-
1
-
-
84882781969
-
Mysterious ribosomopathies
-
McCann, K. L. & Baserga, S. J. Mysterious ribosomopathies. Science 341, 849-850 (2013).
-
(2013)
Science
, vol.341
, pp. 849-850
-
-
McCann, K.L.1
Baserga, S.J.2
-
2
-
-
84884782975
-
Repeat-associated non-ATG (RAN) translation in neurological disease
-
Cleary, J. D. & Ranum, L. P. W. Repeat-associated non-ATG (RAN) translation in neurological disease. Hum. Mol. Genet. 22, R45-R51 (2013).
-
(2013)
Hum. Mol. Genet.
, vol.22
, pp. R45-R51
-
-
Cleary, J.D.1
Ranum, L.P.W.2
-
3
-
-
84897057762
-
Nucleolar stress in Diamond Blackfan anemia pathophysiology
-
Ellis, S. R. Nucleolar stress in Diamond Blackfan anemia pathophysiology. Biochim. Biophys. Acta 1842, 765-768 (2014).
-
(2014)
Biochim. Biophys. Acta
, vol.1842
, pp. 765-768
-
-
Ellis, S.R.1
-
4
-
-
84897038174
-
Ribosome biogenesis in skeletal development and the pathogenesis of skeletal disorders
-
Trainor, P. A. & Merrill, A. E. Ribosome biogenesis in skeletal development and the pathogenesis of skeletal disorders. Biochim. Biophys. Acta 1842, 769-778 (2014).
-
(2014)
Biochim. Biophys. Acta
, vol.1842
, pp. 769-778
-
-
Trainor, P.A.1
Merrill, A.E.2
-
5
-
-
84878013555
-
Ribosomal protein SA haploinsufficiency in humans with isolated congenital asplenia
-
Bolze, A. et al. Ribosomal protein SA haploinsufficiency in humans with isolated congenital asplenia. Science 340, 976-978 (2013).
-
(2013)
Science
, vol.340
, pp. 976-978
-
-
Bolze, A.1
-
6
-
-
79955537355
-
Ribosome-mediated specificity in Hox mRNA translation and vertebrate tissue patterning
-
Kondrashov, N. et al. Ribosome-mediated specificity in Hox mRNA translation and vertebrate tissue patterning. Cell 145, 383-397 (2011).
-
(2011)
Cell
, vol.145
, pp. 383-397
-
-
Kondrashov, N.1
-
7
-
-
62549134121
-
Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling
-
Ingolia, N. T., Ghaemmaghami, S., Newman, J. R. S. & Weissman, J. S. Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling. Science 324, 218-223 (2009).
-
(2009)
Science
, vol.324
, pp. 218-223
-
-
Ingolia, N.T.1
Ghaemmaghami, S.2
Newman, J.R.S.3
Weissman, J.S.4
-
8
-
-
0024117032
-
Ribosome pausing and stacking during translation of a eukaryotic mRNA
-
Wolin, S. L. & Walter, P. Ribosome pausing and stacking during translation of a eukaryotic mRNA. EMBO J. 7, 3559-3569 (1988).
-
(1988)
EMBO J.
, vol.7
, pp. 3559-3569
-
-
Wolin, S.L.1
Walter, P.2
-
9
-
-
0014666439
-
Polypeptide chain initiation: Nucleotide sequences of the three ribosomal binding sites in bacteriophage R17 RNA
-
Steitz, J. A. Polypeptide chain initiation: nucleotide sequences of the three ribosomal binding sites in bacteriophage R17 RNA. Nature 224, 957-964 (1969).
-
(1969)
Nature
, vol.224
, pp. 957-964
-
-
Steitz, J.A.1
-
10
-
-
81055155799
-
Ribosome profiling of mouse embryonic stem cells reveals the complexity and dynamics of mammalian proteomes
-
Ingolia, N. T., Lareau, L. F. & Weissman, J. S. Ribosome profiling of mouse embryonic stem cells reveals the complexity and dynamics of mammalian proteomes. Cell 147, 789-802 (2011).
-
(2011)
Cell
, vol.147
, pp. 789-802
-
-
Ingolia, N.T.1
Lareau, L.F.2
Weissman, J.S.3
-
11
-
-
84869806462
-
Decoding human cytomegalovirus
-
Stern-Ginossar, N. et al. Decoding human cytomegalovirus. Science 338, 1088-1093 (2012).
-
(2012)
Science
, vol.338
, pp. 1088-1093
-
-
Stern-Ginossar, N.1
-
12
-
-
84856625798
-
High-resolution view of the yeast meiotic program revealed by ribosome profiling
-
Brar, G. A. et al. High-resolution view of the yeast meiotic program revealed by ribosome profiling. Science 335, 552-557 (2012).
-
(2012)
Science
, vol.335
, pp. 552-557
-
-
Brar, G.A.1
-
13
-
-
84899884309
-
Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation
-
Bazzini, A. A. et al. Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation. EMBO J. 33, 981-993 (2014).
-
(2014)
EMBO J.
, vol.33
, pp. 981-993
-
-
Bazzini, A.A.1
-
14
-
-
84891749518
-
Toddler: An embryonic signal that promotes cell movement via Apelin receptors
-
Pauli, A. et al. Toddler: an embryonic signal that promotes cell movement via Apelin receptors. Science 343, 1248636 (2014).
-
(2014)
Science
, vol.343
, pp. 1248636
-
-
Pauli, A.1
-
15
-
-
84889593808
-
Ribosome profiling reveals pervasive and regulated stop codon readthrough in Drosophila melanogaster
-
Dunn, J. G., Foo, C. K., Belletier, N. G., Gavis, E. R. & Weissman, J. S. Ribosome profiling reveals pervasive and regulated stop codon readthrough in Drosophila melanogaster. eLife 2, e01179 (2013).
-
(2013)
ELife
, vol.2
, pp. e01179
-
-
Dunn, J.G.1
Foo, C.K.2
Belletier, N.G.3
Gavis, E.R.4
Weissman, J.S.5
-
16
-
-
84919424223
-
Extensive translation of small open reading frames revealed by Poly-Ribo-Seq
-
Aspden, J. L. et al. Extensive translation of small open reading frames revealed by Poly-Ribo-Seq. eLife 3, e03528 (2014).
-
(2014)
ELife
, vol.3
, pp. e03528
-
-
Aspden, J.L.1
-
17
-
-
84903477229
-
Translation of small open reading frames within unannotated RNA transcripts in Saccharomyces cerevisiae
-
Smith, J. E. et al. Translation of small open reading frames within unannotated RNA transcripts in Saccharomyces cerevisiae. Cell Rep. 7, 1858-1866 (2014).
-
(2014)
Cell Rep.
, vol.7
, pp. 1858-1866
-
-
Smith, J.E.1
-
18
-
-
84866267681
-
Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution
-
Lee, S. et al. Global mapping of translation initiation sites in mammalian cells at single-nucleotide resolution. Proc. Natl Acad. Sci. USA 109, E2424-E2432 (2012).
-
(2012)
Proc. Natl Acad. Sci. USA
, vol.109
, pp. E2424-E2432
-
-
Lee, S.1
-
19
-
-
84996773946
-
Translation of 5′ leaders is pervasive in genes resistant to eIF2 repression
-
Andreev, D. E. et al. Translation of 5′ leaders is pervasive in genes resistant to eIF2 repression. eLife 4, e03971 (2014).
-
(2014)
ELife
, vol.4
, pp. e03971
-
-
Andreev, D.E.1
-
20
-
-
85028165246
-
Ten years of next-generation sequencing technology
-
Van Dijk, E. L., Auger, H., Jaszczyszyn, Y. & Thermes, C. Te n years of next-generation sequencing technology. Trends Genet. 30, 418-426 (2014).
-
(2014)
Trends Genet.
, vol.30
, pp. 418-426
-
-
Van Dijk, E.L.1
Auger, H.2
Jaszczyszyn, Y.3
Thermes, C.4
-
21
-
-
84864453787
-
The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments
-
Ingolia, N. T., Brar, G. A., Rouskin, S., McGeachy, A. M. & Weissman, J. S. The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments. Nat. Protoc. 7, 1534-1550 (2012).
-
(2012)
Nat. Protoc.
, vol.7
, pp. 1534-1550
-
-
Ingolia, N.T.1
Brar, G.A.2
Rouskin, S.3
McGeachy, A.M.4
Weissman, J.S.5
-
22
-
-
84885815730
-
Translation regulation gets its 'omics' moment
-
Kuersten, S., Radek, A., Vogel, C. & Penalva, L. O. Translation regulation gets its 'omics' moment. Wiley Interdiscip. Rev. RNA 4, 617-630 (2013).
-
(2013)
Wiley Interdiscip. Rev. RNA
, vol.4
, pp. 617-630
-
-
Kuersten, S.1
Radek, A.2
Vogel, C.3
Penalva, L.O.4
-
23
-
-
83255164895
-
Selective ribosome profiling reveals the cotranslational chaperone action of trigger factor in vivo
-
Oh, E. et al. Selective ribosome profiling reveals the cotranslational chaperone action of trigger factor in vivo. Cell 147, 1295-1308 (2011).
-
(2011)
Cell
, vol.147
, pp. 1295-1308
-
-
Oh, E.1
-
24
-
-
84893766839
-
KSHV 2.0: A comprehensive annotation of the Kaposi's sarcoma-associated herpesvirus genome using next-generation sequencing reveals novel genomic and functional features
-
Arias, C. et al. KSHV 2.0: a comprehensive annotation of the Kaposi's sarcoma-associated herpesvirus genome using next-generation sequencing reveals novel genomic and functional features. PLoS Pathog. 10, e1003847 (2014).
-
(2014)
PLoS Pathog.
, vol.10
, pp. e1003847
-
-
Arias, C.1
-
25
-
-
81755184408
-
Wobble base-pairing slows in vivo translation elongation in metazoans
-
Stadler, M. & Fire, A. Wobble base-pairing slows in vivo translation elongation in metazoans. RNA 17, 2063-2073 (2011).
-
(2011)
RNA
, vol.17
, pp. 2063-2073
-
-
Stadler, M.1
Fire, A.2
-
26
-
-
84862778053
-
Ribosome profiling shows that MIR-430 reduces translation before causing mRNA decay in zebrafish
-
Bazzini, A. A., Lee, M. T. & Giraldez, A. J. Ribosome profiling shows that miR-430 reduces translation before causing mRNA decay in zebrafish. Science 336, 233-237 (2012).
-
(2012)
Science
, vol.336
, pp. 233-237
-
-
Bazzini, A.A.1
Lee, M.T.2
Giraldez, A.J.3
-
27
-
-
84891945795
-
Translational dynamics revealed by genome-wide profiling of ribosome footprints in Arabidopsis
-
Juntawong, P., Girke, T., Bazin, J. & Bailey-Serres, J. Translational dynamics revealed by genome-wide profiling of ribosome footprints in Arabidopsis. Proc. Natl Acad. Sci. USA 111, E203-E212 (2014).
-
(2014)
Proc. Natl Acad. Sci. USA
, vol.111
, pp. E203-E212
-
-
Juntawong, P.1
Girke, T.2
Bazin, J.3
Bailey-Serres, J.4
-
28
-
-
84920514593
-
Extensive stage-regulation of translation revealed by ribosome profiling of Trypanosoma brucei
-
Jensen, B. C. et al. Extensive stage-regulation of translation revealed by ribosome profiling of Trypanosoma brucei. BMC Genomics 15, 911 (2014).
-
(2014)
BMC Genomics
, vol.15
, pp. 911
-
-
Jensen, B.C.1
-
29
-
-
84929469529
-
Genome-wide regulatory dynamics of translation in the Plasmodium falciparum asexual blood stages
-
Caro, F., Ahyong, V., Betegon, M. & DeRisi, J. L. Genome-wide regulatory dynamics of translation in the Plasmodium falciparum asexual blood stages. eLife 3, e04106 (2014).
-
(2014)
ELife
, vol.3
, pp. e04106
-
-
Caro, F.1
Ahyong, V.2
Betegon, M.3
DeRisi, J.L.4
-
30
-
-
84930221722
-
Translational regulation shapes the molecular landscape of complex disease phenotypes
-
Schafer, S. et al. Translational regulation shapes the molecular landscape of complex disease phenotypes. Nat. Commun. 6, 7200 (2015).
-
(2015)
Nat. Commun.
, vol.6
, pp. 7200
-
-
Schafer, S.1
-
31
-
-
84890231951
-
Ribosome profiling reveals features of normal and disease-associated mitochondrial translation
-
Rooijers, K., Loayza-Puch, F., Nijtmans, L. G. & Agami, R. Ribosome profiling reveals features of normal and disease-associated mitochondrial translation. Nat. Commun. 4, 2886 (2013).
-
(2013)
Nat. Commun.
, vol.4
, pp. 2886
-
-
Rooijers, K.1
Loayza-Puch, F.2
Nijtmans, L.G.3
Agami, R.4
-
32
-
-
84880946485
-
A rapid ribosome profiling method elucidates chloroplast ribosome behavior in vivo
-
Zoschke, R., Watkins, K. P. & Barkan, A. A rapid ribosome profiling method elucidates chloroplast ribosome behavior in vivo. Plant Cell 25, 2265-2275 (2013).
-
(2013)
Plant Cell
, vol.25
, pp. 2265-2275
-
-
Zoschke, R.1
Watkins, K.P.2
Barkan, A.3
-
33
-
-
84891791498
-
GWIPS-viz: Development of a ribo-seq genome browser
-
Michel, A. M. et al. GWIPS-viz: development of a ribo-seq genome browser. Nucleic Acids Res. 42, D859-D864 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. D859-D864
-
-
Michel, A.M.1
-
34
-
-
84880372200
-
Highresolution view of bacteriophage lambda gene expression by ribosome profiling
-
Liu, X., Jiang, H., Gu, Z. & Roberts, J. W. Highresolution view of bacteriophage lambda gene expression by ribosome profiling. Proc. Natl Acad. Sci. USA 110, 11928-11933 (2013).
-
(2013)
Proc. Natl Acad. Sci. USA
, vol.110
, pp. 11928-11933
-
-
Liu, X.1
Jiang, H.2
Gu, Z.3
Roberts, J.W.4
-
35
-
-
84867919856
-
Genome-wide ribosome profiling reveals complex translational regulation in response to oxidative stress
-
Gerashchenko, M. V., Lobanov, A. V. & Gladyshev, V. N. Genome-wide ribosome profiling reveals complex translational regulation in response to oxidative stress. Proc. Natl Acad. Sci. USA 109, 17394-17399 (2012).
-
(2012)
Proc. Natl Acad. Sci. USA
, vol.109
, pp. 17394-17399
-
-
Gerashchenko, M.V.1
Lobanov, A.V.2
Gladyshev, V.N.3
-
36
-
-
84860231100
-
The anti-Shine-Dalgarno sequence drives translational pausing and codon choice in bacteria
-
Li, G.-W., Oh, E. & Weissman, J. S. The anti-Shine-Dalgarno sequence drives translational pausing and codon choice in bacteria. Nature 484, 538-541 (2012).
-
(2012)
Nature
, vol.484
, pp. 538-541
-
-
Li, G.-W.1
Oh, E.2
Weissman, J.S.3
-
37
-
-
84927693301
-
High-precision analysis of translational pausing by ribosome profiling in bacteria lacking EFP
-
Woolstenhulme, C. J., Guydosh, N. R., Green, R. & Buskirk, A. R. High-precision analysis of translational pausing by ribosome profiling in bacteria lacking EFP. Cell Rep. 11, 13-21 (2015).
-
(2015)
Cell Rep.
, vol.11
, pp. 13-21
-
-
Woolstenhulme, C.J.1
Guydosh, N.R.2
Green, R.3
Buskirk, A.R.4
-
38
-
-
84878865619
-
Ribosome profiling reveals resemblance between long non-coding RNAs and 5′ leaders of coding RNAs
-
Chew, G.-L. et al. Ribosome profiling reveals resemblance between long non-coding RNAs and 5′ leaders of coding RNAs. Development 140, 2828-2834 (2013).
-
(2013)
Development
, vol.140
, pp. 2828-2834
-
-
Chew, G.-L.1
-
39
-
-
84922489184
-
Ribosome profiling reveals pervasive translation outside of annotated protein-coding genes
-
Ingolia, N. T. et al. Ribosome profiling reveals pervasive translation outside of annotated protein-coding genes. Cell Rep. 8, 1365-1379 (2014).
-
(2014)
Cell Rep.
, vol.8
, pp. 1365-1379
-
-
Ingolia, N.T.1
-
40
-
-
84939210786
-
Oxygen and glucose deprivation induces widespread alterations in mRNA translation within 20 minutes
-
Andreev, D. E. et al. Oxygen and glucose deprivation induces widespread alterations in mRNA translation within 20 minutes. Genome Biol. 16, 90 (2015).
-
(2015)
Genome Biol.
, vol.16
, pp. 90
-
-
Andreev, D.E.1
-
41
-
-
84896863244
-
Dom34 rescues ribosomes in 3′ untranslated regions
-
Guydosh, N. R. & Green, R. Dom34 rescues ribosomes in 3′ untranslated regions. Cell 156, 950-962 (2014).
-
(2014)
Cell
, vol.156
, pp. 950-962
-
-
Guydosh, N.R.1
Green, R.2
-
42
-
-
84873442839
-
Widespread regulation of translation by elongation pausing in heat shock
-
Shalgi, R. et al. Widespread regulation of translation by elongation pausing in heat shock. Mol. Cell 49, 439-452 (2013).
-
(2013)
Mol. Cell
, vol.49
, pp. 439-452
-
-
Shalgi, R.1
-
43
-
-
84903819867
-
Ribosome profiling reveals sequence-independent post-initiation pausing as a signature of translation
-
Han, Y. et al. Ribosome profiling reveals sequence-independent post-initiation pausing as a signature of translation. Cell Res. 24, 842-851 (2014).
-
(2014)
Cell Res.
, vol.24
, pp. 842-851
-
-
Han, Y.1
-
44
-
-
84873467908
-
Cotranslational response to proteotoxic stress by elongation pausing of ribosomes
-
Liu, B., Han, Y. & Qian, S.-B. Cotranslational response to proteotoxic stress by elongation pausing of ribosomes. Mol. Cell 49, 453-463 (2013).
-
(2013)
Mol. Cell
, vol.49
, pp. 453-463
-
-
Liu, B.1
Han, Y.2
Qian, S.-B.3
-
45
-
-
84911468469
-
An integrated approach reveals regulatory controls on bacterial translation elongation
-
Subramaniam, A. R., Zid, B. M. & O'Shea, E. K. An integrated approach reveals regulatory controls on bacterial translation elongation. Cell 159, 1200-1211 (2014).
-
(2014)
Cell
, vol.159
, pp. 1200-1211
-
-
Subramaniam, A.R.1
Zid, B.M.2
O'Shea, E.K.3
-
46
-
-
84900489620
-
Distinct stages of the translation elongation cycle revealed by sequencing ribosome-protected mRNA fragments
-
Lareau, L. F., Hite, D. H., Hogan, G. J. & Brown, P. O. Distinct stages of the translation elongation cycle revealed by sequencing ribosome-protected mRNA fragments. eLife 3, e01257 (2014).
-
(2014)
ELife
, vol.3
, pp. e01257
-
-
Lareau, L.F.1
Hite, D.H.2
Hogan, G.J.3
Brown, P.O.4
-
47
-
-
0034665605
-
Modeling the feasibility of whole genome shotgun sequencing using a pairwise end strategy
-
Siegel, A. F., van den Engh, G., Hood, L., Trask, B. & Roach, J. C. Modeling the feasibility of whole genome shotgun sequencing using a pairwise end strategy. Genomics 68, 237-246 (2000).
-
(2000)
Genomics
, vol.68
, pp. 237-246
-
-
Siegel, A.F.1
Van Den Engh, G.2
Hood, L.3
Trask, B.4
Roach, J.C.5
-
48
-
-
84879989067
-
Updating RNA-Seq analyses after re-annotation
-
Roberts, A., Schaeffer, L. & Pachter, L. Updating RNA-Seq analyses after re-annotation. Bioinformatics 29, 1631-1637 (2013).
-
(2013)
Bioinformatics
, vol.29
, pp. 1631-1637
-
-
Roberts, A.1
Schaeffer, L.2
Pachter, L.3
-
49
-
-
84906228597
-
Single-cell RNA-seq: Advances and future challenges
-
Saliba, A.-E., Westermann, A. J., Gorski, S. A. & Vogel, J. Single-cell RNA-seq: advances and future challenges. Nucleic Acids Res. 42, 8845-8860 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 8845-8860
-
-
Saliba, A.-E.1
Westermann, A.J.2
Gorski, S.A.3
Vogel, J.4
-
51
-
-
84899550455
-
Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources
-
Li, G.-W., Burkhardt, D., Gross, C. & Weissman, J. S. Quantifying absolute protein synthesis rates reveals principles underlying allocation of cellular resources. Cell 157, 624-635 (2014).
-
(2014)
Cell
, vol.157
, pp. 624-635
-
-
Li, G.-W.1
Burkhardt, D.2
Gross, C.3
Weissman, J.S.4
-
52
-
-
0022268684
-
o-ATP synthase are sufficient to form a functional proton pore
-
o-ATP synthase are sufficient to form a functional proton pore. J. Biol. Chem. 260, 11207-11215 (1985).
-
(1985)
J. Biol. Chem.
, vol.260
, pp. 11207-11215
-
-
Aris, J.P.1
Klionsky, D.J.2
Simoni, R.D.3
-
53
-
-
84873508514
-
The Ecm11-Gmc2 complex promotes synaptonemal complex formation through assembly of transverse filaments in budding yeast
-
Humphryes, N. et al. The Ecm11-Gmc2 complex promotes synaptonemal complex formation through assembly of transverse filaments in budding yeast. PLoS Genet. 9, e1003194 (2013).
-
(2013)
PLoS Genet.
, vol.9
, pp. e1003194
-
-
Humphryes, N.1
-
54
-
-
84888038427
-
Nanog, Pou5f1 and SoxB1 activate zygotic gene expression during the maternal-to-zygotic transition
-
Lee, M. T. et al. Nanog, Pou5f1 and SoxB1 activate zygotic gene expression during the maternal-to-zygotic transition. Nature 503, 360-364 (2013).
-
(2013)
Nature
, vol.503
, pp. 360-364
-
-
Lee, M.T.1
-
55
-
-
84902326037
-
Widespread changes in the posttranscriptional landscape at the Drosophila oocyte-to-embryo transition
-
Kronja, I. et al. Widespread changes in the posttranscriptional landscape at the Drosophila oocyte-to-embryo transition. Cell Rep. 7, 1495-1508 (2014).
-
(2014)
Cell Rep.
, vol.7
, pp. 1495-1508
-
-
Kronja, I.1
-
56
-
-
84896405670
-
Comparative ribosome profiling reveals extensive translational complexity in different Trypanosoma brucei life cycle stages
-
Vasquez, J.-J., Hon, C.-C., Vanselow, J. T., Schlosser, A. & Siegel, T. N. Comparative ribosome profiling reveals extensive translational complexity in different Trypanosoma brucei life cycle stages. Nucleic Acids Res. 42, 3623-3637 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. 3623-3637
-
-
Vasquez, J.-J.1
Hon, C.-C.2
Vanselow, J.T.3
Schlosser, A.4
Siegel, T.N.5
-
57
-
-
84888201853
-
The translational landscape of the mammalian cell cycle
-
Stumpf, C. R., Moreno, M. V., Olshen, A. B., Taylor, B. S. & Ruggero, D. The translational landscape of the mammalian cell cycle. Mol. Cell 52, 574-582 (2013).
-
(2013)
Mol. Cell
, vol.52
, pp. 574-582
-
-
Stumpf, C.R.1
Moreno, M.V.2
Olshen, A.B.3
Taylor, B.S.4
Ruggero, D.5
-
58
-
-
84887278788
-
Conserved translatome remodeling in nematode species executing a shared developmental transition
-
Stadler, M. & Fire, A. Conserved translatome remodeling in nematode species executing a shared developmental transition. PLoS Genet. 9, e1003739 (2013).
-
(2013)
PLoS Genet.
, vol.9
, pp. e1003739
-
-
Stadler, M.1
Fire, A.2
-
59
-
-
84922334977
-
Translational reprogramming in cellular stress response
-
Liu, B. & Qian, S.-B. Translational reprogramming in cellular stress response. Wiley Interdiscip. Rev. RNA 5, 301-305 (2014).
-
(2014)
Wiley Interdiscip. Rev. RNA
, vol.5
, pp. 301-305
-
-
Liu, B.1
Qian, S.-B.2
-
60
-
-
84894318608
-
Ribosome profiling: New views of translation, from single codons to genome scale
-
Ingolia, N. T. Ribosome profiling: new views of translation, from single codons to genome scale. Nat. Rev. Genet. 15, 205-213 (2014).
-
(2014)
Nat. Rev. Genet.
, vol.15
, pp. 205-213
-
-
Ingolia, N.T.1
-
61
-
-
84882258295
-
Ribosome profiling: A Hi-Def monitor for protein synthesis at the genome-wide scale
-
Michel, A. M. & Baranov, P. V. Ribosome profiling: a Hi-Def monitor for protein synthesis at the genome-wide scale. Wiley Interdiscip. Rev. RNA 4, 473-490 (2013).
-
(2013)
Wiley Interdiscip. Rev. RNA
, vol.4
, pp. 473-490
-
-
Michel, A.M.1
Baranov, P.V.2
-
62
-
-
0030297537
-
A novel mechanism for regulating activity of a transcription factor that controls the unfolded protein response
-
Cox, J. S. & Walter, P. A novel mechanism for regulating activity of a transcription factor that controls the unfolded protein response. Cell 87, 391-404 (1996).
-
(1996)
Cell
, vol.87
, pp. 391-404
-
-
Cox, J.S.1
Walter, P.2
-
63
-
-
84909619321
-
The general mode of translation inhibition by macrolide antibiotics
-
Kannan, K. et al. The general mode of translation inhibition by macrolide antibiotics. Proc. Natl Acad. Sci. USA 111, 15958-15963 (2014).
-
(2014)
Proc. Natl Acad. Sci. USA
, vol.111
, pp. 15958-15963
-
-
Kannan, K.1
-
64
-
-
84868035954
-
Selective protein synthesis by ribosomes with a drug-obstructed exit tunnel
-
Kannan, K., Vázquez-Laslop, N. & Mankin, A. S. Selective protein synthesis by ribosomes with a drug-obstructed exit tunnel. Cell 151, 508-520 (2012).
-
(2012)
Cell
, vol.151
, pp. 508-520
-
-
Kannan, K.1
Vázquez-Laslop, N.2
Mankin, A.S.3
-
65
-
-
84908583725
-
Sequence selectivity of macrolide-induced translational attenuation
-
Davis, A. R., Gohara, D. W. & Yap, M.-N. F. Sequence selectivity of macrolide-induced translational attenuation. Proc. Natl Acad. Sci. USA 111, 15379-15384 (2014).
-
(2014)
Proc. Natl Acad. Sci. USA
, vol.111
, pp. 15379-15384
-
-
Davis, A.R.1
Gohara, D.W.2
Yap, M.-N.F.3
-
66
-
-
84897145161
-
Remote control of gene function by local translation
-
Jung, H., Gkogkas, C. G., Sonenberg, N. & Holt, C. E. Remote control of gene function by local translation. Cell 157, 26-40 (2014).
-
(2014)
Cell
, vol.157
, pp. 26-40
-
-
Jung, H.1
Gkogkas, C.G.2
Sonenberg, N.3
Holt, C.E.4
-
67
-
-
84909606778
-
Targeting and plasticity of mitochondrial proteins revealed by proximity-specific ribosome profiling
-
Williams, C. C., Jan, C. H. & Weissman, J. S. Targeting and plasticity of mitochondrial proteins revealed by proximity-specific ribosome profiling. Science 346, 748-751 (2014).
-
(2014)
Science
, vol.346
, pp. 748-751
-
-
Williams, C.C.1
Jan, C.H.2
Weissman, J.S.3
-
68
-
-
84909607974
-
Principles of ER cotranslational translocation revealed by proximity-specific ribosome profiling
-
Jan, C. H., Williams, C. C. & Weissman, J. S. Principles of ER cotranslational translocation revealed by proximity-specific ribosome profiling. Science 346, 1257521 (2014).
-
(2014)
Science
, vol.346
, pp. 1257521
-
-
Jan, C.H.1
Williams, C.C.2
Weissman, J.S.3
-
69
-
-
0037388094
-
Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae
-
Arava, Y. et al. Genome-wide analysis of mRNA translation profiles in Saccharomyces cerevisiae. Proc. Natl Acad. Sci. USA 100, 3889-3894 (2003).
-
(2003)
Proc. Natl Acad. Sci. USA
, vol.100
, pp. 3889-3894
-
-
Arava, Y.1
-
70
-
-
84901819558
-
Cell type-specific mRNA purification by translating ribosome affinity purification (TRAP)
-
Heiman, M., Kulicke, R., Fenster, R. J., Greengard, P. & Heintz, N. Cell type-specific mRNA purification by translating ribosome affinity purification (TRAP). Nat. Protoc. 9, 1282-1291 (2014).
-
(2014)
Nat. Protoc.
, vol.9
, pp. 1282-1291
-
-
Heiman, M.1
Kulicke, R.2
Fenster, R.J.3
Greengard, P.4
Heintz, N.5
-
71
-
-
55449107738
-
A translational profiling approach for the molecular characterization of CNS cell types
-
Heiman, M. et al. A translational profiling approach for the molecular characterization of CNS cell types. Cell 135, 738-748 (2008).
-
(2008)
Cell
, vol.135
, pp. 738-748
-
-
Heiman, M.1
-
72
-
-
0036074221
-
One-step affinity purification of the yeast ribosome and its associated proteins and mRNAs
-
Inada, T. et al. One-step affinity purification of the yeast ribosome and its associated proteins and mRNAs. RNA 8, 948-958 (2002).
-
(2002)
RNA
, vol.8
, pp. 948-958
-
-
Inada, T.1
-
73
-
-
26944438704
-
Immunopurification of polyribosomal complexes of Arabidopsis for global analysis of gene expression
-
Zanetti, M. E., Chang, I.-F., Gong, F., Galbraith, D. W. & Bailey-Serres, J. Immunopurification of polyribosomal complexes of Arabidopsis for global analysis of gene expression. Plant Physiol. 138, 624-635 (2005).
-
(2005)
Plant Physiol.
, vol.138
, pp. 624-635
-
-
Zanetti, M.E.1
Chang, I.-F.2
Gong, F.3
Galbraith, D.W.4
Bailey-Serres, J.5
-
74
-
-
84879157149
-
Isolation and analysis of mRNAs from specific cell types of plants by ribosome immunopurification
-
Mustroph, A., Zanetti, M. E., Girke, T. & Bailey-Serres, J. Isolation and analysis of mRNAs from specific cell types of plants by ribosome immunopurification. Methods Mol. Biol. 959, 277-302 (2013).
-
(2013)
Methods Mol. Biol.
, vol.959
, pp. 277-302
-
-
Mustroph, A.1
Zanetti, M.E.2
Girke, T.3
Bailey-Serres, J.4
-
75
-
-
84863689117
-
A versatile method for cell-specific profiling of translated mRNAs in Drosophila
-
Thomas, A. et al. A versatile method for cell-specific profiling of translated mRNAs in Drosophila. PLoS ONE 7, e40276 (2012).
-
(2012)
PLoS ONE
, vol.7
, pp. e40276
-
-
Thomas, A.1
-
76
-
-
84908112478
-
Translational profiling through biotinylation of tagged ribosomes in zebrafish
-
Housley, M. P. et al. Translational profiling through biotinylation of tagged ribosomes in zebrafish. Development 141, 3988-3993 (2014).
-
(2014)
Development
, vol.141
, pp. 3988-3993
-
-
Housley, M.P.1
-
77
-
-
84890548124
-
Two rapidly evolving genes contribute to male fitness in Drosophila
-
Reinhardt, J. A. & Jones, C. D. Tw o rapidly evolving genes contribute to male fitness in Drosophila. J. Mol. Evol. 77, 246-259 (2013).
-
(2013)
J. Mol. Evol.
, vol.77
, pp. 246-259
-
-
Reinhardt, J.A.1
Jones, C.D.2
-
78
-
-
84862991256
-
Leucine-tRNA initiates at CUG start codons for protein synthesis and presentation by MHC class i
-
Starck, S. R. et al. Leucine-tRNA initiates at CUG start codons for protein synthesis and presentation by MHC class I. Science 336, 1719-1723 (2012).
-
(2012)
Science
, vol.336
, pp. 1719-1723
-
-
Starck, S.R.1
-
79
-
-
66049162655
-
Execution of nonsense-mediated mRNA decay: What defines a substrate?
-
Rebbapragada, I. & Lykke-Andersen, J. Execution of nonsense-mediated mRNA decay: what defines a substrate? Curr. Opin. Cell Biol. 21, 394-402 (2009).
-
(2009)
Curr. Opin. Cell Biol.
, vol.21
, pp. 394-402
-
-
Rebbapragada, I.1
Lykke-Andersen, J.2
-
80
-
-
84919452464
-
Identifying (non-) coding RNAs and small peptides: Challenges and opportunities
-
Pauli, A., Valen, E. & Schier, A. F. Identifying (non-) coding RNAs and small peptides: challenges and opportunities. BioEssays 37, 103-112 (2015).
-
(2015)
BioEssays
, vol.37
, pp. 103-112
-
-
Pauli, A.1
Valen, E.2
Schier, A.F.3
-
81
-
-
84879987789
-
LincRNAs: Genomics, evolution, and mechanisms
-
Ulitsky, I. & Bartel, D. P. lincRNAs: genomics, evolution, and mechanisms. Cell 154, 26-46 (2013).
-
(2013)
Cell
, vol.154
, pp. 26-46
-
-
Ulitsky, I.1
Bartel, D.P.2
-
82
-
-
77954786287
-
Small peptides switch the transcriptional activity of Shavenbaby during Drosophila embryogenesis
-
Kondo, T. et al. Small peptides switch the transcriptional activity of Shavenbaby during Drosophila embryogenesis. Science 329, 336-339 (2010).
-
(2010)
Science
, vol.329
, pp. 336-339
-
-
Kondo, T.1
-
83
-
-
84883487014
-
Conserved regulation of cardiac calcium uptake by peptides encoded in small open reading frames
-
Magny, E. G. et al. Conserved regulation of cardiac calcium uptake by peptides encoded in small open reading frames. Science 341, 1116-1120 (2013).
-
(2013)
Science
, vol.341
, pp. 1116-1120
-
-
Magny, E.G.1
-
84
-
-
84922708088
-
A micropeptide encoded by a putative long noncoding RNA regulates muscle performance
-
Anderson, D. M. et al. A micropeptide encoded by a putative long noncoding RNA regulates muscle performance. Cell 160, 595-606 (2015).
-
(2015)
Cell
, vol.160
, pp. 595-606
-
-
Anderson, D.M.1
-
85
-
-
84964313069
-
Long non-coding RNAs as a source of new peptides
-
Ruiz-Orera, J., Messeguer, X., Subirana, J. A. & Alba, M. M. Long non-coding RNAs as a source of new peptides. eLife 3, e03523 (2014).
-
(2014)
ELife
, vol.3
, pp. e03523
-
-
Ruiz-Orera, J.1
Messeguer, X.2
Subirana, J.A.3
Alba, M.M.4
-
86
-
-
77952003905
-
Making sense of antisense: Seemingly noncoding RNAs antisense to the master regulator of Kaposi's sarcoma-associated herpesvirus lytic replication do not regulate that transcript but serve as mRNAs encoding small peptides
-
Xu, Y. & Ganem, D. Making sense of antisense: seemingly noncoding RNAs antisense to the master regulator of Kaposi's sarcoma-associated herpesvirus lytic replication do not regulate that transcript but serve as mRNAs encoding small peptides. J. Virol. 84, 5465-5475 (2010).
-
(2010)
J. Virol.
, vol.84
, pp. 5465-5475
-
-
Xu, Y.1
Ganem, D.2
-
87
-
-
84879969127
-
Ribosome profiling provides evidence that large noncoding RNAs do not encode proteins
-
Guttman, M., Russell, P., Ingolia, N. T., Weissman, J. S. & Lander, E. S. Ribosome profiling provides evidence that large noncoding RNAs do not encode proteins. Cell 154, 240-251 (2013).
-
(2013)
Cell
, vol.154
, pp. 240-251
-
-
Guttman, M.1
Russell, P.2
Ingolia, N.T.3
Weissman, J.S.4
Lander, E.S.5
-
88
-
-
84863988094
-
Proto-genes and de novo gene birth
-
Carvunis, A.-R. et al. Proto-genes and de novo gene birth. Nature 487, 370-374 (2012).
-
(2012)
Nature
, vol.487
, pp. 370-374
-
-
Carvunis, A.-R.1
-
89
-
-
84894177433
-
A bicistronic M AV S transcript highlights a class of truncated variants in antiviral immunity
-
Brubaker, S. W., Gauthier, A. E., Mills, E. W., Ingolia, N. T. & Kagan, J. C. A bicistronic M AV S transcript highlights a class of truncated variants in antiviral immunity. Cell 156, 800-811 (2014).
-
(2014)
Cell
, vol.156
, pp. 800-811
-
-
Brubaker, S.W.1
Gauthier, A.E.2
Mills, E.W.3
Ingolia, N.T.4
Kagan, J.C.5
-
90
-
-
84868324214
-
Observation of dually decoded regions of the human genome using ribosome profiling data
-
Michel, A. M. et al. Observation of dually decoded regions of the human genome using ribosome profiling data. Genome Res. 22, 2219-2229 (2012).
-
(2012)
Genome Res.
, vol.22
, pp. 2219-2229
-
-
Michel, A.M.1
-
91
-
-
84907338120
-
Quantitative analysis of mammalian translation initiation sites by FACS-seq
-
Noderer, W. L. et al. Quantitative analysis of mammalian translation initiation sites by FACS-seq. Mol. Syst. Biol. 10, 748 (2014).
-
(2014)
Mol. Syst. Biol.
, vol.10
, pp. 748
-
-
Noderer, W.L.1
-
92
-
-
84887648341
-
Chemoproteomic discovery of cysteine-containing human short open reading frames
-
Schwaid, A. G. et al. Chemoproteomic discovery of cysteine-containing human short open reading frames. J. Am. Chem. Soc. 135, 16750-16753 (2013).
-
(2013)
J. Am. Chem. Soc.
, vol.135
, pp. 16750-16753
-
-
Schwaid, A.G.1
-
93
-
-
84871325792
-
Peptidomic discovery of short open reading frame-encoded peptides in human cells
-
Slavoff, S. A. et al. Peptidomic discovery of short open reading frame-encoded peptides in human cells. Nat. Chem. Biol. 9, 59-64 (2013).
-
(2013)
Nat. Chem. Biol.
, vol.9
, pp. 59-64
-
-
Slavoff, S.A.1
-
94
-
-
84896778661
-
Discovery of human sORF-encoded polypeptides (SEPs) in cell lines and tissue
-
Ma, J. et al. Discovery of human sORF-encoded polypeptides (SEPs) in cell lines and tissue. J. Proteome Res. 13, 1757-1765 (2014).
-
(2014)
J. Proteome Res.
, vol.13
, pp. 1757-1765
-
-
Ma, J.1
-
95
-
-
84884388412
-
Combining in silico prediction and ribosome profiling in a genome-wide search for novel putatively coding sORFs
-
Crappé, J. et al. Combining in silico prediction and ribosome profiling in a genome-wide search for novel putatively coding sORFs. BMC Genomics 14, 648 (2013).
-
(2013)
BMC Genomics
, vol.14
, pp. 648
-
-
Crappé, J.1
-
96
-
-
84879936964
-
Deep proteome coverage based on ribosome profiling AIDS mass spectrometry-based protein and peptide discovery and provides evidence of alternative translation products and near-cognate translation initiation events
-
Menschaert, G. et al. Deep proteome coverage based on ribosome profiling aids mass spectrometry-based protein and peptide discovery and provides evidence of alternative translation products and near-cognate translation initiation events. Mol. Cell. Proteomics 12, 1780-1790 (2013).
-
(2013)
Mol. Cell. Proteomics
, vol.12
, pp. 1780-1790
-
-
Menschaert, G.1
-
97
-
-
84881529829
-
Direct detection of alternative open reading frames translation products in human significantly expands the proteome
-
Vanderperre, B. et al. Direct detection of alternative open reading frames translation products in human significantly expands the proteome. PLoS ONE 8, e70698 (2013).
-
(2013)
PLoS ONE
, vol.8
, pp. e70698
-
-
Vanderperre, B.1
-
98
-
-
79959446962
-
PhyloCSF: A comparative genomics method to distinguish protein coding and non-coding regions
-
Lin, M. F., Jungreis, I. & Kellis, M. PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions. Bioinformatics 27, i275-i282 (2011).
-
(2011)
Bioinformatics
, vol.27
, pp. i275-i282
-
-
Lin, M.F.1
Jungreis, I.2
Kellis, M.3
-
99
-
-
33644841413
-
An unusual pattern of protein expression and localization of yeast alanyl-tRNA synthetase isoforms
-
Huang, H.-Y., Tang, H.-L., Chao, H.-Y., Yeh, L.-S. & Wang, C.-C. An unusual pattern of protein expression and localization of yeast alanyl-tRNA synthetase isoforms. Mol. Microbiol. 60, 189-198 (2006).
-
(2006)
Mol. Microbiol.
, vol.60
, pp. 189-198
-
-
Huang, H.-Y.1
Tang, H.-L.2
Chao, H.-Y.3
Yeh, L.-S.4
Wang, C.-C.5
-
100
-
-
1842640100
-
Translation initiation from a naturally occurring non-AUG codon in Saccharomyces cerevisiae
-
Chang, K.-J. & Wang, C.-C. Translation initiation from a naturally occurring non-AUG codon in Saccharomyces cerevisiae. J. Biol. Chem. 279, 13778-13785 (2004).
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 13778-13785
-
-
Chang, K.-J.1
Wang, C.-C.2
-
101
-
-
84891798215
-
TISdb: A database for alternative translation initiation in mammalian cells
-
Wan, J. & Qian, S.-B. TISdb: a database for alternative translation initiation in mammalian cells. Nucleic Acids Res. 42, D845-D850 (2014).
-
(2014)
Nucleic Acids Res.
, vol.42
, pp. D845-D850
-
-
Wan, J.1
Qian, S.-B.2
-
102
-
-
84895531783
-
Evolution at two levels of gene expression in yeast
-
Artieri, C. G. & Fraser, H. B. Evolution at two levels of gene expression in yeast. Genome Res. 24, 411-421 (2014).
-
(2014)
Genome Res.
, vol.24
, pp. 411-421
-
-
Artieri, C.G.1
Fraser, H.B.2
-
103
-
-
80055001959
-
Evidence of abundant stop codon readthrough in Drosophila and other metazoa
-
Jungreis, I. et al. Evidence of abundant stop codon readthrough in Drosophila and other metazoa. Genome Res. 21, 2096-2113 (2011).
-
(2011)
Genome Res.
, vol.21
, pp. 2096-2113
-
-
Jungreis, I.1
-
104
-
-
84926148990
-
Peroxisomal lactate dehydrogenase is generated by translational readthrough in mammals
-
Schueren, F. et al. Peroxisomal lactate dehydrogenase is generated by translational readthrough in mammals. eLife 3, e03640 (2014).
-
(2014)
ELife
, vol.3
, pp. e03640
-
-
Schueren, F.1
-
105
-
-
84865070369
-
A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity
-
Jinek, M. et al. A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity. Science 337, 816-821 (2012).
-
(2012)
Science
, vol.337
, pp. 816-821
-
-
Jinek, M.1
-
106
-
-
84920992414
-
Engineering complex synthetic transcriptional programs with CRISPR RNA scaffolds
-
Zalatan, J. G. et al. Engineering complex synthetic transcriptional programs with CRISPR RNA scaffolds. Cell 160, 339-350 (2015).
-
(2015)
Cell
, vol.160
, pp. 339-350
-
-
Zalatan, J.G.1
-
107
-
-
84880571335
-
CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes
-
Gilbert, L. A. et al. CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes. Cell 154, 442-451 (2013).
-
(2013)
Cell
, vol.154
, pp. 442-451
-
-
Gilbert, L.A.1
-
108
-
-
84908352138
-
Genome-scale CRISPR-mediated control of gene repression and activation
-
Gilbert, L. A. et al. Genome-scale CRISPR-mediated control of gene repression and activation. Cell 159, 647-661 (2014).
-
(2014)
Cell
, vol.159
, pp. 647-661
-
-
Gilbert, L.A.1
-
109
-
-
84874687019
-
Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression
-
Qi, L. S. et al. Repurposing CRISPR as an RNA-guided platform for sequence-specific control of gene expression. Cell 152, 1173-1183 (2013).
-
(2013)
Cell
, vol.152
, pp. 1173-1183
-
-
Qi, L.S.1
|