-
1
-
-
58449134534
-
Small silencing RNAs: An expanding universe
-
Ghildiyal, M. & Zamore, P.D. Small silencing RNAs: an expanding universe. Nat. Rev. Genet. 10, 94-108 (2009).
-
(2009)
Nat. Rev. Genet.
, vol.10
, pp. 94-108
-
-
Ghildiyal, M.1
Zamore, P.D.2
-
2
-
-
60149098474
-
Small RNAs as guardians of the genome
-
Malone, C.D. & Hannon, G. Small RNAs as guardians of the genome. Cell 136, 656-668 (2009).
-
(2009)
Cell
, vol.136
, pp. 656-668
-
-
Malone, C.D.1
Hannon, G.2
-
3
-
-
60549115605
-
Post-transcriptional processing generates a diversity of 5′-modified long and short RNAs
-
ENCODE Transcriptome Project
-
ENCODE Transcriptome Project. Post-transcriptional processing generates a diversity of 5′-modified long and short RNAs. Nature 457, 1028-1032 (2009).
-
(2009)
Nature
, vol.457
, pp. 1028-1032
-
-
-
4
-
-
57849140661
-
Divergent transcription from active promoters
-
Seila, A.C. et al. Divergent transcription from active promoters. Science 322, 1849-1851 (2008).
-
(2008)
Science
, vol.322
, pp. 1849-1851
-
-
Seila, A.C.1
-
5
-
-
67349157682
-
Tiny RNAs associated with transcription start sites in animals
-
Taft, R.J. et al. Tiny RNAs associated with transcription start sites in animals. Nat. Genet. 41, 572-578 (2009).
-
(2009)
Nat. Genet.
, vol.41
, pp. 572-578
-
-
Taft, R.J.1
-
6
-
-
68449095847
-
Evolution, biogenesis and function of promoter-associated RNAs
-
Taft, R.J., Kaplan, C.D., Simons, C. & Mattick, J.S. Evolution, biogenesis and function of promoter-associated RNAs. Cell Cycle 8, 2332-2338 (2009).
-
(2009)
Cell Cycle
, vol.8
, pp. 2332-2338
-
-
Taft, R.J.1
Kaplan, C.D.2
Simons, C.3
Mattick, J.S.4
-
7
-
-
34249026300
-
High-resolution profiling of histone methylations in the human genome
-
Barski, A. et al. High-resolution profiling of histone methylations in the human genome. Cell 129, 823-837 (2007).
-
(2007)
Cell
, vol.129
, pp. 823-837
-
-
Barski, A.1
-
8
-
-
46249112085
-
Combinatorial patterns of histone acetylations and methylations in the human genome
-
Wang, Z. et al. Combinatorial patterns of histone acetylations and methylations in the human genome. Nat. Genet. 40, 897-903 (2008).
-
(2008)
Nat. Genet.
, vol.40
, pp. 897-903
-
-
Wang, Z.1
-
9
-
-
54349104464
-
Mouse ES cells express endogenous shRNAs, siRNAs, and other Microprocessor-independent, Dicer-dependent small RNAs
-
Babiarz, J.E., Ruby, J.G., Wang, Y., Bartel, D.P. & Blelloch, R. Mouse ES cells express endogenous shRNAs, siRNAs, and other Microprocessor- independent, Dicer-dependent small RNAs. Genes Dev. 22, 2773-2785 (2008).
-
(2008)
Genes Dev.
, vol.22
, pp. 2773-2785
-
-
Babiarz, J.E.1
Ruby, J.G.2
Wang, Y.3
Bartel, D.P.4
Blelloch, R.5
-
10
-
-
44349174824
-
Endogenous RNA interference provides a somatic defense against Drosophila transposons
-
Chung, W.J., Okamura, K., Martin, R. & Lai, E.C. Endogenous RNA interference provides a somatic defense against Drosophila transposons. Curr. Biol. 18, 795-802 (2008).
-
(2008)
Curr. Biol.
, vol.18
, pp. 795-802
-
-
Chung, W.J.1
Okamura, K.2
Martin, R.3
Lai, E.C.4
-
11
-
-
46149114866
-
PRG-1 and 21U-RNAs interact to form the piRNA complex required for fertility in C. elegans
-
Batista, P.J. et al. PRG-1 and 21U-RNAs interact to form the piRNA complex required for fertility in C. elegans. Mol. Cell 31, 67-78 (2008).
-
(2008)
Mol. Cell
, vol.31
, pp. 67-78
-
-
Batista, P.J.1
-
12
-
-
55249115975
-
Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals
-
Grimson, A. et al. Early origins and evolution of microRNAs and Piwi-interacting RNAs in animals. Nature 455, 1193-1197 (2008).
-
(2008)
Nature
, vol.455
, pp. 1193-1197
-
-
Grimson, A.1
-
13
-
-
57849109058
-
Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters
-
Core, L.J., Waterfall, J.J. & Lis, J.T. Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters. Science 322, 1845-1848 (2008).
-
(2008)
Science
, vol.322
, pp. 1845-1848
-
-
Core, L.J.1
Waterfall, J.J.2
Lis, J.T.3
-
14
-
-
70349333201
-
Nucleosomes are well positioned in exons and carry characteristic histone modifications
-
Andersson, R., Enroth, S., Rada-Iglesias, A., Wadelius, C. & Komorowski, J. Nucleosomes are well positioned in exons and carry characteristic histone modifications. Genome Res. 19, 1732-1741 (2009).
-
(2009)
Genome Res.
, vol.19
, pp. 1732-1741
-
-
Andersson, R.1
Enroth, S.2
Rada-Iglesias, A.3
Wadelius, C.4
Komorowski, J.5
-
15
-
-
70350235050
-
Nucleosomes are preferentially positioned at exons in somatic and sperm cells
-
Nahkuri, S., Taft, R.J. & Mattick, J.S. Nucleosomes are preferentially positioned at exons in somatic and sperm cells. Cell Cycle 8, 3420-3424 (2009).
-
(2009)
Cell Cycle
, vol.8
, pp. 3420-3424
-
-
Nahkuri, S.1
Taft, R.J.2
Mattick, J.S.3
-
16
-
-
69949132191
-
Chromatin organization marks exon-intron structure
-
Schwartz, S., Meshorer, E. & Ast, G. Chromatin organization marks exon-intron structure. Nat. Struct. Mol. Biol. 16, 990-995 (2009).
-
(2009)
Nat. Struct. Mol. Biol.
, vol.16
, pp. 990-995
-
-
Schwartz, S.1
Meshorer, E.2
Ast, G.3
-
17
-
-
69949124307
-
Nucleosome positioning as a determinant of exon recognition
-
Tilgner, H. et al. Nucleosome positioning as a determinant of exon recognition. Nat. Struct. Mol. Biol. 16, 996-1001 (2009).
-
(2009)
Nat. Struct. Mol. Biol.
, vol.16
, pp. 996-1001
-
-
Tilgner, H.1
-
18
-
-
61349098460
-
Differential chromatin marking of introns and expressed exons by H3K36me3
-
Kolasinska-Zwierz, P. et al. Differential chromatin marking of introns and expressed exons by H3K36me3. Nat. Genet. 41, 376-381 (2009).
-
(2009)
Nat. Genet.
, vol.41
, pp. 376-381
-
-
Kolasinska-Zwierz, P.1
-
19
-
-
59649103076
-
A distinct class of small RNAs arises from pre-miRNA-proximal regions in a simple chordate
-
Shi, W., Hendrix, D., Levine, M. & Haley, B. A distinct class of small RNAs arises from pre-miRNA-proximal regions in a simple chordate. Nat. Struct. Mol. Biol. 16, 183-189 (2009).
-
(2009)
Nat. Struct. Mol. Biol.
, vol.16
, pp. 183-189
-
-
Shi, W.1
Hendrix, D.2
Levine, M.3
Haley, B.4
-
20
-
-
69849100181
-
Evidence for human microRNA-offset RNAs in small RNA sequencing data
-
Langenberger, D. et al. Evidence for human microRNA-offset RNAs in small RNA sequencing data. Bioinformatics 25, 2298-2301 (2009).
-
(2009)
Bioinformatics
, vol.25
, pp. 2298-2301
-
-
Langenberger, D.1
-
21
-
-
74249084440
-
MiR-15a and miR-16-1 in cancer: Discovery function and future perspectives
-
Aqeilan, R.I., Calin, G.A. & Croce, C.M. miR-15a and miR-16-1 in cancer: discovery, function and future perspectives. Cell Death Differ. 17, 215-220 (2010).
-
(2010)
Cell Death Differ.
, vol.17
, pp. 215-220
-
-
Aqeilan, R.I.1
Calin, G.A.2
Croce, C.M.3
-
22
-
-
67649386471
-
Small RNAs derived from snoRNAs
-
Taft, R.J. et al. Small RNAs derived from snoRNAs. RNA 15, 1233-1240 (2009).
-
(2009)
RNA
, vol.15
, pp. 1233-1240
-
-
Taft, R.J.1
-
23
-
-
55949112523
-
A human snoRNA with microRNA-like functions
-
Ender, C. et al. A human snoRNA with microRNA-like functions. Mol. Cell 32, 519-528 (2008).
-
(2008)
Mol. Cell
, vol.32
, pp. 519-528
-
-
Ender, C.1
-
24
-
-
57149094023
-
SnoRNA a novel precursor of microRNA in Giardia lamblia
-
Saraiya, A.A. & Wang, C.C. snoRNA, a novel precursor of microRNA in Giardia lamblia. PLoS Pathog. 4, e1000224 (2008).
-
(2008)
PLoS Pathog.
, vol.4
-
-
Saraiya, A.A.1
Wang, C.C.2
-
25
-
-
70349661909
-
Human miRNA precursors with box H/ACA snoRNA features
-
Scott, M.S., Avolio, F., Ono, M., Lamond, A.I. & Barton, G.J. Human miRNA precursors with box H/ACA snoRNA features. PLOS Comput. Biol. 5, e1000507 (2009).
-
(2009)
PLOS Comput. Biol.
, vol.5
-
-
Scott, M.S.1
Avolio, F.2
Ono, M.3
Lamond, A.I.4
Barton, G.J.5
-
26
-
-
70350510820
-
RNAi in budding yeast
-
Drinnenberg, I.A. et al. RNAi in budding yeast. Science 326, 544-550 (2009).
-
(2009)
Science
, vol.326
, pp. 544-550
-
-
Drinnenberg, I.A.1
-
27
-
-
65149083962
-
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line
-
Suzuki, H. et al. The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nat. Genet. 41, 553-562 (2009).
-
(2009)
Nat. Genet.
, vol.41
, pp. 553-562
-
-
Suzuki, H.1
-
28
-
-
33846699083
-
A hexanucleotide element directs microRNA nuclear import
-
Hwang, H.W., Wentzel, E.A. & Mendell, J.T. A hexanucleotide element directs microRNA nuclear import. Science 315, 97-100 (2007).
-
(2007)
Science
, vol.315
, pp. 97-100
-
-
Hwang, H.W.1
Wentzel, E.A.2
Mendell, J.T.3
-
29
-
-
34250642773
-
Generation of T-cell receptor retrogenic mice
-
Holst, J. et al. Generation of T-cell receptor retrogenic mice. Nat. Protoc. 1, 406-417 (2006).
-
(2006)
Nat. Protoc.
, vol.1
, pp. 406-417
-
-
Holst, J.1
-
30
-
-
76249123883
-
Identification of a myeloid committed progenitor as the cancer-initiating cell in acute promyelocytic leukemia
-
Guibal, F.C. et al. Identification of a myeloid committed progenitor as the cancer-initiating cell in acute promyelocytic leukemia. Blood 114, 5415-5425 (2009).
-
(2009)
Blood
, vol.114
, pp. 5415-5425
-
-
Guibal, F.C.1
-
31
-
-
58149178565
-
The UCSC Genome Browser database: Update 2009
-
Kuhn, R.M. et al. The UCSC Genome Browser database: update 2009. Nucleic Acids Res. 37, D755-D761 (2009).
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Kuhn, R.M.1
-
32
-
-
25844471721
-
The Yeast Gene Order Browser: Combining curated homology and syntenic context reveals gene fate in polyploid species
-
Byrne, K.P. & Wolfe, K.H. The Yeast Gene Order Browser: combining curated homology and syntenic context reveals gene fate in polyploid species. Genome Res. 15, 1456-1461 (2005).
-
(2005)
Genome Res.
, vol.15
, pp. 1456-1461
-
-
Byrne, K.P.1
Wolfe, K.H.2
-
33
-
-
40549146278
-
The TAIR database
-
Poole, R.L. The TAIR database. Methods Mol. Biol. 406, 179-212 (2007).
-
(2007)
Methods Mol. Biol.
, vol.406
, pp. 179-212
-
-
Poole, R.L.1
-
34
-
-
46449112319
-
A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome
-
Mavrich, T.N. et al. A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome. Genome Res. 18, 1073-1083 (2008).
-
(2008)
Genome Res.
, vol.18
, pp. 1073-1083
-
-
Mavrich, T.N.1
-
35
-
-
54949110994
-
ZOOM! Zillions of oligos mapped
-
Lin, H., Zhang, Z., Zhang, M., Ma, B. & Li, M. ZOOM! Zillions of oligos mapped. Bioinformatics 24, 2431-2437 (2008).
-
(2008)
Bioinformatics
, vol.24
, pp. 2431-2437
-
-
Lin, H.1
Zhang, Z.2
Zhang, M.3
Ma, B.4
Li, M.5
-
36
-
-
36248989105
-
ChIP-Seq data reveal nucleosome architecture of human promoters
-
author reply 832-833
-
Schmid, C.D. & Bucher, P. ChIP-Seq data reveal nucleosome architecture of human promoters. Cell 131, 831-832 author reply 832-833 (2007).
-
(2007)
Cell
, vol.131
, pp. 831-832
-
-
Schmid, C.D.1
Bucher, P.2
-
37
-
-
0037183901
-
Gene expression during the life cycle of Drosophila melanogaster
-
Arbeitman, M.N. et al. Gene expression during the life cycle of Drosophila melanogaster. Science 297, 2270-2275 (2002).
-
(2002)
Science
, vol.297
, pp. 2270-2275
-
-
Arbeitman, M.N.1
-
38
-
-
38549150275
-
MiRBase: Tools for microRNA genomics
-
Griffiths-Jones, S., Saini, H.K., van Dongen, S. & Enright, A.J. miRBase: tools for microRNA genomics. Nucleic Acids Res. 36, D154-D158 (2008).
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Griffiths-Jones, S.1
Saini, H.K.2
Van Dongen, S.3
Enright, A.J.4
-
39
-
-
34250374820
-
Carbodiimide-mediated cross-linking of RNA to nylon membranes improves the detection of siRNA, miRNA and piRNA by northern blot
-
Pall, G.S., Codony-Servat, C., Byrne, J., Ritchie, L. & Hamilton, A. Carbodiimide-mediated cross-linking of RNA to nylon membranes improves the detection of siRNA, miRNA and piRNA by northern blot. Nucleic Acids Res. 35, e60 (2007)
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Pall, G.S.1
Codony-Servat, C.2
Byrne, J.3
Ritchie, L.4
Hamilton, A.5
|