-
1
-
-
77958471357
-
Differential expression analysis for sequence count data
-
Anders S., Huber W. Differential expression analysis for sequence count data. Genome Biol. 2010, 11:R106. 10.1186/gb-2010-11-10-r106.
-
(2010)
Genome Biol.
, vol.11
-
-
Anders, S.1
Huber, W.2
-
2
-
-
34248160438
-
Developmentally regulated piRNA clusters implicate MILI in transposon control
-
Aravin A.A., Sachidanandam R., Girard A., Fejes-Toth K., Hannon G.J. Developmentally regulated piRNA clusters implicate MILI in transposon control. Science 2007, 316:744-747.
-
(2007)
Science
, vol.316
, pp. 744-747
-
-
Aravin, A.A.1
Sachidanandam, R.2
Girard, A.3
Fejes-Toth, K.4
Hannon, G.J.5
-
3
-
-
49949116902
-
The impact of microRNAs on protein output
-
Baek D., Villén J., Shin C., Camargo F.D., Gygi S.P., Bartel D.P. The impact of microRNAs on protein output. Nature 2008, 455:64-71.
-
(2008)
Nature
, vol.455
, pp. 64-71
-
-
Baek, D.1
Villén, J.2
Shin, C.3
Camargo, F.D.4
Gygi, S.P.5
Bartel, D.P.6
-
4
-
-
75949108066
-
Galaxy: a web-based genome analysis tool for experimentalists
-
Unit 19.10.1-21, Chapter 19
-
Blankenberg D., Von Kuster G., Coraor N., Ananda G., Lazarus R., Mangan M., Nekrutenko A., Taylor J. Galaxy: a web-based genome analysis tool for experimentalists. Curr. Protoc. Mol. Biol. 2010, Chapter 19. Unit 19.10.1-21.
-
(2010)
Curr. Protoc. Mol. Biol.
-
-
Blankenberg, D.1
Von Kuster, G.2
Coraor, N.3
Ananda, G.4
Lazarus, R.5
Mangan, M.6
Nekrutenko, A.7
Taylor, J.8
-
5
-
-
33947273235
-
Discrete small RNA-generating loci as master regulators of transposon activity in Drosophila
-
Brennecke J., Aravin A.A., Stark A., Dus M., Kellis M., Sachidanandam R., Hannon G.J. Discrete small RNA-generating loci as master regulators of transposon activity in Drosophila. Cell 2007, 128:1089-1103.
-
(2007)
Cell
, vol.128
, pp. 1089-1103
-
-
Brennecke, J.1
Aravin, A.A.2
Stark, A.3
Dus, M.4
Kellis, M.5
Sachidanandam, R.6
Hannon, G.J.7
-
6
-
-
85011936073
-
Deep-sequencing of human Argonaute-associated small RNAs provides insight into miRNA sorting and reveals Argonaute association with RNA fragments of diverse origin
-
Burroughs A.M., Ando Y., de Hoon M.J., Tomaru Y., Suzuki H., Hayashizaki Y., Daub C.O. Deep-sequencing of human Argonaute-associated small RNAs provides insight into miRNA sorting and reveals Argonaute association with RNA fragments of diverse origin. RNA Biol. 2011, 8:158-177.
-
(2011)
RNA Biol.
, vol.8
, pp. 158-177
-
-
Burroughs, A.M.1
Ando, Y.2
de Hoon, M.J.3
Tomaru, Y.4
Suzuki, H.5
Hayashizaki, Y.6
Daub, C.O.7
-
7
-
-
84872533627
-
RNA interference in the nucleus: roles for small RNAs in transcription, epigenetics and beyond
-
Castel S.E., Martienssen R.A. RNA interference in the nucleus: roles for small RNAs in transcription, epigenetics and beyond. Nat. Rev. Genet. 2013, 14:100-112.
-
(2013)
Nat. Rev. Genet.
, vol.14
, pp. 100-112
-
-
Castel, S.E.1
Martienssen, R.A.2
-
8
-
-
77953183812
-
A dicer-independent miRNA biogenesis pathway that requires Ago catalysis
-
Cheloufi S., Dos Santos C.O., Chong M.M., Hannon G.J. A dicer-independent miRNA biogenesis pathway that requires Ago catalysis. Nature 2010, 465:584-589.
-
(2010)
Nature
, vol.465
, pp. 584-589
-
-
Cheloufi, S.1
Dos Santos, C.O.2
Chong, M.M.3
Hannon, G.J.4
-
9
-
-
84866140582
-
Arabidopsis Argonaute MID domains use their nucleotide specificity loop to sort small RNAs
-
Frank F., Hauver J., Sonenberg N., Nagar B. Arabidopsis Argonaute MID domains use their nucleotide specificity loop to sort small RNAs. EMBO J. 2012, 31:3588-3595.
-
(2012)
EMBO J.
, vol.31
, pp. 3588-3595
-
-
Frank, F.1
Hauver, J.2
Sonenberg, N.3
Nagar, B.4
-
10
-
-
79960716754
-
Multisubunit RNA polymerases IV and V: purveyors of non-coding RNA for plant gene silencing
-
Haag J.R., Pikaard C.S. Multisubunit RNA polymerases IV and V: purveyors of non-coding RNA for plant gene silencing. Nat. Rev. Mol. Cell Biol. 2011, 12:483-492.
-
(2011)
Nat. Rev. Mol. Cell Biol.
, vol.12
, pp. 483-492
-
-
Haag, J.R.1
Pikaard, C.S.2
-
11
-
-
14844295120
-
RNA polymerase IV directs silencing of endogenous DNA
-
Herr A.J., Jensen M.B., Dalmay T., Baulcombe D.C. RNA polymerase IV directs silencing of endogenous DNA. Science 2005, 308:118-120.
-
(2005)
Science
, vol.308
, pp. 118-120
-
-
Herr, A.J.1
Jensen, M.B.2
Dalmay, T.3
Baulcombe, D.C.4
-
12
-
-
80053599471
-
Programmed DNA elimination in Tetrahymena: a small RNA-mediated genome surveillance mechanism
-
Kataoka K., Mochizuki K. Programmed DNA elimination in Tetrahymena: a small RNA-mediated genome surveillance mechanism. Adv. Exp. Med. Biol. 2011, 722:156-173.
-
(2011)
Adv. Exp. Med. Biol.
, vol.722
, pp. 156-173
-
-
Kataoka, K.1
Mochizuki, K.2
-
13
-
-
80052991624
-
3' end formation of PIWI-interacting RNAs invitro
-
Kawaoka S., Izumi N., Katsuma S., Tomari Y. 3' end formation of PIWI-interacting RNAs invitro. Mol. Cell 2011, 43:1015-1022.
-
(2011)
Mol. Cell
, vol.43
, pp. 1015-1022
-
-
Kawaoka, S.1
Izumi, N.2
Katsuma, S.3
Tomari, Y.4
-
14
-
-
50049086448
-
Broad-host-range expression vectors with tightly regulated promoters and their use to examine the influence of TraR and TraM expression on Ti plasmid quorum sensing
-
Khan S.R., Gaines J., Roop R.M., Farrand S.K. Broad-host-range expression vectors with tightly regulated promoters and their use to examine the influence of TraR and TraM expression on Ti plasmid quorum sensing. Appl. Environ. Microbiol. 2008, 74:5053-5062.
-
(2008)
Appl. Environ. Microbiol.
, vol.74
, pp. 5053-5062
-
-
Khan, S.R.1
Gaines, J.2
Roop, R.M.3
Farrand, S.K.4
-
15
-
-
0035955361
-
An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans
-
Lau N.C., Lim L.P., Weinstein E.G., Bartel D.P. An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans. Science 2001, 294:858-862.
-
(2001)
Science
, vol.294
, pp. 858-862
-
-
Lau, N.C.1
Lim, L.P.2
Weinstein, E.G.3
Bartel, D.P.4
-
16
-
-
84874230944
-
Piwi induces piRNA-guided transcriptional silencing and establishment of a repressive chromatin state
-
Le Thomas A., Rogers A.K., Webster A., Marinov G.K., Liao S.E., Perkins E.M., Hur J.K., Aravin A.A., Tóth K.F. Piwi induces piRNA-guided transcriptional silencing and establishment of a repressive chromatin state. Genes Dev. 2013, 27:390-399.
-
(2013)
Genes Dev.
, vol.27
, pp. 390-399
-
-
Le Thomas, A.1
Rogers, A.K.2
Webster, A.3
Marinov, G.K.4
Liao, S.E.5
Perkins, E.M.6
Hur, J.K.7
Aravin, A.A.8
Tóth, K.F.9
-
17
-
-
0037123630
-
Induction and suppression of RNA silencing by an animal virus
-
Li H., Li W.X., Ding S.W. Induction and suppression of RNA silencing by an animal virus. Science 2002, 296:1319-1321.
-
(2002)
Science
, vol.296
, pp. 1319-1321
-
-
Li, H.1
Li, W.X.2
Ding, S.W.3
-
18
-
-
4444368187
-
Argonaute2 is the catalytic engine of mammalian RNAi
-
Liu J., Carmell M.A., Rivas F.V., Marsden C.G., Thomson J.M., Song J.J., Hammond S.M., Joshua-Tor L., Hannon G.J. Argonaute2 is the catalytic engine of mammalian RNAi. Science 2004, 305:1437-1441.
-
(2004)
Science
, vol.305
, pp. 1437-1441
-
-
Liu, J.1
Carmell, M.A.2
Rivas, F.V.3
Marsden, C.G.4
Thomson, J.M.5
Song, J.J.6
Hammond, S.M.7
Joshua-Tor, L.8
Hannon, G.J.9
-
19
-
-
23944506789
-
Animal virus replication and RNAi-mediated antiviral silencing in Caenorhabditis elegans
-
Lu R., Maduro M., Li F., Li H.W., Broitman-Maduro G., Li W.X., Ding S.W. Animal virus replication and RNAi-mediated antiviral silencing in Caenorhabditis elegans. Nature 2005, 436:1040-1043.
-
(2005)
Nature
, vol.436
, pp. 1040-1043
-
-
Lu, R.1
Maduro, M.2
Li, F.3
Li, H.W.4
Broitman-Maduro, G.5
Li, W.X.6
Ding, S.W.7
-
20
-
-
84880917068
-
PIWI-interacting RNAs: from generation to transgenerational epigenetics
-
Luteijn M.J., Ketting R.F. PIWI-interacting RNAs: from generation to transgenerational epigenetics. Nat. Rev. Genet. 2013, 14:523-534.
-
(2013)
Nat. Rev. Genet.
, vol.14
, pp. 523-534
-
-
Luteijn, M.J.1
Ketting, R.F.2
-
21
-
-
15844371219
-
Structural basis for 5'-end-specific recognition of guide RNA by the A.fulgidus Piwi protein
-
Ma J.B., Yuan Y.R., Meister G., Pei Y., Tuschl T., Patel D.J. Structural basis for 5'-end-specific recognition of guide RNA by the A.fulgidus Piwi protein. Nature 2005, 434:666-670.
-
(2005)
Nature
, vol.434
, pp. 666-670
-
-
Ma, J.B.1
Yuan, Y.R.2
Meister, G.3
Pei, Y.4
Tuschl, T.5
Patel, D.J.6
-
22
-
-
70849123800
-
Prokaryotic homologs of Argonaute proteins are predicted to function as key components of a novel system of defense against mobile genetic elements
-
Makarova K.S., Wolf Y.I., van der Oost J., Koonin E.V. Prokaryotic homologs of Argonaute proteins are predicted to function as key components of a novel system of defense against mobile genetic elements. Biol. Direct 2009, 4:29.
-
(2009)
Biol. Direct
, vol.4
, pp. 29
-
-
Makarova, K.S.1
Wolf, Y.I.2
van der Oost, J.3
Koonin, E.V.4
-
23
-
-
84872870536
-
TRNA-derived microRNA modulates proliferation and the DNA damage response and is down-regulated in B cell lymphoma
-
Maute R.L., Schneider C., Sumazin P., Holmes A., Califano A., Basso K., Dalla-Favera R. tRNA-derived microRNA modulates proliferation and the DNA damage response and is down-regulated in B cell lymphoma. Proc. Natl. Acad. Sci. USA 2013, 110:1404-1409.
-
(2013)
Proc. Natl. Acad. Sci. USA
, vol.110
, pp. 1404-1409
-
-
Maute, R.L.1
Schneider, C.2
Sumazin, P.3
Holmes, A.4
Califano, A.5
Basso, K.6
Dalla-Favera, R.7
-
24
-
-
84879414849
-
Argonaute proteins: functional insights and emerging roles
-
Meister G. Argonaute proteins: functional insights and emerging roles. Nat. Rev. Genet. 2013, 14:447-459.
-
(2013)
Nat. Rev. Genet.
, vol.14
, pp. 447-459
-
-
Meister, G.1
-
25
-
-
84055217981
-
Production of artificial piRNAs in flies and mice
-
Muerdter F., Olovnikov I., Molaro A., Rozhkov N.V., Czech B., Gordon A., Hannon G.J., Aravin A.A. Production of artificial piRNAs in flies and mice. RNA 2012, 18:42-52.
-
(2012)
RNA
, vol.18
, pp. 42-52
-
-
Muerdter, F.1
Olovnikov, I.2
Molaro, A.3
Rozhkov, N.V.4
Czech, B.5
Gordon, A.6
Hannon, G.J.7
Aravin, A.A.8
-
26
-
-
84862558196
-
Structure of yeast Argonaute with guide RNA
-
Nakanishi K., Weinberg D.E., Bartel D.P., Patel D.J. Structure of yeast Argonaute with guide RNA. Nature 2012, 486:368-374.
-
(2012)
Nature
, vol.486
, pp. 368-374
-
-
Nakanishi, K.1
Weinberg, D.E.2
Bartel, D.P.3
Patel, D.J.4
-
28
-
-
40549135676
-
Analysis of large-scale sequencing of small RNAs
-
Olson A.J., Brennecke J., Aravin A.A., Hannon G.J., Sachidanandam R. Analysis of large-scale sequencing of small RNAs. Pac. Symp. Biocomput. 2008, 2008:126-136.
-
(2008)
Pac. Symp. Biocomput.
, vol.2008
, pp. 126-136
-
-
Olson, A.J.1
Brennecke, J.2
Aravin, A.A.3
Hannon, G.J.4
Sachidanandam, R.5
-
29
-
-
15844402005
-
Structural insights into mRNA recognition from a PIWI domain-siRNA guide complex
-
Parker J.S., Roe S.M., Barford D. Structural insights into mRNA recognition from a PIWI domain-siRNA guide complex. Nature 2005, 434:663-666.
-
(2005)
Nature
, vol.434
, pp. 663-666
-
-
Parker, J.S.1
Roe, S.M.2
Barford, D.3
-
30
-
-
0021592032
-
Invitro insertional mutagenesis with a selectable DNA fragment
-
Prentki P., Krisch H.M. Invitro insertional mutagenesis with a selectable DNA fragment. Gene 1984, 29:303-313.
-
(1984)
Gene
, vol.29
, pp. 303-313
-
-
Prentki, P.1
Krisch, H.M.2
-
31
-
-
84865151516
-
Association of Argonaute proteins and microRNAs can occur after cell lysis
-
Riley K.J., Yario T.A., Steitz J.A. Association of Argonaute proteins and microRNAs can occur after cell lysis. RNA 2012, 18:1581-1585.
-
(2012)
RNA
, vol.18
, pp. 1581-1585
-
-
Riley, K.J.1
Yario, T.A.2
Steitz, J.A.3
-
32
-
-
0028289983
-
Small mobilizable multi-purpose cloning vectors derived from the Escherichia coli plasmids pK18 and pK19: selection of defined deletions in the chromosome of Corynebacterium glutamicum
-
Schäfer A., Tauch A., Jäger W., Kalinowski J., Thierbach G., Pühler A. Small mobilizable multi-purpose cloning vectors derived from the Escherichia coli plasmids pK18 and pK19: selection of defined deletions in the chromosome of Corynebacterium glutamicum. Gene 1994, 145:69-73.
-
(1994)
Gene
, vol.145
, pp. 69-73
-
-
Schäfer, A.1
Tauch, A.2
Jäger, W.3
Kalinowski, J.4
Thierbach, G.5
Pühler, A.6
-
33
-
-
80455178787
-
Mechanism of the piRNA-mediated silencing of Drosophila telomeric retrotransposons
-
Shpiz S., Olovnikov I., Sergeeva A., Lavrov S., Abramov Y., Savitsky M., Kalmykova A. Mechanism of the piRNA-mediated silencing of Drosophila telomeric retrotransposons. Nucleic Acids Res. 2011, 39:8703-8711.
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 8703-8711
-
-
Shpiz, S.1
Olovnikov, I.2
Sergeeva, A.3
Lavrov, S.4
Abramov, Y.5
Savitsky, M.6
Kalmykova, A.7
-
34
-
-
84870060785
-
Transcriptional silencing of transposons by Piwi and maelstrom and its impact on chromatin state and gene expression
-
Sienski G., Dönertas D., Brennecke J. Transcriptional silencing of transposons by Piwi and maelstrom and its impact on chromatin state and gene expression. Cell 2012, 151:964-980.
-
(2012)
Cell
, vol.151
, pp. 964-980
-
-
Sienski, G.1
Dönertas, D.2
Brennecke, J.3
-
35
-
-
4444302947
-
Crystal structure of Argonaute and its implications for RISC slicer activity
-
Song J.J., Smith S.K., Hannon G.J., Joshua-Tor L. Crystal structure of Argonaute and its implications for RISC slicer activity. Science 2004, 305:1434-1437.
-
(2004)
Science
, vol.305
, pp. 1434-1437
-
-
Song, J.J.1
Smith, S.K.2
Hannon, G.J.3
Joshua-Tor, L.4
-
36
-
-
44349159416
-
Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes
-
Tam O.H., Aravin A.A., Stein P., Girard A., Murchison E.P., Cheloufi S., Hodges E., Anger M., Sachidanandam R., Schultz R.M., Hannon G.J. Pseudogene-derived small interfering RNAs regulate gene expression in mouse oocytes. Nature 2008, 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
Hannon, G.J.11
-
37
-
-
33746502166
-
A distinct small RNA pathway silences selfish genetic elements in the germline
-
Vagin V.V., Sigova A., Li C., Seitz H., Gvozdev V., Zamore P.D. A distinct small RNA pathway silences selfish genetic elements in the germline. Science 2006, 313:320-324.
-
(2006)
Science
, vol.313
, pp. 320-324
-
-
Vagin, V.V.1
Sigova, A.2
Li, C.3
Seitz, H.4
Gvozdev, V.5
Zamore, P.D.6
-
38
-
-
0942279635
-
RNAi-mediated targeting of heterochromatin by the RITS complex
-
Verdel A., Jia S., Gerber S., Sugiyama T., Gygi S., Grewal S.I., Moazed D. RNAi-mediated targeting of heterochromatin by the RITS complex. Science 2004, 303:672-676.
-
(2004)
Science
, vol.303
, pp. 672-676
-
-
Verdel, A.1
Jia, S.2
Gerber, S.3
Sugiyama, T.4
Gygi, S.5
Grewal, S.I.6
Moazed, D.7
-
39
-
-
57749206034
-
Structure of an argonaute silencing complex with a seed-containing guide DNA and target RNA duplex
-
Wang Y., Juranek S., Li H., Sheng G., Tuschl T., Patel D.J. Structure of an argonaute silencing complex with a seed-containing guide DNA and target RNA duplex. Nature 2008, 456:921-926.
-
(2008)
Nature
, vol.456
, pp. 921-926
-
-
Wang, Y.1
Juranek, S.2
Li, H.3
Sheng, G.4
Tuschl, T.5
Patel, D.J.6
-
40
-
-
56249145105
-
Structure of the guide-strand-containing argonaute silencing complex
-
Wang Y., Sheng G., Juranek S., Tuschl T., Patel D.J. Structure of the guide-strand-containing argonaute silencing complex. Nature 2008, 456:209-213.
-
(2008)
Nature
, vol.456
, pp. 209-213
-
-
Wang, Y.1
Sheng, G.2
Juranek, S.3
Tuschl, T.4
Patel, D.J.5
-
41
-
-
23144438396
-
Crystal structure of A.aeolicus argonaute, a site-specific DNA-guided endoribonuclease, provides insights into RISC-mediated mRNA cleavage
-
Yuan Y.R., Pei Y., Ma J.B., Kuryavyi V., Zhadina M., Meister G., Chen H.Y., Dauter Z., Tuschl T., Patel D.J. Crystal structure of A.aeolicus argonaute, a site-specific DNA-guided endoribonuclease, provides insights into RISC-mediated mRNA cleavage. Mol. Cell 2005, 19:405-419.
-
(2005)
Mol. Cell
, vol.19
, pp. 405-419
-
-
Yuan, Y.R.1
Pei, Y.2
Ma, J.B.3
Kuryavyi, V.4
Zhadina, M.5
Meister, G.6
Chen, H.Y.7
Dauter, Z.8
Tuschl, T.9
Patel, D.J.10
|