, vol.97
, pp. 11650-11654
-
-
Fagard, M.1
Boutet, S.2
Morel, J.B.3
Bellini, C.4
Vaucheret, H.5
-
26
-
-
80052421541
-
The short non-coding transcriptome of the protozoan parasite Trypanosoma cruzi
-
Franzen O, Arner E, Ferella M, Nilsson D, Respuela P, Carninci P, Hayashizaki Y, Aslund L, Andersson B, Daub CO. 2011. The short non-coding transcriptome of the protozoan parasite Trypanosoma cruzi. PLoS Negl Trop Dis 5: e1283.
-
(2011)
PLoS Negl Trop Dis
, vol.5
-
-
Franzen, O.1
Arner, E.2
Ferella, M.3
Nilsson, D.4
Respuela, P.5
Carninci, P.6
Hayashizaki, Y.7
Aslund, L.8
Andersson, B.9
Daub, C.O.10
-
27
-
-
77951937781
-
A population of tRNA-derived small RNAs is actively produced in Trypanosoma cruzi and recruited to specific cytoplasmic granules
-
Garcia-Silva MR, Frugier M, Tosar JP, Correa-Dominguez A, Ronalte-Alves L, Parodi-Talice A, Rovira C, Robello C, Goldenberg S, Cayota A. 2010. A population of tRNA-derived small RNAs is actively produced in Trypanosoma cruzi and recruited to specific cytoplasmic granules. Mol Biochem Parasitol 171: 64-73.
-
(2010)
Mol Biochem Parasitol
, vol.171
, pp. 64-73
-
-
Garcia-Silva, M.R.1
Frugier, M.2
Tosar, J.P.3
Correa-Dominguez, A.4
Ronalte-Alves, L.5
Parodi-Talice, A.6
Rovira, C.7
Robello, C.8
Goldenberg, S.9
Cayota, A.10
-
28
-
-
58449134534
-
Small silencing RNAs: An expanding universe
-
Ghildiyal M, Zamore PD. 2009. Small silencing RNAs: An expanding universe. Nat Rev Genet 10: 94-108.
-
(2009)
Nat Rev Genet
, vol.10
, pp. 94-108
-
-
Ghildiyal, M.1
Zamore, P.D.2
-
30
-
-
55249115975
-
Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals
-
Grimson A, Srivastava M, Fahey B, Woodcroft BJ, Chiang HR, King N, Degnan BM, Rokhsar DS, Bartel DP. 2008. Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals. Nature 455: 1193-1197.
-
(2008)
Nature
, vol.455
, pp. 1193-1197
-
-
Grimson, A.1
Srivastava, M.2
Fahey, B.3
Woodcroft, B.J.4
Chiang, H.R.5
King, N.6
Degnan, B.M.7
Rokhsar, D.S.8
Bartel, D.P.9
-
32
-
-
0037009520
-
Two classes of short interfering RNA in RNA silencing
-
DOI 10.1093/emboj/cdf464
-
Hamilton A, Voinnet O, Chappell L, Baulcombe D. 2002. Two classes of short interfering RNA in RNA silencing. EMBO J 21: 4671-4679. (Pubitemid 34984354)
-
(2002)
EMBO Journal
, vol.21
, Issue.17
, pp. 4671-4679
-
-
Hamilton, A.1
Voinnet, O.2
Chappell, L.3
Baulcombe, D.4
-
33
-
-
3042767202
-
MicroRNAs: Small RNAs with a big role in gene regulation
-
DOI 10.1038/nrg1379
-
He L, Hannon GJ. 2004. MicroRNAs: Small RNAs with a big role in gene regulation. Nat Rev Genet 5: 522-531. (Pubitemid 38868508)
-
(2004)
Nature Reviews Genetics
, vol.5
, Issue.7
, pp. 522-531
-
-
He, L.1
Hannon, G.J.2
-
34
-
-
84856467364
-
Identification of putative miRNAs from the deep-branching unicellular flagellates
-
Huang PJ, Lin WC, Chen SC, Lin YH, Sun CH, Lyu PC, Tang P. 2012. Identification of putative miRNAs from the deep-branching unicellular flagellates. Genomics 99: 101-107.
-
(2012)
Genomics
, vol.99
, pp. 101-107
-
-
Huang, P.J.1
Lin, W.C.2
Chen, S.C.3
Lin, Y.H.4
Sun, C.H.5
Lyu, P.C.6
Tang, P.7
-
35
-
-
33745942282
-
Expression site silencing and life-cycle progression appear normal in Argonaute1-deficient Trypanosoma brucei
-
DOI 10.1016/j.molbiopara.2006.04.005, PII S0166685106001368
-
Janzen CJ, van Deursen F, Shi H, Cross GA, Matthews KR, Ullu E. 2006. Expression site silencing and life-cycle progression appear normal in Argonaute1-deficient Trypanosoma brucei. Mol Biochem Parasitol 149: 102-107. (Pubitemid 44056086)
-
(2006)
Molecular and Biochemical Parasitology
, vol.149
, Issue.1
, pp. 102-107
-
-
Janzen, C.J.1
Van Deursen, F.2
Shi, H.3
Cross, G.A.M.4
Matthews, K.R.5
Ullu, E.6
-
36
-
-
14044251458
-
Human microRNA targets
-
John B, Enright AJ, Aravin A, Tuschl T, Sander C, Marks DS. 2004. Human microRNA targets. PLoS Biol 2: e363.
-
(2004)
PLoS Biol
, vol.2
-
-
John, B.1
Enright, A.J.2
Aravin, A.3
Tuschl, T.4
Sander, C.5
Marks, D.S.6
-
37
-
-
36849089086
-
A novel class of bacteria-induced small RNAs in Arabidopsis
-
DOI 10.1101/gad.1595107
-
Katiyar-Agarwal S, Gao S, Vivian-Smith A, Jin H. 2007. A novel class of bacteria-induced small RNAs in Arabidopsis. Genes Dev 21: 3123-3134. (Pubitemid 350223529)
-
(2007)
Genes and Development
, vol.21
, Issue.23
, pp. 3123-3134
-
-
Katiyar-Agarwal, S.1
Gao, S.2
Vivian-Smith, A.3
Jin, H.4
-
38
-
-
78651293534
-
miRBase: Integrating microRNA annotation and deep-sequencing data
-
Kozomara A, Griffiths-Jones S. 2011. miRBase: Integrating microRNA annotation and deep-sequencing data. Nucleic Acids Res 39(Database issue): D152-D157.
-
(2011)
Nucleic Acids Res
, vol.39
, Issue.DATABASE ISSUE
-
-
Kozomara, A.1
Griffiths-Jones, S.2
-
39
-
-
44349091673
-
Small RNAs: Endo-siRNAs truly endogenous
-
Kritikou E. 2008. Small RNAs: Endo-siRNAs truly endogenous. Nat Rev Mol Cell Biol 9: 426-427.
-
(2008)
Nat Rev Mol Cell Biol
, vol.9
, pp. 426-427
-
-
Kritikou, E.1
-
40
-
-
15944381020
-
Nucleoside and nucleobase transporters in parasitic protozoa
-
DOI 10.1128/EC.3.2.245-254.2004
-
Landfear SM, Ullman B, Carter NS, Sanchez MA. 2004. Nucleoside and nucleobase transporters in parasitic protozoa. Eukaryot Cell 3: 245-254. (Pubitemid 38497964)
-
(2004)
Eukaryotic Cell
, vol.3
, Issue.2
, pp. 245-254
-
-
Landfear, S.M.1
Ullman, B.2
Carter, N.S.3
Sanchez, M.A.4
-
41
-
-
84859210032
-
Fast gapped-read alignment with Bowtie 2
-
Langmead B, Salzberg SL. 2012. Fast gapped-read alignment with Bowtie 2. Nat Methods 9: 357-359.
-
(2012)
Nat Methods
, vol.9
, pp. 357-359
-
-
Langmead, B.1
Salzberg, S.L.2
-
42
-
-
0014884946
-
Isolation of salivarian trypanosomes from man and other mammals using DEAE-cellulose
-
Lanham SM, Godfrey DG. 1970. Isolation of salivarian trypanosomes from man and other mammals using DEAE-cellulose. Exp Parasitol 28: 521-534.
-
(1970)
Exp Parasitol
, vol.28
, pp. 521-534
-
-
Lanham, S.M.1
Godfrey, D.G.2
-
43
-
-
66149084316
-
qiRNA is a new type of small interfering RNA induced by DNA damage
-
Lee H-C, Chang S-S, Choudhary S, Aalto AP, Maiti M, Bamford DH, Liu Y. 2009a. qiRNA is a new type of small interfering RNA induced by DNA damage. Nature 459: 274-277.
-
(2009)
Nature
, vol.459
, pp. 274-277
-
-
Lee, H.-C.1
Chang, S.-S.2
Choudhary, S.3
Aalto, A.P.4
Maiti, M.5
Bamford, D.H.6
Liu, Y.7
-
44
-
-
72749089855
-
A novel class of small RNAs: tRNA-derived RNA fragments (tRFs)
-
Lee YS, Shibata Y, Malhotra A, Dutta A. 2009b. A novel class of small RNAs: tRNA-derived RNA fragments (tRFs). Genes Dev 23: 2639-2649.
-
(2009)
Genes Dev
, vol.23
, pp. 2639-2649
-
-
Lee, Y.S.1
Shibata, Y.2
Malhotra, A.3
Dutta, A.4
-
45
-
-
0036468258
-
Antisense transcripts in the human genome
-
DOI 10.1016/S0168-9525(02)02598-2, PII S0168952501025987
-
Lehner B, Williams G, Campbell RD, Sanderson CM. 2002. Antisense transcripts in the human genome. Trends Genet 18: 63-65. (Pubitemid 34127799)
-
(2002)
Trends in Genetics
, vol.18
, Issue.2
, pp. 63-65
-
-
Lehner, B.1
Williams, G.2
Campbell R.Duncan3
Sanderson, C.M.4
-
46
-
-
11844278458
-
Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets
-
DOI 10.1016/j.cell.2004.12.035, PII S0092867404012607
-
Lewis BP, Burge CB, Bartel DP. 2005. Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 120: 15-20. (Pubitemid 40094598)
-
(2005)
Cell
, vol.120
, Issue.1
, pp. 15-20
-
-
Lewis, B.P.1
Burge, C.B.2
Bartel, D.P.3
-
47
-
-
50849129426
-
Trans-natural antisense transcripts including noncoding RNAs in 10 species: Implications for expression regulation
-
Li JT, Zhang Y, Kong L, Liu QR, Wei L. 2008a. Trans-natural antisense transcripts including noncoding RNAs in 10 species: Implications for expression regulation. Nucleic Acids Res 36: 4833-4844.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 4833-4844
-
-
Li, J.T.1
Zhang, Y.2
Kong, L.3
Liu, Q.R.4
Wei, L.5
-
48
-
-
56049119367
-
Stress-induced tRNA-derived RNAs: A novel class of small RNAs in the primitive eukaryote Giardia lamblia
-
Li Y, Luo J, Zhou H, Liao JY, Ma LM, Chen YQ, Qu LH. 2008b. Stress-induced tRNA-derived RNAs: A novel class of small RNAs in the primitive eukaryote Giardia lamblia. Nucleic Acids Res 36: 6048-6055.
-
(2008)
Nucleic Acids Res
, vol.36
, pp. 6048-6055
-
-
Li, Y.1
Luo, J.2
Zhou, H.3
Liao, J.Y.4
Ma, L.M.5
Chen, Y.Q.6
Qu, L.H.7
-
49
-
-
84864913576
-
Extensive terminal and asymmetric processing of small RNAs from rRNAs, snoRNAs, snRNAs, and tRNAs
-
Li Z, Ender C, Meister G, Moore PS, Chang Y, John B. 2012. Extensive terminal and asymmetric processing of small RNAs from rRNAs, snoRNAs, snRNAs, and tRNAs. Nucleic Acids Res 40: 6787-6799.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. 6787-6799
-
-
Li, Z.1
Ender, C.2
Meister, G.3
Moore, P.S.4
Chang, Y.5
John, B.6
-
50
-
-
77956278708
-
Deep sequencing of human nuclear and cytoplasmic small RNAs reveals an unexpectedly complex subcellular distribution of miRNAs and tRNA 3′ trailers
-
Liao JY, Ma LM, Guo YH, Zhang YC, Zhou H, Shao P, Chen YQ, Qu LH. 2010. Deep sequencing of human nuclear and cytoplasmic small RNAs reveals an unexpectedly complex subcellular distribution of miRNAs and tRNA 3′ trailers. PLoS One 5: e10563.
-
(2010)
PLoS One
, vol.5
-
-
Liao, J.Y.1
Ma, L.M.2
Guo, Y.H.3
Zhang, Y.C.4
Zhou, H.5
Shao, P.6
Chen, Y.Q.7
Qu, L.H.8
-
51
-
-
78449245604
-
Retention and loss of RNA interference pathways in trypanosomatid protozoans
-
Lye LF, Owens K, Shi H, Murta SM, Vieira AC, Turco SJ, Tschudi C, Ullu E, Beverley SM. 2010. Retention and loss of RNA interference pathways in trypanosomatid protozoans. PLoS Pathog 6: e1001161.
-
(2010)
PLoS Pathog
, vol.6
-
-
Lye, L.F.1
Owens, K.2
Shi, H.3
Murta, S.M.4
Vieira, A.C.5
Turco, S.J.6
Tschudi, C.7
Ullu, E.8
Beverley, S.M.9
-
53
-
-
41349114789
-
Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5′ terminal nucleotide
-
Mi S, Cai T, Hu Y, Chen Y, Hodges E, Ni F, Wu L, Li S, Zhou H, Long C, et al. 2008. Sorting of small RNAs into Arabidopsis argonaute complexes is directed by the 5′ terminal nucleotide. Cell 133: 116-127.
-
(2008)
Cell
, vol.133
, pp. 116-127
-
-
Mi, S.1
Cai, T.2
Hu, Y.3
Chen, Y.4
Hodges, E.5
Ni, F.6
Wu, L.7
Li, S.8
Zhou, H.9
Long, C.10
-
54
-
-
58749097426
-
Small RNAs in transcriptional gene silencing and genome defence
-
Moazed D. 2009. Small RNAs in transcriptional gene silencing and genome defence. Nature 457: 413-420.
-
(2009)
Nature
, vol.457
, pp. 413-420
-
-
Moazed, D.1
-
55
-
-
44849137895
-
Endo-siRNAs: Yet another layer of complexity in RNA silencing
-
DOI 10.1038/nsmb0608-546, PII NSMB0608546
-
Nilsen TW. 2008. Endo-siRNAs: Yet another layer of complexity in RNA silencing. Nat Struct Mol Biol 15: 546-548. (Pubitemid 351799148)
-
(2008)
Nature Structural and Molecular Biology
, vol.15
, Issue.6
, pp. 546-548
-
-
Nilsen, T.W.1
-
56
-
-
50149095122
-
Endogenous small interfering RNAs in animals
-
Okamura K, Lai EC. 2008. Endogenous small interfering RNAs in animals. Nat Rev Mol Cell Biol 9: 673-678.
-
(2008)
Nat Rev Mol Cell Biol
, vol.9
, pp. 673-678
-
-
Okamura, K.1
Lai, E.C.2
-
57
-
-
44349101881
-
Two distinct mechanisms generate endogenous siRNAs from bidirectional transcription in Drosophila melanogaster
-
DOI 10.1038/nsmb.1438, PII NSMB1438
-
Okamura K, Balla S, Martin R, Liu N, Lai EC. 2008. Two distinct mechanisms generate endogenous siRNAs from bidirectional transcription in Drosophila melanogaster. Nat Struct Mol Biol 15: 581-590. (Pubitemid 351799142)
-
(2008)
Nature Structural and Molecular Biology
, vol.15
, Issue.6
, pp. 581-590
-
-
Okamura, K.1
Balla, S.2
Martin, R.3
Liu, N.4
Lai, E.C.5
-
58
-
-
84894406222
-
RNA interference: A pathway to drug target identification and validation in trypanosomes
-
Owino VA, Masiga DK, Limo MK. 2008. RNA interference: A pathway to drug target identification and validation in trypanosomes. Afr J Biochem Res 2: 66-73.
-
(2008)
Afr J Biochem Res
, vol.2
, pp. 66-73
-
-
Owino, V.A.1
Masiga, D.K.2
Limo, M.K.3
-
59
-
-
70449560425
-
Distinct and overlapping roles for two Dicer-like proteins in the RNA interference pathways of the ancient eukaryote Trypanosoma brucei
-
Patrick KL, Shi H, Kolev NG, Ersfeld K, Tschudi C, Ullu E. 2009. Distinct and overlapping roles for two Dicer-like proteins in the RNA interference pathways of the ancient eukaryote Trypanosoma brucei. Proc Natl Acad Sci 106: 17933-17938.
-
(2009)
Proc Natl Acad Sci
, vol.106
, pp. 17933-17938
-
-
Patrick, K.L.1
Shi, H.2
Kolev, N.G.3
Ersfeld, K.4
Tschudi, C.5
Ullu, E.6
-
60
-
-
26844506268
-
Regulation of antigen gene expression in Trypanosoma brucei
-
DOI 10.1016/j.pt.2005.08.016, PII S1471492205002308
-
Pays E. 2005. Regulation of antigen gene expression in Trypanosoma brucei. Trends Parasitol 21: 517-520. (Pubitemid 41447023)
-
(2005)
Trends in Parasitology
, vol.21
, Issue.11
, pp. 517-520
-
-
Pays, E.1
-
61
-
-
33646832920
-
The trypanolytic factor of human serum
-
DOI 10.1038/nrmicro1428, PII N1428
-
Pays E, Vanhollebeke B, Vanhamme L, Paturiaux-Hanocq F, Nolan DP, Perez-Morga D. 2006. The trypanolytic factor of human serum. Nat Rev Microbiol 4: 477-486. (Pubitemid 43771867)
-
(2006)
Nature Reviews Microbiology
, vol.4
, Issue.6
, pp. 477-486
-
-
Pays, E.1
Vanhollebeke, B.2
Vanhamme, L.3
Paturiaux-Hanocq, F.4
Nolan, D.P.5
Perez-Morga, D.6
-
62
-
-
84868537584
-
A novel class of tRNA-derived small RNAs extremely enriched in mature mouse sperm
-
Peng H, Shi J, Zhang Y, Zhang H, Liao S, Li W, Lei L, Han C, Ning L, Cao Y, et al. 2012. A novel class of tRNA-derived small RNAs extremely enriched in mature mouse sperm. Cell Res 22: 1609-1612.
-
(2012)
Cell Res
, vol.22
, pp. 1609-1612
-
-
Peng, H.1
Shi, J.2
Zhang, Y.3
Zhang, H.4
Liao, S.5
Li, W.6
Lei, L.7
Han, C.8
Ning, L.9
Cao, Y.10
-
63
-
-
57649114766
-
Antigenic variation in Giardia lamblia is regulated by RNA interference
-
Prucca CG, Slavin I, Quiroga R, Elias EV, Rivero FD, Saura A, Carranza PG, Lujan HD. 2008. Antigenic variation in Giardia lamblia is regulated by RNA interference. Nature 456: 750-754.
-
(2008)
Nature
, vol.456
, pp. 750-754
-
-
Prucca, C.G.1
Slavin, I.2
Quiroga, R.3
Elias, E.V.4
Rivero, F.D.5
Saura, A.6
Carranza, P.G.7
Lujan, H.D.8
-
64
-
-
37549027613
-
SILVA: A comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
-
Pruesse E, Quast C, Knittel K, Fuchs BM, Ludwig W, Peplies J, Glockner FO. 2007. SILVA: A comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res 35: 7188-7196.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 7188-7196
-
-
Pruesse, E.1
Quast, C.2
Knittel, K.3
Fuchs, B.M.4
Ludwig, W.5
Peplies, J.6
Glockner, F.O.7
-
65
-
-
0037884861
-
Improvements in transfection efficiency and tests of RNA interference (RNAi) approaches in the protozoan parasite Leishmania
-
DOI 10.1016/S0166-6851(03)00079-3
-
Robinson KA, Beverley SM. 2003. Improvements in transfection efficiency and tests of RNA interference (RNAi) approaches in the protozoan parasite Leishmania. Mol Biochem Parasitol 128: 217-228. (Pubitemid 36549251)
-
(2003)
Molecular and Biochemical Parasitology
, vol.128
, Issue.2
, pp. 217-228
-
-
Robinson, K.A.1
Beverley, S.M.2
-
66
-
-
57149094023
-
snoRNA, a novel precursor of microRNA in Giardia lamblia
-
Saraiya AA, Wang CC. 2008. snoRNA, a novel precursor of microRNA in Giardia lamblia. PLoS Pathog 4: e1000224.
-
(2008)
PLoS Pathog
, vol.4
-
-
Saraiya, A.A.1
Wang, C.C.2
-
67
-
-
0037158780
-
Computational discovery of sense-antisense transcription in the human and mouse genomes
-
RESEARCH0044
-
Shendure J, Church GM. 2002. Computational discovery of sense-antisense transcription in the human and mouse genomes. Genome Biol 3: RESEARCH0044.
-
(2002)
Genome Biol
, vol.3
-
-
Shendure, J.1
Church, G.M.2
-
68
-
-
34250832878
-
Depletion of newly synthesized Argonaute1 impairs the RNAi response in Trypanosoma brucei
-
DOI 10.1261/rna.474707
-
Shi H, Tschudi C, Ullu E. 2007. Depletion of newly synthesized Argonaute1 impairs the RNAi response in Trypanosoma brucei. RNA 13: 1132-1139. (Pubitemid 46984902)
-
(2007)
RNA
, vol.13
, Issue.7
, pp. 1132-1139
-
-
Shi, H.1
Tschudi, C.2
Ullu, E.3
-
69
-
-
77956127684
-
Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites
-
Siegel TN, Hekstra DR, Wang X, Dewell S, Cross GA. 2010. Genome-wide analysis of mRNA abundance in two life-cycle stages of Trypanosoma brucei and identification of splicing and polyadenylation sites. Nucleic Acids Res 38: 4946-4957.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 4946-4957
-
-
Siegel, T.N.1
Hekstra, D.R.2
Wang, X.3
Dewell, S.4
Cross, G.A.5
-
70
-
-
78650500890
-
Endogenous siRNAs and noncoding RNA-derived small RNAs are expressed in adult mouse hippocampus and are up-regulated in olfactory discrimination training
-
Smalheiser NR, Lugli G, Thimmapuram J, Cook EH, Larson J. 2011. Endogenous siRNAs and noncoding RNA-derived small RNAs are expressed in adult mouse hippocampus and are up-regulated in olfactory discrimination training. RNA 17: 166-181.
-
(2011)
RNA
, vol.17
, pp. 166-181
-
-
Smalheiser, N.R.1
Lugli, G.2
Thimmapuram, J.3
Cook, E.H.4
Larson, J.5
-
71
-
-
80051960173
-
Male germ cells express abundant endogenous siRNAs
-
Song R, Hennig GW, Wu Q, Jose C, Zheng H, Yan W. 2011. Male germ cells express abundant endogenous siRNAs. Proc Natl Acad Sci 108: 13159-13164.
-
(2011)
Proc Natl Acad Sci
, vol.108
, pp. 13159-13164
-
-
Song, R.1
Hennig, G.W.2
Wu, Q.3
Jose, C.4
Zheng, H.5
Yan, W.6
-
72
-
-
44349159416
-
Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes
-
Tam OH, Aravin AA, Stein P, Girard A, Murchison EP, Cheloufi S, Hodges E, Anger M, Sachidanandam R, Schultz RM, et al. 2008. Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes. Nature 453: 534-538.
-
(2008)
Nature
, vol.453
, pp. 534-538
-
-
Tam, O.H.1
Aravin, A.A.2
Stein, P.3
Girard, A.4
Murchison, E.P.5
Cheloufi, S.6
Hodges, E.7
Anger, M.8
Sachidanandam, R.9
Schultz, R.M.10
-
73
-
-
0031574072
-
The CLUSTAL-X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
-
Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. 1997. The CLUSTAL-X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25: 4876-4882.
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 4876-4882
-
-
Thompson, J.D.1
Gibson, T.J.2
Plewniak, F.3
Jeanmougin, F.4
Higgins, D.G.5
-
74
-
-
0024708538
-
Antigenic diversity by the recombination of pseudogenes
-
Thon G, Baltz T, Eisen H. 1989. Antigenic diversity by the recombination of pseudogenes. Genes Dev 3: 1247-1254.
-
(1989)
Genes Dev
, vol.3
, pp. 1247-1254
-
-
Thon, G.1
Baltz, T.2
Eisen, H.3
-
75
-
-
84875634162
-
Integrative Genomics Viewer (IGV): High-performance genomics data visualization and exploration
-
Thorvaldsdóttir H, Robinson JT, Mesirov JP. 2013. Integrative Genomics Viewer (IGV): High-performance genomics data visualization and exploration. Brief Bioinform 14: 178-192.
-
(2013)
Brief Bioinform
, vol.14
, pp. 178-192
-
-
Thorvaldsdóttir, H.1
Robinson, J.T.2
Mesirov, J.P.3
-
76
-
-
84865324373
-
Small interfering RNA-producing loci in the ancient parasitic eukaryote Trypanosoma brucei
-
Tschudi C, Shi H, Franklin JB, Ullu E. 2012. Small interfering RNA-producing loci in the ancient parasitic eukaryote Trypanosoma brucei. BMC Genomics 13: 427.
-
(2012)
BMC Genomics
, vol.13
, pp. 427
-
-
Tschudi, C.1
Shi, H.2
Franklin, J.B.3
Ullu, E.4
-
77
-
-
20444482068
-
Small sense and antisense RNAs derived from a telomeric retroposon family in Giardia intestinalis
-
DOI 10.1128/EC.4.6.1155-1157.2005
-
Ullu E, Lujan HD, Tschudi C. 2005. Small sense and antisense RNAs derived from a telomeric retroposon family in Giardia intestinalis. Eukaryot Cell 4: 1155-1157. (Pubitemid 40817474)
-
(2005)
Eukaryotic Cell
, vol.4
, Issue.6
, pp. 1155-1157
-
-
Ullu, E.1
Lujan, H.D.2
Tschudi, C.3
-
78
-
-
0029014312
-
Control of gene expression in trypanosomes
-
Vanhamme L, Pays E. 1995. Control of gene expression in trypanosomes. Microbiol Rev 59: 223-240.
-
(1995)
Microbiol Rev
, vol.59
, pp. 223-240
-
-
Vanhamme, L.1
Pays, E.2
-
79
-
-
44349130233
-
Endogenous siRNAs from naturally formed dsRNAs regulate transcripts in mouse oocytes
-
Watanabe T, Totoki Y, Toyoda A, Kaneda M, Kuramochi-Miyagawa S, Obata Y, Chiba H, Kohara Y, Kono T, Nakano T, et al. 2008. Endogenous siRNAs from naturally formed dsRNAs regulate transcripts in mouse oocytes. Nature 453: 539-543.
-
(2008)
Nature
, vol.453
, pp. 539-543
-
-
Watanabe, T.1
Totoki, Y.2
Toyoda, A.3
Kaneda, M.4
Kuramochi-Miyagawa, S.5
Obata, Y.6
Chiba, H.7
Kohara, Y.8
Kono, T.9
Nakano, T.10
-
80
-
-
79957741638
-
Pseudogene-derived small interference RNAs regulate gene expression in African Trypanosoma brucei
-
Wen YZ, Zheng LL, Liao JY, Wang MH, Wei Y, Guo XM, Qu LH, Ayala FJ, Lun ZR. 2011. Pseudogene-derived small interference RNAs regulate gene expression in African Trypanosoma brucei. Proc Natl Acad Sci 108: 8345-8350.
-
(2011)
Proc Natl Acad Sci
, vol.108
, pp. 8345-8350
-
-
Wen, Y.Z.1
Zheng, L.L.2
Liao, J.Y.3
Wang, M.H.4
Wei, Y.5
Guo, X.M.6
Qu, L.H.7
Ayala, F.J.8
Lun, Z.R.9
-
81
-
-
84856766408
-
Pseudogenes are not pseudo any more
-
Wen YZ, Zheng LL, Qu LH, Ayala FJ, Lun ZR. 2012. Pseudogenes are not pseudo any more. RNA Biol 9: 27-32.
-
(2012)
RNA Biol
, vol.9
, pp. 27-32
-
-
Wen, Y.Z.1
Zheng, L.L.2
Qu, L.H.3
Ayala, F.J.4
Lun, Z.R.5
-
82
-
-
33646158501
-
Natural antisense transcripts: Sound or silence?
-
DOI 10.1152/physiolgenomics.00124.2005
-
Werner A, Berdal A. 2005. Natural antisense transcripts: Sound or silence? Physiol Genomics 23: 125-131. (Pubitemid 44437972)
-
(2005)
Physiological Genomics
, vol.23
, Issue.2
, pp. 125-131
-
-
Werner, A.1
Berdal, A.2
-
83
-
-
42549094690
-
No miRNA were found in Plasmodium and the ones identified in erythrocytes could not be correlated with infection
-
Xue X, Zhang Q, Huang Y, Feng L, Pan W. 2008. No miRNA were found in Plasmodium and the ones identified in erythrocytes could not be correlated with infection. Malar J 7: 47.
-
(2008)
Malar J
, vol.7
, pp. 47
-
-
Xue, X.1
Zhang, Q.2
Huang, Y.3
Feng, L.4
Pan, W.5
-
84
-
-
57149118220
-
Small RNAs with 5′-polyphosphate termini associate with a Piwi-related protein and regulate gene expression in the single-celled eukaryote Entamoeba histolytica
-
Zhang H, Ehrenkaufer GM, Pompey JM, Hackney JA, Singh U. 2008. Small RNAs with 5′-polyphosphate termini associate with a Piwi-related protein and regulate gene expression in the single-celled eukaryote Entamoeba histolytica. PLoS Pathog 4: e1000219.
-
(2008)
PLoS Pathog
, vol.4
-
-
Zhang, H.1
Ehrenkaufer, G.M.2
Pompey, J.M.3
Hackney, J.A.4
Singh, U.5
-
85
-
-
61449191758
-
Genome-wide identification and analysis of small RNAs originated from natural antisense transcripts in Oryza sativa
-
Zhou X, Sunkar R, Jin H, Zhu JK, Zhang W. 2009. Genome-wide identification and analysis of small RNAs originated from natural antisense transcripts in Oryza sativa. Genome Res 19: 70-78.
-
(2009)
Genome Res
, vol.19
, pp. 70-78
-
-
Zhou, X.1
Sunkar, R.2
Jin, H.3
Zhu, J.K.4
Zhang, W.5
-
86
-
-
0037474126
-
ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation
-
DOI 10.1126/science.1079695
-
Zilberman D, Cao X, Jacobsen SE. 2003. ARGONAUTE4 control of locus-specific siRNA accumulation and DNA and histone methylation. Science 299: 716-719. (Pubitemid 36159488)
-
(2003)
Science
, vol.299
, Issue.5607
, pp. 716-719
-
-
Zilberman, D.1
Cao, X.2
Jacobsen, S.E.3
|