-
2
-
-
34250305146
-
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
-
Birney, E., Stamatoyannopoulos, J.A., Dutta, A., Guigó, R., Gingeras, T.R., Margulies, E.H., Weng, Z., Snyder, M., Dermitzakis, E.T., Thurman, R.E. et al. (2007) Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature, 447, 799-816.
-
(2007)
Nature
, vol.447
, pp. 799-816
-
-
Birney, E.1
Stamatoyannopoulos, J.A.2
Dutta, A.3
Guigó, R.4
Gingeras, T.R.5
Margulies, E.H.6
Weng, Z.7
Snyder, M.8
Dermitzakis, E.T.9
Thurman, R.E.10
-
3
-
-
72449129174
-
A global view of genomic information-moving beyond the gene and the master regulator
-
Mattick, J.S., Taft, R.J. and Faulkner, G.J. (2009) A global view of genomic information-moving beyond the gene and the master regulator. Trends Genet., 26, 21-28.
-
(2009)
Trends Genet.
, vol.26
, pp. 21-28
-
-
Mattick, J.S.1
Taft, R.J.2
Faulkner, G.J.3
-
4
-
-
77952905505
-
Most 'dark matter' transcripts are associated with known genes
-
van Bakel, H., Nislow, C., Blencowe, B.J. and Hughes, T.R. (2010) Most 'dark matter' transcripts are associated with known genes. PLoS Biol., 8, e1000371.
-
(2010)
PLoS Biol
, vol.8
-
-
Van Bakel, H.1
Nislow, C.2
Blencowe, B.J.3
Hughes, T.R.4
-
5
-
-
33646883455
-
The principles of guiding by RNA: Chimeric RNA-protein enzymes
-
Hüttenhofer, A. and Schattner, P. (2006) The principles of guiding by RNA: chimeric RNA-protein enzymes. Nat. Rev. Genet., 7, 475-482.
-
(2006)
Nat. Rev. Genet.
, vol.7
, pp. 475-482
-
-
Hüttenhofer, A.1
Schattner, P.2
-
6
-
-
39149139307
-
Small RNAs: Keeping stem cells in line
-
Stadler, B.M. and Ruohola-Baker, H. (2008) Small RNAs: keeping stem cells in line. Cell, 132, 563-566.
-
(2008)
Cell
, vol.132
, pp. 563-566
-
-
Stadler, B.M.1
Ruohola-Baker, H.2
-
7
-
-
77955049511
-
Emerging roles of micrornas in the control of embryonic stem cells and the generation of induced pluripotent stem cells
-
Mallanna, S.K. and Rizzino, A. (2010) Emerging roles of microRNAs in the control of embryonic stem cells and the generation of induced pluripotent stem cells. Dev. Biol., 344, 16-25.
-
(2010)
Dev. Biol.
, vol.344
, pp. 16-25
-
-
Mallanna, S.K.1
Rizzino, A.2
-
8
-
-
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. and Blelloch, R. (2008) Mouse ES cells express endogenous shRNAs, siRNAs, and other Microprocessor-independent, Dicer-dependent small RNAs. Genes Dev., 22, 2773-2785.
-
(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
-
9
-
-
4644309196
-
The functions of animal micrornas
-
Ambros, V. (2004) The functions of animal microRNAs. Nature, 431, 350-355.
-
(2004)
Nature
, vol.431
, pp. 350-355
-
-
Ambros, V.1
-
10
-
-
33644756685
-
Micro RNAs in animal development
-
Plasterk, R.H. (2006) Micro RNAs in animal development. Cell, 124, 877-881.
-
(2006)
Cell
, vol.124
, pp. 877-881
-
-
Plasterk, R.H.1
-
11
-
-
0042442335
-
Embryonic stem cell-specific micrornas
-
Houbaviy, H.B., Murray, M.F. and Sharp, P.A. (2003) Embryonic stem cell-specific microRNAs. Dev. Cell, 5, 351-358.
-
(2003)
Dev. Cell
, vol.5
, pp. 351-358
-
-
Houbaviy, H.B.1
Murray, M.F.2
Sharp, P.A.3
-
12
-
-
40949130398
-
MicroRNAs control de novo DNA methylation through regulation of transcriptional repressors in mouse embryonic stem cells
-
Sinkkonen, L., Hugenschmidt, T., Berninger, P., Gaidatzis, D., Mohn, F., Artus-Revel, C.G., Zavolan, M., Svoboda, P. and Filipowicz, W. (2008) MicroRNAs control de novo DNA methylation through regulation of transcriptional repressors in mouse embryonic stem cells. Nat. Struct. Mol. Biol., 15, 259-267.
-
(2008)
Nat. Struct. Mol. Biol.
, vol.15
, pp. 259-267
-
-
Sinkkonen, L.1
Hugenschmidt, T.2
Berninger, P.3
Gaidatzis, D.4
Mohn, F.5
Artus-Revel, C.G.6
Zavolan, M.7
Svoboda, P.8
Filipowicz, W.9
-
13
-
-
51349116001
-
A mammalian microRNA cluster controls DNA methylation and telomere recombination via Rbl2-dependent regulation of DNA methyltransferases
-
Benetti, R., Gonzalo, S., Jaco, I., Munoz, P., Gonzalez, S., Schoeftner, S., Murchison, E., Andl, T., Chen, T., Klatt, P. et al. (2008) A mammalian microRNA cluster controls DNA methylation and telomere recombination via Rbl2-dependent regulation of DNA methyltransferases. Nat. Struct. Mol. Biol., 15, 998.
-
(2008)
Nat. Struct. Mol. Biol.
, vol.15
, pp. 998
-
-
Benetti, R.1
Gonzalo, S.2
Jaco, I.3
Munoz, P.4
Gonzalez, S.5
Schoeftner, S.6
Murchison, E.7
Andl, T.8
Chen, T.9
Klatt, P.10
-
14
-
-
67349149082
-
Microrna-145 regulates OCT4, SOX2, and KLF4 and represses pluripotency in human embryonic stem cells
-
Xu, N., Papagiannakopoulos, T., Pan, G., Thomson, J.A. and Kosik, K.S. (2009) MicroRNA-145 regulates OCT4, SOX2, and KLF4 and represses pluripotency in human embryonic stem cells. Cell, 137, 647-658.
-
(2009)
Cell
, vol.137
, pp. 647-658
-
-
Xu, N.1
Papagiannakopoulos, T.2
Pan, G.3
Thomson, J.A.4
Kosik, K.S.5
-
15
-
-
48649103982
-
A feedback loop comprising lin-28 and let-7 controls pre-let-7 maturation during neural stem-cell commitment
-
Rybak, A., Fuchs, H., Smirnova, L., Brandt, C., Pohl, E.E., Nitsch, R. and Wulczyn, F.G. (2008) A feedback loop comprising lin-28 and let-7 controls pre-let-7 maturation during neural stem-cell commitment. Nat. Cell. Biol., 10, 987-993.
-
(2008)
Nat. Cell. Biol.
, vol.10
, pp. 987-993
-
-
Rybak, A.1
Fuchs, H.2
Smirnova, L.3
Brandt, C.4
Pohl, E.E.5
Nitsch, R.6
Wulczyn, F.G.7
-
16
-
-
37549028759
-
Microrna expression pattern of undifferentiated and differentiated human embryonic stem cells
-
Lakshmipathy, U., Love, B., Goff, L.A., Jörnsten, R., Graichen, R., Hart, R.P. and Chesnut, J.D. (2007) MicroRNA expression pattern of undifferentiated and differentiated human embryonic stem cells. Stem Cells Dev., 16, 1003-1016.
-
(2007)
Stem Cells Dev.
, vol.16
, pp. 1003-1016
-
-
Lakshmipathy, U.1
Love, B.2
Goff, L.A.3
Jörnsten, R.4
Graichen, R.5
Hart, R.P.6
Chesnut, J.D.7
-
17
-
-
34547116839
-
Defining embryonic stem cell identity using differentiation-related micrornas and their potential targets
-
Chen, C., Ridzon, D., Lee, C.T., Blake, J., Sun, Y. and Strauss, W.M. (2007) Defining embryonic stem cell identity using differentiation-related microRNAs and their potential targets. Mamm. Genome, 18, 316-327.
-
(2007)
Mamm. Genome
, vol.18
, pp. 316-327
-
-
Chen, C.1
Ridzon, D.2
Lee, C.T.3
Blake, J.4
Sun, Y.5
Strauss, W.M.6
-
18
-
-
13844294261
-
Dicer-deficient mouse embryonic stem cells are defective in differentiation and centromeric silencing
-
Kanellopoulou, C., Muljo, S.A., Kung, A.L., Ganesan, S., Drapkin, R., Jenuwein, T., Livingston, D.M. and Rajewsky, K. (2005) Dicer-deficient mouse embryonic stem cells are defective in differentiation and centromeric silencing. Genes Dev., 19, 489-501.
-
(2005)
Genes Dev.
, vol.19
, pp. 489-501
-
-
Kanellopoulou, C.1
Muljo, S.A.2
Kung, A.L.3
Ganesan, S.4
Drapkin, R.5
Jenuwein, T.6
Livingston, D.M.7
Rajewsky, K.8
-
19
-
-
24744441906
-
Characterization of dicer-deficient murine embryonic stem cells
-
Murchison, E.P., Partridge, J.F., Tam, O.H., Cheloufi, S. and Hannon, G.J. (2005) Characterization of Dicer-deficient murine embryonic stem cells. Proc. Natl Acad. Sci. USA, 102, 12135-12140.
-
(2005)
Proc. Natl Acad. Sci. USA
, vol.102
, pp. 12135-12140
-
-
Murchison, E.P.1
Partridge, J.F.2
Tam, O.H.3
Cheloufi, S.4
Hannon, G.J.5
-
20
-
-
33847323881
-
Dgcr8 is essential for microrna biogenesis and silencing of embryonic stem cell self-renewal
-
Wang, Y., Medvid, R., Melton, C., Jaenisch, R. and Blelloch, R. (2007) DGCR8 is essential for microRNA biogenesis and silencing of embryonic stem cell self-renewal. Nat. Genet., 39, 380-385.
-
(2007)
Nat. Genet.
, vol.39
, pp. 380-385
-
-
Wang, Y.1
Medvid, R.2
Melton, C.3
Jaenisch, R.4
Blelloch, R.5
-
21
-
-
77954117695
-
Rnpomics: Defining the ncrna transcriptome by cdna library generation from ribonucleo-protein particles
-
Rederstorff, M., Bernhart, S.H., Tanzer, A., Zywicki, M., Perfler, K., Lukasser, M., Hofacker, I.L. and Huttenhofer, A. (2010) RNPomics: defining the ncRNA transcriptome by cDNA library generation from ribonucleo-protein particles. Nucleic Acids Res., 38, e113.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Rederstorff, M.1
Bernhart, S.H.2
Tanzer, A.3
Zywicki, M.4
Perfler, K.5
Lukasser, M.6
Hofacker, I.L.7
Huttenhofer, A.8
-
22
-
-
79551677003
-
Cdna library generation from ribonucleoprotein particles
-
Rederstorff, M. and Huttenhofer, A. (2011) cDNA library generation from ribonucleoprotein particles. Nat. Protoc., 6, 166-174.
-
(2011)
Nat. Protoc.
, vol.6
, pp. 166-174
-
-
Rederstorff, M.1
Huttenhofer, A.2
-
23
-
-
0023630807
-
Targetted correction of a mutant HPRT gene in mouse embryonic stem cells
-
Doetschman, T., Gregg, R.G., Maeda, N., Hooper, M.L., Melton, D.W., Thompson, S. and Smithies, O. (1987) Targetted correction of a mutant HPRT gene in mouse embryonic stem cells. Nature, 330, 576-578.
-
(1987)
Nature
, vol.330
, pp. 576-578
-
-
Doetschman, T.1
Gregg, R.G.2
Maeda, N.3
Hooper, M.L.4
Melton, D.W.5
Thompson, S.6
Smithies, O.7
-
24
-
-
20044383210
-
Establishment of a new embryonic stem cell line derived from c57bl/6 mouse expressing EGFP ubiquitously
-
Shimizukawa, R., Sakata, A., Hirose, M., Takahashi, A., Iseki, H., Liu, Y., Kunita, S., Sugiyama, F. and Yagami, K. (2005) Establishment of a new embryonic stem cell line derived from C57BL/6 mouse expressing EGFP ubiquitously. Genesis, 42, 47-52.
-
(2005)
Genesis
, vol.42
, pp. 47-52
-
-
Shimizukawa, R.1
Sakata, A.2
Hirose, M.3
Takahashi, A.4
Iseki, H.5
Liu, Y.6
Kunita, S.7
Sugiyama, F.8
Yagami, K.9
-
25
-
-
0034044317
-
Efficient generation of midbrain and hindbrain neurons from mouse embryonic stem cells
-
Lee, S.H., Lumelsky, N., Studer, L., Auerbach, J.M. and McKay, R.D. (2000) Efficient generation of midbrain and hindbrain neurons from mouse embryonic stem cells. Nat. Biotechnol., 18, 675-679.
-
(2000)
Nat. Biotechnol.
, vol.18
, pp. 675-679
-
-
Lee, S.H.1
Lumelsky, N.2
Studer, L.3
Auerbach, J.M.4
McKay, R.D.5
-
26
-
-
0037313844
-
Conversion of embryonic stem cells into neuroectodermal precursors in adherent monoculture
-
Ying, Q.L., Stavridis, M., Griffiths, D., Li, M. and Smith, A. (2003) Conversion of embryonic stem cells into neuroectodermal precursors in adherent monoculture. Nat. Biotechnol., 21, 183-186.
-
(2003)
Nat. Biotechnol.
, vol.21
, pp. 183-186
-
-
Ying, Q.L.1
Stavridis, M.2
Griffiths, D.3
Li, M.4
Smith, A.5
-
27
-
-
84860186059
-
Pharmacological modulation of the hedgehog pathway differentially affects dorsal/ventral patterning in mouse and human embryonic stem cell models of telencephalic development
-
Epub ahead of print
-
Nat, R., Salti, A., Suciu, L., Ström, S. and Dechant, G. (2012) Pharmacological modulation of the hedgehog pathway differentially affects dorsal/ventral patterning in mouse and human embryonic stem cell models of telencephalic development. Stem Cells Dev Epub ahead of print.
-
(2012)
Stem Cells Dev
-
-
Nat, R.1
Salti, A.2
Suciu, L.3
Ström, S.4
Dechant, G.5
-
28
-
-
84861399262
-
Revealing stable processing products from ribosome-associated small RNAs by deep-sequencing data analysis
-
Zywicki, M., Bakowska-Zywicka, K. and Polacek, N. (2012) Revealing stable processing products from ribosome-associated small RNAs by deep-sequencing data analysis. Nucleic Acids Res., 40, 4013-4024.
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 4013-4024
-
-
Zywicki, M.1
Bakowska-Zywicka, K.2
Polacek, N.3
-
29
-
-
77951770756
-
Bedtools: A flexible suite of utilities for comparing genomic features
-
Quinlan, A.R. and Hall, I.M. (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
-
30
-
-
75249087100
-
Edger: A bioconductor package for differential expression analysis of digital gene expression data
-
Robinson, M.D., McCarthy, D.J. and Smyth, G.K. (2010) edgeR: a Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics, 26, 139-140.
-
(2010)
Bioinformatics
, vol.26
, pp. 139-140
-
-
Robinson, M.D.1
McCarthy, D.J.2
Smyth, G.K.3
-
31
-
-
28744458859
-
Bioconductor: Open software development for computational biology and bioinformatics
-
Gentleman, R.C., Carey, V.J., Bates, D.M., Bolstad, B., Dettling, M., Dudoit, S., Ellis, B., Gautier, L., Ge, Y., Gentry, J. et al. (2004) Bioconductor: open software development for computational biology and bioinformatics. Genome Biol., 5, R80.
-
(2004)
Genome Biol.
, vol.5
-
-
Gentleman, R.C.1
Carey, V.J.2
Bates, D.M.3
Bolstad, B.4
Dettling, M.5
Dudoit, S.6
Ellis, B.7
Gautier, L.8
Ge, Y.9
Gentry, J.10
-
32
-
-
41849084855
-
Discovering micrornas from deep sequencing data using mirdeep
-
Friedländer, M.R., Chen, W., Adamidi, C., Maaskola, J., Einspanier, R., Knespel, S. and Rajewsky, N. (2008) Discovering microRNAs from deep sequencing data using miRDeep. Nat. Biotechnol., 26, 407-415.
-
(2008)
Nat. Biotechnol.
, vol.26
, pp. 407-415
-
-
Friedländer, M.R.1
Chen, W.2
Adamidi, C.3
Maaskola, J.4
Einspanier, R.5
Knespel, S.6
Rajewsky, N.7
-
33
-
-
84855293838
-
Mirdeep2 accurately identifies known and hundreds of novel microrna genes in seven animal clades
-
Friedländer, M.R., Mackowiak, S.D., Li, N., Chen, W. and Rajewsky, N. (2011) miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades. Nucleic Acids Res., 40, 37-52.
-
(2011)
Nucleic Acids Res.
, vol.40
, pp. 37-52
-
-
Friedländer, M.R.1
Mackowiak, S.D.2
Li, N.3
Chen, W.4
Rajewsky, N.5
-
34
-
-
67649837030
-
Rtracklayer: An R package for interfacing with genome browsers
-
Lawrence, M., Gentleman, R. and Carey, V. (2009) rtracklayer: an R package for interfacing with genome browsers. Bioinformatics, 25, 1841-1842.
-
(2009)
Bioinformatics
, vol.25
, pp. 1841-1842
-
-
Lawrence, M.1
Gentleman, R.2
Carey, V.3
-
35
-
-
36749013633
-
RNA sequence analysis defines dicer's role in mouse embryonic stem cells
-
Calabrese, J.M., Seila, A.C., Yeo, G.W. and Sharp, P.A. (2007) RNA sequence analysis defines Dicer's role in mouse embryonic stem cells. Proc. Natl Acad. Sci. USA, 104, 18097-18102.
-
(2007)
Proc. Natl Acad. Sci. USA
, vol.104
, pp. 18097-18102
-
-
Calabrese, J.M.1
Seila, A.C.2
Yeo, G.W.3
Sharp, P.A.4
-
36
-
-
79955936694
-
Messenger RNA and microRNA profiling during early mouse EB formation
-
Tripathi, R., Saini, H.K., Rad, R., Abreu-Goodger, C., van Dongen, S. and Enright, A.J. (2011) Messenger RNA and microRNA profiling during early mouse EB formation. Gene Expr. Patterns, 11, 334-344.
-
(2011)
Gene Expr. Patterns
, vol.11
, pp. 334-344
-
-
Tripathi, R.1
Saini, H.K.2
Rad, R.3
Abreu-Goodger, C.4
Van Dongen, S.5
Enright, A.J.6
-
37
-
-
56749176517
-
Microrna expression patterns and function in endodermal differentiation of human embryonic stem cells
-
Tzur, G., Levy, A., Meiri, E., Barad, O., Spector, Y., Bentwich, Z., Mizrahi, L., Katzenellenbogen, M., Ben-Shushan, E., Reubinoff, B.E. et al. (2008) MicroRNA expression patterns and function in endodermal differentiation of human embryonic stem cells. PLoS One, 3, e3726.
-
(2008)
PLoS One
, vol.3
-
-
Tzur, G.1
Levy, A.2
Meiri, E.3
Barad, O.4
Spector, Y.5
Bentwich, Z.6
Mizrahi, L.7
Katzenellenbogen, M.8
Ben-Shushan, E.9
Reubinoff, B.E.10
-
38
-
-
48449091318
-
Comprehensive microrna profiling reveals a unique human embryonic stem cell signature dominated by a single seed sequence
-
Laurent, L.C., Chen, J., Ulitsky, I., Mueller, F.J., Lu, C., Shamir, R., Fan, J.B. and Loring, J.F. (2008) Comprehensive microRNA profiling reveals a unique human embryonic stem cell signature dominated by a single seed sequence. Stem Cells, 26, 1506-1516.
-
(2008)
Stem Cells
, vol.26
, pp. 1506-1516
-
-
Laurent, L.C.1
Chen, J.2
Ulitsky, I.3
Mueller, F.J.4
Lu, C.5
Shamir, R.6
Fan, J.B.7
Loring, J.F.8
-
39
-
-
55049135859
-
Microrna discovery and profiling in human embryonic stem cells by deep sequencing of small RNA libraries
-
Bar, M., Wyman, S.K., Fritz, B.R., Qi, J., Garg, K.S., Parkin, R.K., Kroh, E.M., Bendoraite, A., Mitchell, P.S., Nelson, A.M. et al. (2008) MicroRNA discovery and profiling in human embryonic stem cells by deep sequencing of small RNA libraries. Stem Cells, 26, 2496-2505.
-
(2008)
Stem Cells
, vol.26
, pp. 2496-2505
-
-
Bar, M.1
Wyman, S.K.2
Fritz, B.R.3
Qi, J.4
Garg, K.S.5
Parkin, R.K.6
Kroh, E.M.7
Bendoraite, A.8
Mitchell, P.S.9
Nelson, A.M.10
-
40
-
-
77954908016
-
Characterization of micrornas involved in embryonic stem cell states
-
Stadler, B., Ivanovska, I., Mehta, K., Song, S., Nelson, A., Tan, Y., Mathieu, J., Darby, C., Blau, C.A., Ware, C. et al. (2010) Characterization of microRNAs involved in embryonic stem cell states. Stem Cells Dev., 19, 935-950.
-
(2010)
Stem Cells Dev.
, vol.19
, pp. 935-950
-
-
Stadler, B.1
Ivanovska, I.2
Mehta, K.3
Song, S.4
Nelson, A.5
Tan, Y.6
Mathieu, J.7
Darby, C.8
Blau, C.A.9
Ware, C.10
-
41
-
-
41649106136
-
Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells
-
Morin, R.D., O'Connor, M.D., Griffith, M., Kuchenbauer, F., Delaney, A., Prabhu, A.L., Zhao, Y., McDonald, H., Zeng, T., Hirst, M. et al. (2008) Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells. Genome Res., 18, 610-621.
-
(2008)
Genome Res.
, vol.18
, pp. 610-621
-
-
Morin, R.D.1
O'Connor, M.D.2
Griffith, M.3
Kuchenbauer, F.4
Delaney, A.5
Prabhu, A.L.6
Zhao, Y.7
McDonald, H.8
Zeng, T.9
Hirst, M.10
-
42
-
-
33745480963
-
Specific micrornas modulate embryonic stem cell-derived neurogenesis
-
Krichevsky, A.M., Sonntag, K.C., Isacson, O. and Kosik, K.S. (2006) Specific microRNAs modulate embryonic stem cell-derived neurogenesis. Stem Cells, 24, 857-864.
-
(2006)
Stem Cells
, vol.24
, pp. 857-864
-
-
Krichevsky, A.M.1
Sonntag, K.C.2
Isacson, O.3
Kosik, K.S.4
-
43
-
-
65349090170
-
MicroRNA and gene expression patterns in the differentiation of human embryonic stem cells
-
Ren, J., Jin, P., Wang, E., Marincola, F.M. and Stroncek, D.F. (2009) MicroRNA and gene expression patterns in the differentiation of human embryonic stem cells. J. Transl. Med., 7, 20.
-
(2009)
J. Transl. Med.
, vol.7
, pp. 20
-
-
Ren, J.1
Jin, P.2
Wang, E.3
Marincola, F.M.4
Stroncek, D.F.5
-
44
-
-
33644875300
-
Snorna-lbme-db, a comprehensive database of human h/aca and c/d box snornas
-
Lestrade, L. and Weber, M.J. (2006) snoRNA-LBME-db, a comprehensive database of human H/ACA and C/D box snoRNAs. Nucleic Acids Res., 34, D158-D162.
-
(2006)
Nucleic Acids Res
, vol.34
-
-
Lestrade, L.1
Weber, M.J.2
-
45
-
-
0036703184
-
The expanding snorna world
-
Bachellerie, J.P., Cavaillé, J. and Huttenhofer, A. (2002) The expanding snoRNA world. Biochimie, 84, 775-790.
-
(2002)
Biochimie
, vol.84
, pp. 775-790
-
-
Bachellerie, J.P.1
Cavaillé, J.2
Huttenhofer, A.3
-
46
-
-
0037133942
-
Small nucleolar RNAs: An abundant group of noncoding RNAs with diverse cellular functions
-
Kiss, T. (2002) Small nucleolar RNAs: an abundant group of noncoding RNAs with diverse cellular functions. Cell, 109, 145-148.
-
(2002)
Cell
, vol.109
, pp. 145-148
-
-
Kiss, T.1
-
47
-
-
0036591884
-
Biogenesis of small nucleolar ribonucleoproteins
-
Filipowicz, W. and Pogacic, V. (2002) Biogenesis of small nucleolar ribonucleoproteins. Curr. Opin. Cell Biol., 14, 319-327.
-
(2002)
Curr. Opin. Cell Biol.
, vol.14
, pp. 319-327
-
-
Filipowicz, W.1
Pogacic, V.2
-
48
-
-
12344275917
-
Biogenesis of small nuclear rnps
-
Kiss, T. (2004) Biogenesis of small nuclear RNPs. J. Cell. Sci., 117, 5949-5951.
-
(2004)
J. Cell. Sci.
, vol.117
, pp. 5949-5951
-
-
Kiss, T.1
-
49
-
-
0034687740
-
Identification of brain-specific and imprinted small nucleolar RNA genes exhibiting an unusual genomic organization
-
Cavaillé, J., Buiting, K., Kiefmann, M., Lalande, M., Brannan, C.I., Horsthemke, B., Bachellerie, J.P., Brosius, J. and Huttenhofer, A. (2000) Identification of brain-specific and imprinted small nucleolar RNA genes exhibiting an unusual genomic organization. Proc. Natl Acad. Sci. USA, 97, 14311-14316.
-
(2000)
Proc. Natl Acad. Sci. USA
, vol.97
, pp. 14311-14316
-
-
Cavaillé, J.1
Buiting, K.2
Kiefmann, M.3
Lalande, M.4
Brannan, C.I.5
Horsthemke, B.6
Bachellerie, J.P.7
Brosius, J.8
Huttenhofer, A.9
-
50
-
-
0344668837
-
Identification of 13 novel human modification guide RNAs
-
Vitali, P., Royo, H., Seitz, H., Bachellerie, J.P., Hüttenhofer, A. and Cavaille, J. (2003) Identification of 13 novel human modification guide RNAs. Nucleic Acids Res., 31, 6543-6551.
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 6543-6551
-
-
Vitali, P.1
Royo, H.2
Seitz, H.3
Bachellerie, J.P.4
Hüttenhofer, A.5
Cavaille, J.6
-
51
-
-
0030033546
-
A mammalian gene with introns instead of exons generating stable RNA products
-
Tycowski, K.T., Shu, M.D. and Steitz, J.A. (1996) A mammalian gene with introns instead of exons generating stable RNA products. Nature, 379, 464-466.
-
(1996)
Nature
, vol.379
, pp. 464-466
-
-
Tycowski, K.T.1
Shu, M.D.2
Steitz, J.A.3
-
52
-
-
0031756336
-
Classification of gas5 as a multi-small-nucleolar-RNA (snoRNA) host gene and a member of the 50-terminal oligopyrimidine gene family reveals common features of snorna host genes
-
Smith, C.M. and Steitz, J.A. (1998) Classification of gas5 as a multi-small-nucleolar-RNA (snoRNA) host gene and a member of the 50-terminal oligopyrimidine gene family reveals common features of snoRNA host genes. Mol. Cell. Biol., 18, 6897-6909.
-
(1998)
Mol. Cell. Biol.
, vol.18
, pp. 6897-6909
-
-
Smith, C.M.1
Steitz, J.A.2
-
53
-
-
0035509699
-
The IC-SNURF-SNRPN transcript serves as a host for multiple small nucleolar RNA species and as an antisense RNA for ube3a
-
Runte, M., Hüttenhofer, A., Gross, S., Kiefmann, M., Horsthemke, B. and Buiting, K. (2001) The IC-SNURF-SNRPN transcript serves as a host for multiple small nucleolar RNA species and as an antisense RNA for UBE3A. Hum. Mol. Genet., 10, 2687-2700.
-
(2001)
Hum. Mol. Genet.
, vol.10
, pp. 2687-2700
-
-
Runte, M.1
Hüttenhofer, A.2
Gross, S.3
Kiefmann, M.4
Horsthemke, B.5
Buiting, K.6
-
54
-
-
30844442607
-
The snoRNA HBII-52 regulates alternative splicing of the serotonin receptor 2C
-
Kishore, S. and Stamm, S. (2006) The snoRNA HBII-52 regulates alternative splicing of the serotonin receptor 2C. Science, 311, 230-232.
-
(2006)
Science
, vol.311
, pp. 230-232
-
-
Kishore, S.1
Stamm, S.2
-
55
-
-
22344445939
-
Adar2-mediated editing of RNA substrates in the nucleolus is inhibited by c/d small nucleolar RNAs
-
Vitali, P., Basyuk, E., Le Meur, E., Bertrand, E., Muscatelli, F., Cavaillé, J. and Huttenhofer, A. (2005) ADAR2-mediated editing of RNA substrates in the nucleolus is inhibited by C/D small nucleolar RNAs. J. Cell Biol., 169, 745-753.
-
(2005)
J. Cell Biol.
, vol.169
, pp. 745-753
-
-
Vitali, P.1
Basyuk, E.2
Le Meur, E.3
Bertrand, E.4
Muscatelli, F.5
Cavaillé, J.6
Huttenhofer, A.7
-
56
-
-
79956282385
-
Prader-willi syndrome: Obesity due to genomic imprinting
-
Butler, M.G. (2011) Prader-Willi syndrome: obesity due to genomic imprinting. Curr. Genomics, 12, 204-215.
-
(2011)
Curr. Genomics
, vol.12
, pp. 204-215
-
-
Butler, M.G.1
-
57
-
-
27644455834
-
Lack of pwcr1/mbii-85 snoRNA is critical for neonatal lethality in prader-willi syndrome mouse models
-
Ding, F., Prints, Y., Dhar, M.S., Johnson, D.K., Garnacho-Montero, C., Nicholls, R.D. and Francke, U. (2005) Lack of Pwcr1/MBII-85 snoRNA is critical for neonatal lethality in Prader-Willi syndrome mouse models. Mamm. Genome, 16, 424-431.
-
(2005)
Mamm. Genome
, vol.16
, pp. 424-431
-
-
Ding, F.1
Prints, Y.2
Dhar, M.S.3
Johnson, D.K.4
Garnacho-Montero, C.5
Nicholls, R.D.6
Francke, U.7
-
58
-
-
37749004050
-
Deletion of the mbii-85 snoRNA gene cluster in mice results in postnatal growth retardation
-
Skryabin, B.V., Gubar, L.V., Seeger, B., Pfeiffer, J., Handel, S., Robeck, T., Karpova, E., Rozhdestvensky, T.S. and Brosius, J. (2007) Deletion of the MBII-85 snoRNA gene cluster in mice results in postnatal growth retardation. PLoS Genet., 3, e235.
-
(2007)
PLoS Genet.
, vol.3
-
-
Skryabin, B.V.1
Gubar, L.V.2
Seeger, B.3
Pfeiffer, J.4
Handel, S.5
Robeck, T.6
Karpova, E.7
Rozhdestvensky, T.S.8
Brosius, J.9
-
59
-
-
44349191455
-
Prader-willi phenotype caused by paternal deficiency for the hbii-85 c/d box small nucleolar RNA cluster
-
Sahoo, T., del Gaudio, D., German, J.R., Shinawi, M., Peters, S.U., Person, R.E., Garnica, A., Cheung, S.W. and Beaudet, A.L. (2008) Prader-Willi phenotype caused by paternal deficiency for the HBII-85 C/D box small nucleolar RNA cluster. Nat. Genet., 40, 719-721.
-
(2008)
Nat. Genet.
, vol.40
, pp. 719-721
-
-
Sahoo, T.1
Del Gaudio, D.2
German, J.R.3
Shinawi, M.4
Peters, S.U.5
Person, R.E.6
Garnica, A.7
Cheung, S.W.8
Beaudet, A.L.9
-
60
-
-
62149112931
-
Chromosome 15q11-13 duplication syndrome brain reveals epigenetic alterations in gene expression not predicted from copy number
-
Hogart, A., Leung, K.N., Wang, N.J., Wu, D.J., Driscoll, J., Vallero, R.O., Schanen, N.C. and LaSalle, J.M. (2009) Chromosome 15q11-13 duplication syndrome brain reveals epigenetic alterations in gene expression not predicted from copy number. J. Med. Genet., 46, 86-93.
-
(2009)
J. Med. Genet.
, vol.46
, pp. 86-93
-
-
Hogart, A.1
Leung, K.N.2
Wang, N.J.3
Wu, D.J.4
Driscoll, J.5
Vallero, R.O.6
Schanen, N.C.7
Lasalle, J.M.8
-
61
-
-
0034923677
-
The signal recognition particle
-
Keenan, R.J., Freymann, D.M., Stroud, R.M. and Walter, P. (2001) The signal recognition particle. Annu. Rev. Biochem., 70, 755-75.
-
(2001)
Annu. Rev. Biochem.
, vol.70
, pp. 755-775
-
-
Keenan, R.J.1
Freymann, D.M.2
Stroud, R.M.3
Walter, P.4
-
62
-
-
0036468678
-
Towards the structure of the mammalian signal recognition particle
-
Wild, K., Weichenrieder, O., Strub, K., Sinning, I. and Cusack, S. (2002) Towards the structure of the mammalian signal recognition particle. Curr. Opin. Struct. Biol., 12, 72-81.
-
(2002)
Curr. Opin. Struct. Biol.
, vol.12
, pp. 72-81
-
-
Wild, K.1
Weichenrieder, O.2
Strub, K.3
Sinning, I.4
Cusack, S.5
-
63
-
-
0028964746
-
Signal recognition particle (SRP), a ubiquitous initiator of protein translocation
-
Lutcke, H. (1995) Signal recognition particle (SRP), a ubiquitous initiator of protein translocation. Eur. J. Biochem., 228, 531-550.
-
(1995)
Eur. J. Biochem.
, vol.228
, pp. 531-550
-
-
Lutcke, H.1
-
64
-
-
81255197794
-
7Sk snrna-mediated, gene-specific cooperativity of hmga1 and P-tefb
-
Eilebrecht, S., Benecke, B.J. and Benecke, A. (2011) 7SK snRNA-mediated, gene-specific cooperativity of HMGA1 and P-TEFb. RNA Biol., 8, 1084-93.
-
(2011)
RNA Biol.
, vol.8
, pp. 1084-1093
-
-
Eilebrecht, S.1
Benecke, B.J.2
Benecke, A.3
-
65
-
-
79953714587
-
7Sk small nuclear RNA directly affects hmga1 function in transcription regulation
-
Eilebrecht, S., Brysbaert, G., Wegert, T., Urlaub, H., Benecke, B.-J. and Benecke, A. (2011) 7SK small nuclear RNA directly affects HMGA1 function in transcription regulation. Nucleic Acids Res., 39, 2057-2072.
-
(2011)
Nucleic Acids Res.
, vol.39
, pp. 2057-2072
-
-
Eilebrecht, S.1
Brysbaert, G.2
Wegert, T.3
Urlaub, H.4
Benecke, B.-J.5
Benecke, A.6
-
66
-
-
0141526367
-
The vault complex
-
van Zon, A., Mossink, M.H., Scheper, R.J., Sonneveld, P. and Wiemer, E.A.C. (2003) The vault complex. Cell. Mol. Life Sci., 60, 1828-1837.
-
(2003)
Cell. Mol. Life Sci.
, vol.60
, pp. 1828-1837
-
-
Van Zon, A.1
Mossink, M.H.2
Scheper, R.J.3
Sonneveld, P.4
Wiemer, E.A.C.5
-
67
-
-
34250891308
-
Subtractive hybridization identifies novel differentially expressed ncRNA species in EBV-infected human B cells
-
Mrá zek, J., Kreutmayer, S.B., Grässer, F.A., Polacek, N. and Hüttenhofer, A. (2007) Subtractive hybridization identifies novel differentially expressed ncRNA species in EBV-infected human B cells. Nucleic Acids Res., 35, e73.
-
(2007)
Nucleic Acids Res.
, vol.35
-
-
Mrázek, J.1
Kreutmayer, S.B.2
Grässer, F.A.3
Polacek, N.4
Hüttenhofer, A.5
-
68
-
-
67349145732
-
Epstein-barr virus-induced expression of a novel human vault RNA
-
Nandy, C., Mrazek, J., Stoiber, H., Grasser, F.A., Huttenhofer, A. and Polacek, N. (2009) Epstein-barr virus-induced expression of a novel human vault RNA. J. Mol. Biol., 388, 776-784.
-
(2009)
J. Mol. Biol.
, vol.388
, pp. 776-784
-
-
Nandy, C.1
Mrazek, J.2
Stoiber, H.3
Grasser, F.A.4
Huttenhofer, A.5
Polacek, N.6
-
69
-
-
67849122320
-
MEME SUITE: Tools for motif discovery and searching
-
Bailey, T.L., Boden, M., Buske, F.A., Frith, M., Grant, C.E., Clementi, L., Ren, J., Li, W.W. and Noble, W.S. (2009) MEME SUITE: tools for motif discovery and searching. Nucleic Acids Res., 37, W202-W208.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Bailey, T.L.1
Boden, M.2
Buske, F.A.3
Frith, M.4
Grant, C.E.5
Clementi, L.6
Ren, J.7
Li, W.W.8
Noble, W.S.9
-
70
-
-
67449156149
-
RNA secondary structure analysis using the vienna RNA package
-
Chapter 12, Unit12, 12
-
Hofacker, I.L. (2009) RNA secondary structure analysis using the Vienna RNA package. Curr. Protoc. Bioinformatics, Chapter 12, Unit12 12.
-
(2009)
Curr. Protoc. Bioinformatics
-
-
Hofacker, I.L.1
-
71
-
-
84873054511
-
Rnaz 2.0: Improved noncoding rna detection
-
Gruber, A.R., Findeib, S., Washietl, S., Hofacker, I.L. and Stadler, P.F. (2010) Rnaz 2.0: improved noncoding Rna detection. Pac. Symp. Biocomput., 15, 69-79.
-
(2010)
Pac. Symp. Biocomput.
, vol.15
, pp. 69-79
-
-
Gruber, A.R.1
Findeib, S.2
Washietl, S.3
Hofacker, I.L.4
Stadler, P.F.5
-
72
-
-
55949112523
-
A human snoRNA with microRNA-like functions
-
Ender, C., Krek, A., Friedländer, M.R., Beitzinger, M., Weinmann, L., Chen, W., Pfeffer, S., Rajewsky, N. and Meister, G. (2008) A human snoRNA with microRNA-like functions. Mol. Cell, 32, 519-528.
-
(2008)
Mol. Cell
, vol.32
, pp. 519-528
-
-
Ender, C.1
Krek, A.2
Friedländer, M.R.3
Beitzinger, M.4
Weinmann, L.5
Chen, W.6
Pfeffer, S.7
Rajewsky, N.8
Meister, G.9
-
73
-
-
57149094023
-
SnoRNA, a novel precursor of microrna in giardia lamblia
-
Saraiya, A.A. and Wang, C.C. (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
-
74
-
-
67649386471
-
Small RNAs derived from snoRNAs
-
Taft, R.J., Glazov, E.A., Lassmann, T., Hayashizaki, Y., Carninci, P. and Mattick, J.S. (2009) Small RNAs derived from snoRNAs. RNA, 15, 1233-1240.
-
(2009)
RNA
, vol.15
, pp. 1233-1240
-
-
Taft, R.J.1
Glazov, E.A.2
Lassmann, T.3
Hayashizaki, Y.4
Carninci, P.5
Mattick, J.S.6
-
75
-
-
0034703745
-
RNA processing marches on
-
Tollervey, D. and Caceres, J.F. (2000) RNA processing marches on. Cell, 103, 703-709.
-
(2000)
Cell
, vol.103
, pp. 703-709
-
-
Tollervey, D.1
Caceres, J.F.2
-
76
-
-
33747146784
-
Role of miRNA and miRNA processing factors in development and disease
-
Conrad, R., Barrier, M. and Ford, L.P. (2006) Role of miRNA and miRNA processing factors in development and disease. Birth Defects Res. C Embryo Today, 78, 107-117.
-
(2006)
Birth Defects Res. C Embryo Today
, vol.78
, pp. 107-117
-
-
Conrad, R.1
Barrier, M.2
Ford, L.P.3
-
78
-
-
17344392308
-
A new mathematical model for relative quantification in real-time RT-PCR
-
Pfaffl, M.W. (2001) A new mathematical model for relative quantification in real-time RT-PCR. Nucleic Acids Res., 29, e45.
-
(2001)
Nucleic Acids Res.
, vol.29
-
-
Pfaffl, M.W.1
-
79
-
-
0037062769
-
The slice overlay assay: A versatile tool to study the influence of extracellular signals on neuronal development
-
Polleux, F. and Ghosh, A. (2002) The slice overlay assay: a versatile tool to study the influence of extracellular signals on neuronal development. Sci. STKE, 2002, pl9.
-
(2002)
Sci. STKE
, vol.2002
-
-
Polleux, F.1
Ghosh, A.2
-
80
-
-
34548591236
-
High-efficiency transfection of mammalian neurons via nucleofection
-
Zeitelhofer, M., Vessey, J.P., Xie, Y., Tübing, F., Thomas, S., Kiebler, M. and Dahm, R. (2007) High-efficiency transfection of mammalian neurons via nucleofection. Nat. Protoc., 2, 1692-1704.
-
(2007)
Nat. Protoc.
, vol.2
, pp. 1692-1704
-
-
Zeitelhofer, M.1
Vessey, J.P.2
Xie, Y.3
Tübing, F.4
Thomas, S.5
Kiebler, M.6
Dahm, R.7
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