-
1
-
-
23144450198
-
RNALOSS: A web server for RNA locally optimal secondary structures
-
(Web Server issue) 1160143 15980545 10.1093/nar/gki382
-
Clote P RNALOSS: A web server for RNA locally optimal secondary structures Nucleic acids research 2005, 33(Web Server issue):W600-4. 1160143 15980545 10.1093/nar/gki382
-
(2005)
Nucleic Acids Research
, vol.33
-
-
Clote, P.1
-
2
-
-
8744234024
-
Global analysis of transcript and protein levels across the Plasmodium falciparum life cycle
-
525690 10.1101/gr.2523904
-
Le Roch KG Johnson JR Florens L Zhou Y Santrosyan A Grainger M Yan SF Williamson KC Holder AA Carucci DJ Yates JR 3rd Winzeler EA Global analysis of transcript and protein levels across the Plasmodium falciparum life cycle Genome Res 2004, 14(11):2308-2318. 525690 15520293 10.1101/gr.2523904
-
(2004)
Genome Res
, vol.14
, Issue.11
, pp. 2308-2318
-
-
Le Roch, K.G.1
Johnson, J.R.2
Florens, L.3
Zhou, Y.4
Santrosyan, A.5
Grainger, M.6
Yan, S.F.7
Williamson, K.C.8
Holder, A.A.9
Carucci, D.J.10
Yates III, J.R.11
Winzeler, E.A.12
-
3
-
-
0036207282
-
Untranslated regions of mRNAs
-
10.1186/gb-2002-3-3-reviews0004
-
Mignone F Gissi C Liuni S Pesole G Untranslated regions of mRNAs Genome Biol 2002, 3(3):rEviews0004.1-reviews0004.10. 10.1186/ gb-2002-3-3-reviews0004
-
(2002)
Genome Biol
, vol.3
, Issue.3
-
-
Mignone, F.1
Gissi, C.2
Liuni, S.3
Pesole, G.4
-
4
-
-
0034307483
-
Internal ribosome initiation of translation and the control of cell death
-
10.1016/S0168-9525(00)02106-5 11050335
-
Holcik M Sonenberg N Korneluk RG Internal ribosome initiation of translation and the control of cell death Trends Genet 2000, 16:469-473. 10.1016/S0168-9525(00)02106-5 11050335
-
(2000)
Trends Genet
, vol.16
, pp. 469-473
-
-
Holcik, M.1
Sonenberg, N.2
Korneluk, R.G.3
-
5
-
-
0023665902
-
An analysis of 5′-noncoding sequences from 699 vertebrate messenger RNAs
-
306349 10.1093/nar/15.20.8125
-
Kozak M An analysis of 5′-noncoding sequences from 699 vertebrate messenger RNAs Nucleic Acids Res 1987, 15(20):8125-8148. 306349 3313277 10.1093/nar/15.20.8125
-
(1987)
Nucleic Acids Res
, vol.15
, pp. 8125-8148
-
-
Kozak, M.1
-
6
-
-
0034637523
-
In vitro translation of the upstream open reading frame in the mammalian mRNA encoding S-adenosylmethionine decarboxylase
-
10.1074/jbc.M003364200 10829027
-
Raney A Baron AC Mize GJ Law GL Morris DR In vitro translation of the upstream open reading frame in the mammalian mRNA encoding S-adenosylmethionine decarboxylase J Biol Chem 2000, 275(32):24444-24450. 10.1074/jbc.M003364200 10829027
-
(2000)
J Biol Chem
, vol.275
, Issue.32
, pp. 24444-24450
-
-
Raney, A.1
Baron, A.C.2
Mize, G.J.3
Law, G.L.4
Morris, D.R.5
-
7
-
-
0035107115
-
Role of mRNA secondary structure in translational repression of the maize transcriptional activator Lc(1,2)
-
65616 10.1104/pp.125.3.1380
-
Wang L Wessler SR Role of mRNA secondary structure in translational repression of the maize transcriptional activator Lc(1,2) Plant Physiol 2001, 125(3):1380-1387. 65616 11244117 10.1104/pp.125.3.1380
-
(2001)
Plant Physiol
, vol.125
, Issue.3
, pp. 1380-1387
-
-
Wang, L.1
Wessler, S.R.2
-
8
-
-
0038064178
-
The zipper model of translational control: A small upstream ORF is the switch that controls structural remodeling of an mRNA leader
-
10.1016/S0092-8674(03)00345-3 12757712
-
Yaman I Fernandez J Liu H Caprara M Komar AA Koromilas AE Zhou L Snider MD Scheuner D Kaufman RJ Hatzoglou M The zipper model of translational control: A small upstream ORF is the switch that controls structural remodeling of an mRNA leader Cell 2003, 113(4):519-531. 10.1016/ S0092-8674(03)00345-3 12757712
-
(2003)
Cell
, vol.113
, Issue.4
, pp. 519-531
-
-
Yaman, I.1
Fernandez, J.2
Liu, H.3
Caprara, M.4
Komar, A.A.5
Koromilas, A.E.6
Zhou, L.7
Snider, M.D.8
Scheuner, D.9
Kaufman, R.J.10
Hatzoglou, M.11
-
9
-
-
0035862984
-
Characterization of monocot and dicot plant S-adenosyl-l-methionine decarboxylase gene families including identification in the mRNA of a highly conserved pair of upstream overlapping open reading frames
-
1221584 10.1042/0264-6021:3530403
-
Franceschetti M Hanfrey C Scaramagli S Torrigiani P Bagni N Burtin D Michael AJ Characterization of monocot and dicot plant S-adenosyl-l-methionine decarboxylase gene families including identification in the mRNA of a highly conserved pair of upstream overlapping open reading frames Biochem J 2001, 353(Pt 2):403-409. 1221584 11139406 10.1042/0264-6021:3530403
-
(2001)
Biochem J
, vol.353
, Issue.PART 2
, pp. 403-409
-
-
Franceschetti, M.1
Hanfrey, C.2
Scaramagli, S.3
Torrigiani, P.4
Bagni, N.5
Burtin, D.6
Michael, A.J.7
-
10
-
-
0037815066
-
The two upstream open reading frames of oncogene mdm2 have different translational regulatory properties
-
10.1074/jbc.M300316200 12730202
-
Jin X Turcott E Englehardt S Mize GJ Morris DR The two upstream open reading frames of oncogene mdm2 have different translational regulatory properties J Biol Chem 2003, 278(28):25716-25721. 10.1074/jbc.M300316200 12730202
-
(2003)
J Biol Chem
, vol.278
, pp. 25716-25721
-
-
Jin, X.1
Turcott, E.2
Englehardt, S.3
Mize, G.J.4
Morris, D.R.5
-
11
-
-
0029982204
-
Ribosome regulation by the nascent peptide
-
239448 8801438
-
Lovett PS Rogers EJ Ribosome regulation by the nascent peptide Microbiol Rev 1996, 60(2):366-385. 239448 8801438
-
(1996)
Microbiol Rev
, vol.60
, Issue.2
, pp. 366-385
-
-
Lovett, P.S.1
Rogers, E.J.2
-
12
-
-
36148976155
-
Identification of novel conserved peptide uORF homology groups in Arabidopsis and rice reveals ancient eukaryotic origin of select groups and preferential association with transcription factor-encoding genes
-
2075485 17663791 10.1186/1741-7007-5-32
-
Hayden CA Jorgensen RA Identification of novel conserved peptide uORF homology groups in Arabidopsis and rice reveals ancient eukaryotic origin of select groups and preferential association with transcription factor-encoding genes BMC Biol 2007, 5:32. 2075485 17663791 10.1186/ 1741-7007-5-32
-
(2007)
BMC Biol
, vol.5
, pp. 32
-
-
Hayden, C.A.1
Jorgensen, R.A.2
-
13
-
-
33646136452
-
Evidence for conservation and selection of upstream open reading frames suggests probable encoding of bioactive peptides
-
1402274 10.1186/1471-2164-7-16
-
Crowe ML Wang XQ Rothnagel JA Evidence for conservation and selection of upstream open reading frames suggests probable encoding of bioactive peptides BMC Genomics 2006, 7:16. 1402274 16438715 10.1186/1471-2164-7-16
-
(2006)
BMC Genomics
, vol.7
, pp. 16
-
-
Crowe, M.L.1
Wang, X.Q.2
Rothnagel, J.A.3
-
14
-
-
41449119243
-
Comparative genomic analysis of novel conserved peptide upstream open reading frames in Drosophila melanogaster and other dipteran species
-
2276209 18237443 10.1186/1471-2164-9-61
-
Hayden CA Bosco G Comparative genomic analysis of novel conserved peptide upstream open reading frames in Drosophila melanogaster and other dipteran species BMC Genomics 2008, 9:61. 2276209 18237443 10.1186/ 1471-2164-9-61
-
(2008)
BMC Genomics
, vol.9
, pp. 61
-
-
Hayden, C.A.1
Bosco, G.2
-
15
-
-
17044409660
-
uAUG and uORFs in human and rodent 5′untranslated mRNAs
-
10.1016/j.gene.2004.11.041 15777708
-
Iacono M Mignone F Pesole G uAUG and uORFs in human and rodent 5′untranslated mRNAs Gene 2005, 349:97-105. 10.1016/ j.gene.2004.11.041 15777708
-
(2005)
Gene
, vol.349
, pp. 97-105
-
-
Iacono, M.1
Mignone, F.2
Pesole, G.3
-
16
-
-
0035890071
-
Physical evidence for distinct mechanisms of translational control by upstream open reading frames
-
125715 11707416 10.1093/emboj/20.22.6453
-
Gaba A Wang Z Krishnamoorthy T Hinnebusch AG Sachs MS Physical evidence for distinct mechanisms of translational control by upstream open reading frames EMBO J 2001, 20(22):6453-6463. 125715 11707416 10.1093/ emboj/20.22.6453
-
(2001)
EMBO J
, vol.20
, pp. 6453-6463
-
-
Gaba, A.1
Wang, Z.2
Krishnamoorthy, T.3
Hinnebusch, A.G.4
Sachs, M.S.5
-
17
-
-
0029943803
-
Role of an upstream open reading frame in mediating arginine-specific translational control in Neurospora crassa
-
177922 8636015
-
Luo Z Sachs MS Role of an upstream open reading frame in mediating arginine-specific translational control in Neurospora crassa J Bacteriol 1996, 178(8):2172-2177. 177922 8636015
-
(1996)
J Bacteriol
, vol.178
, Issue.8
, pp. 2172-2177
-
-
Luo, Z.1
Sachs, M.S.2
-
18
-
-
0042065288
-
Regulation of fungal gene expression via short open reading frames in the mRNA 5′untranslated region
-
10.1046/j.1365-2958.2003.03622.x 12890013
-
Vilela C McCarthy JE Regulation of fungal gene expression via short open reading frames in the mRNA 5′untranslated region Mol Microbiol 2003, 49(4):859-867. 10.1046/j.1365-2958.2003.03622.x 12890013
-
(2003)
Mol Microbiol
, vol.49
, pp. 859-867
-
-
Vilela, C.1
McCarthy, J.E.2
-
19
-
-
0036797563
-
Control of eukaryotic protein synthesis by upstream open reading frames in the 5′-untranslated region of an mRNA
-
1222879 10.1042/BJ20011706
-
Meijer HA Thomas AA Control of eukaryotic protein synthesis by upstream open reading frames in the 5′-untranslated region of an mRNA Biochem J 2002, 367(Pt 1):1-11. 1222879 12117416 10.1042/BJ20011706
-
(2002)
Biochem J
, vol.367
, Issue.PART 1
, pp. 1-11
-
-
Meijer, H.A.1
Thomas, A.A.2
-
20
-
-
0033838141
-
Termination and peptide release at the upstream open reading frame are required for downstream translation on synthetic shunt-competent mRNA leaders
-
86096 10.1128/MCB.20.17.6212-6223.2000
-
Hemmings-Mieszczak M Hohn T Preiss T Termination and peptide release at the upstream open reading frame are required for downstream translation on synthetic shunt-competent mRNA leaders Mol Cell Biol 2000, 20(17):6212-6223. 86096 10938098 10.1128/MCB.20.17.6212-6223.2000
-
(2000)
Mol Cell Biol
, vol.20
, pp. 6212-6223
-
-
Hemmings-Mieszczak, M.1
Hohn, T.2
Preiss, T.3
-
21
-
-
0034705289
-
The RNA binding protein Pub1 modulates the stability of transcripts containing upstream open reading frames
-
10.1016/S0092-8674(00)80886-7 10892745
-
Ruiz-Echevarria MJ Peltz SW The RNA binding protein Pub1 modulates the stability of transcripts containing upstream open reading frames Cell 2000, 101(7):741-751. 10.1016/S0092-8674(00)80886-7 10892745
-
(2000)
Cell
, vol.101
, Issue.7
, pp. 741-751
-
-
Ruiz-Echevarria, M.J.1
Peltz, S.W.2
-
22
-
-
0033153446
-
Post-termination ribosome interactions with the 5′UTR modulate yeast mRNA stability
-
1171395 10357825 10.1093/emboj/18.11.3139
-
Vilela C Ramirez CV Linz B Rodrigues-Pousada C McCarthy JE Post-termination ribosome interactions with the 5′UTR modulate yeast mRNA stability EMBO J 1999, 18(11):3139-3152. 1171395 10357825 10.1093/emboj/18.11.3139
-
(1999)
EMBO J
, vol.18
, pp. 3139-3152
-
-
Vilela, C.1
Ramirez, C.V.2
Linz, B.3
Rodrigues-Pousada, C.4
McCarthy, J.E.5
-
23
-
-
38449090521
-
The use of fungal in vitro systems for studying translational regulation
-
10.1016/S0076-6879(07)29010-X 17913625
-
Wu C Amrani N Jacobson A Sachs MS The use of fungal in vitro systems for studying translational regulation Methods Enzymol 2007, 429:203-225. 10.1016/S0076-6879(07)29010-X 17913625
-
(2007)
Methods Enzymol
, vol.429
, pp. 203-225
-
-
Wu, C.1
Amrani, N.2
Jacobson, A.3
Sachs, M.S.4
-
24
-
-
33751013736
-
her-2 upstream open reading frame effects on the use of downstream initiation codons
-
1668710 10.1016/j.bbrc.2006.09.128
-
Spevak CC Park EH Geballe AP Pelletier J Sachs MS her-2 upstream open reading frame effects on the use of downstream initiation codons Biochem Biophys Res Commun 2006, 350(4):834-841. 1668710 17045969 10.1016/ j.bbrc.2006.09.128
-
(2006)
Biochem Biophys Res Commun
, vol.350
, pp. 834-841
-
-
Spevak, C.C.1
Park, E.H.2
Geballe, A.P.3
Pelletier, J.4
Sachs, M.S.5
-
25
-
-
50549102501
-
A first step towards learning which uORFs regulate gene expression
-
Selpi Bryant CH Kemp GJL Cvijovic M A first step towards learning which uORFs regulate gene expression J Int Bioinformatics 2006, 3(2):31-44.
-
(2006)
J Int Bioinformatics
, vol.3
, pp. 31-44
-
-
Bryant, C.H.1
Kemp, G.J.L.2
Cvijovic, M.3
-
26
-
-
41449117605
-
uORFs, reinitiation and alternative translation start sites in human mRNAs
-
10.1016/j.febslet.2008.03.014 18358843
-
Kochetov AV Ahmad S Ivanisenko V Volkova OA Kolchanov NA Sarai A uORFs, reinitiation and alternative translation start sites in human mRNAs FEBS Lett 2008, 582(9):1293-1297. 10.1016/j.febslet.2008.03.014 18358843
-
(2008)
FEBS Lett
, vol.582
, Issue.9
, pp. 1293-1297
-
-
Kochetov, A.V.1
Ahmad, S.2
Ivanisenko, V.3
Volkova, O.A.4
Kolchanov, N.A.5
Sarai, A.6
-
27
-
-
19044374467
-
The pivotal roles of the plant S-adenosylmethionine decarboxylase 5′ untranslated leader sequence in regulation of gene expression at the transcriptional and posttranscriptional levels
-
1104182 10.1104/pp.104.056770
-
Hu WW Gong H Pua EC The pivotal roles of the plant S-adenosylmethionine decarboxylase 5′ untranslated leader sequence in regulation of gene expression at the transcriptional and posttranscriptional levels Plant Physiol 2005, 138(1):276-286. 1104182 15821146 10.1104/ pp.104.056770
-
(2005)
Plant Physiol
, vol.138
, pp. 276-286
-
-
Hu, W.W.1
Gong, H.2
Pua, E.C.3
-
28
-
-
34547743197
-
Cloning, functional identification and structural modelling of Vitis vinifera S-adenosylmethionine decarboxylase
-
10.1016/j.jplph.2006.07.009 16982115
-
Tassoni A Franceschetti M Tasco G Casadio R Bagni N Cloning, functional identification and structural modelling of Vitis vinifera S-adenosylmethionine decarboxylase J Plant Physiol 2007, 164(9):1208-1219. 10.1016/j.jplph.2006.07.009 16982115
-
(2007)
J Plant Physiol
, vol.164
, Issue.9
, pp. 1208-1219
-
-
Tassoni, A.1
Franceschetti, M.2
Tasco, G.3
Casadio, R.4
Bagni, N.5
-
29
-
-
0036007727
-
Inhibitory effect of myb7 uORF on downstream gene expression in homologous (rice) and heterologous (tobacco) systems
-
10.1023/A:1013340004348 11855732
-
Locatelli F Magnani E Vighi C Lanzanova C Coraggio I Inhibitory effect of myb7 uORF on downstream gene expression in homologous (rice) and heterologous (tobacco) systems Plant Mol Biol 2002, 48(3):309-318. 10.1023/A:1013340004348 11855732
-
(2002)
Plant Mol Biol
, vol.48
, Issue.3
, pp. 309-318
-
-
Locatelli, F.1
Magnani, E.2
Vighi, C.3
Lanzanova, C.4
Coraggio, I.5
-
30
-
-
0027343819
-
Translation of the mRNA of the maize transcriptional activator Opaque-2 is inhibited by upstream open reading frames present in the leader sequence
-
160251 8439744 10.1105/tpc.5.1.65
-
Lohmer S Maddaloni M Motto M Salamini F Thompson RD Translation of the mRNA of the maize transcriptional activator Opaque-2 is inhibited by upstream open reading frames present in the leader sequence Plant Cell 1993, 5(1):65-73. 160251 8439744 10.1105/tpc.5.1.65
-
(1993)
Plant Cell
, vol.5
, Issue.1
, pp. 65-73
-
-
Lohmer, S.1
Maddaloni, M.2
Motto, M.3
Salamini, F.4
Thompson, R.D.5
-
31
-
-
0032191297
-
Inefficient reinitiation is responsible for upstream open reading frame-mediated translational repression of the maize R gene
-
143946 9761799 10.1105/tpc.10.10.1733
-
Wang L Wessler SR Inefficient reinitiation is responsible for upstream open reading frame-mediated translational repression of the maize R gene Plant Cell 1998, 10(10):1733-1746. 143946 9761799 10.1105/tpc.10.10.1733
-
(1998)
Plant Cell
, vol.10
, pp. 1733-1746
-
-
Wang, L.1
Wessler, S.R.2
-
32
-
-
3142740256
-
A conserved upstream open reading frame mediates sucrose-induced repression of translation
-
514156 10.1105/tpc.019349
-
Wiese A Elzinga N Wobbes B Smeekens S A conserved upstream open reading frame mediates sucrose-induced repression of translation Plant Cell 2004, 16(7):1717-1729. 514156 15208401 10.1105/tpc.019349
-
(2004)
Plant Cell
, vol.16
, pp. 1717-1729
-
-
Wiese, A.1
Elzinga, N.2
Wobbes, B.3
Smeekens, S.4
-
33
-
-
3442894514
-
The 5′ UTR negatively regulates quantitative and spatial expression from the ABI3 promoter
-
10.1023/B:PLAN.0000028767.06820.34 15159632
-
Ng DW Chandrasekharan MB Hall TC The 5′ UTR negatively regulates quantitative and spatial expression from the ABI3 promoter Plant Mol Biol 2004, 54(1):25-38. 10.1023/B:PLAN.0000028767.06820.34 15159632
-
(2004)
Plant Mol Biol
, vol.54
, Issue.1
, pp. 25-38
-
-
Ng, D.W.1
Chandrasekharan, M.B.2
Hall, T.C.3
-
34
-
-
33746682541
-
Identification of a dehydration and ABA-responsive promoter regulon and isolation of corresponding DNA binding proteins for the group 4 LEA gene CpC2 from C. plantagineum
-
10.1007/s11103-006-0038-3 16897481
-
Ditzer A Bartels D Identification of a dehydration and ABA-responsive promoter regulon and isolation of corresponding DNA binding proteins for the group 4 LEA gene CpC2 from C. plantagineum Plant Mol Biol 2006, 61(4-5):643-663. 10.1007/s11103-006-0038-3 16897481
-
(2006)
Plant Mol Biol
, vol.61
, Issue.4-5
, pp. 643-663
-
-
Ditzer, A.1
Bartels, D.2
-
35
-
-
33645973556
-
The Arabidopsis STV1 protein, responsible for translation reinitiation, is required for auxin-mediated gynoecium patterning
-
1276021 10.1105/tpc.105.036533
-
Nishimura T Wada T Yamamoto KT Okada K The Arabidopsis STV1 protein, responsible for translation reinitiation, is required for auxin-mediated gynoecium patterning Plant Cell 2005, 17(11):2940-2953. 1276021 16227452 10.1105/tpc.105.036533
-
(2005)
Plant Cell
, vol.17
, Issue.11
, pp. 2940-2953
-
-
Nishimura, T.1
Wada, T.2
Yamamoto, K.T.3
Okada, K.4
-
36
-
-
0034736511
-
Analysis of oligonucleotide AUG start codon context in eukaryotic mRNAs
-
10.1016/S0378-1119(00)00471-6 11164040
-
Pesole G Gissi C Grillo G Licciulli F Liuni S Saccone C Analysis of oligonucleotide AUG start codon context in eukaryotic mRNAs Gene 2000, 261(1):85-91. 10.1016/S0378-1119(00)00471-6 11164040
-
(2000)
Gene
, vol.261
, Issue.1
, pp. 85-91
-
-
Pesole, G.1
Gissi, C.2
Grillo, G.3
Licciulli, F.4
Liuni, S.5
Saccone, C.6
-
37
-
-
33847664259
-
WeederH: An algorithm for finding conserved regulatory motifs and regions in homologous sequences
-
1803799 10.1186/1471-2105-8-46
-
Pavesi G Zambelli F Pesole G WeederH: An algorithm for finding conserved regulatory motifs and regions in homologous sequences BMC Bioinformatics 2007, 8:46. 1803799 17286865 10.1186/1471-2105-8-46
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 46
-
-
Pavesi, G.1
Zambelli, F.2
Pesole, G.3
-
38
-
-
0037023384
-
A draft sequence of the rice genome (Oryza sativa L. ssp. indica)
-
10.1126/science.1068037 11935017
-
Yu J Hu S Wang J Wong GK Li S Liu B Deng Y Dai L Zhou Y Zhang X Cao M Liu J Sun J Tang J Chen Y Huang X Lin W Ye C Tong W Cong L Geng J Han Y Li L Li W Hu G Huang X Li W Li J Liu Z Li L Liu J Qi Q Liu J Li L Li T Wang X Lu H Wu T Zhu M Ni P Han H Dong W Ren X Feng X Cui P Li X Wang H Xu X Zhai W Xu Z Zhang J He S Zhang J Xu J Zhang K Zheng X Dong J Zeng W Tao L Ye J Tan J Ren X Chen X He J Liu D Tian W Tian C Xia H Bao Q Li G Gao H Cao T Wang J Zhao W Li P Chen W Wang X Zhang Y Hu J Wang J Liu S Yang J Zhang G Xiong Y Li Z Mao L Zhou C Zhu Z Chen R Hao B Zheng W Chen S Guo W Li G Liu S Tao M Wang J Zhu L Yuan L Yang H A draft sequence of the rice genome (Oryza sativa L. ssp. indica) Science 2002, 296(5565):79-92. 10.1126/science.1068037 11935017
-
(2002)
Science
, vol.296
, Issue.5565
, pp. 79-92
-
-
Yu, J.1
Hu, S.2
Wang, J.3
Wong, G.K.4
Li, S.5
Liu, B.6
Deng, Y.7
Dai, L.8
Zhou, Y.9
Zhang, X.10
Cao, M.11
Liu, J.12
Sun, J.13
Tang, J.14
Chen, Y.15
Huang, X.16
Lin, W.17
Ye, C.18
Tong, W.19
Cong, L.20
Geng, J.21
Han, Y.22
Li, L.23
Li, W.24
Hu, G.25
Huang, X.26
Li, W.27
Li, J.28
Liu, Z.29
Li, L.30
Liu, J.31
Qi, Q.32
Liu, J.33
Li, L.34
Li, T.35
Wang, X.36
Lu, H.37
Wu, T.38
Zhu, M.39
Ni, P.40
Han, H.41
Dong, W.42
Ren, X.43
Feng, X.44
Cui, P.45
Li, X.46
Wang, H.47
Xu, X.48
Zhai, W.49
Xu, Z.50
Zhang, J.51
He, S.52
Zhang, J.53
Xu, J.54
Zhang, K.55
Zheng, X.56
Dong, J.57
Zeng, W.58
Tao, L.59
Ye, J.60
Tan, J.61
Ren, X.62
Chen, X.63
He, J.64
Liu, D.65
Tian, W.66
Tian, C.67
Xia, H.68
Bao, Q.69
Li, G.70
Gao, H.71
Cao, T.72
Wang, J.73
Zhao, W.74
Li, P.75
Chen, W.76
Wang, X.77
Zhang, Y.78
Hu, J.79
Wang, J.80
Liu, S.81
Yang, J.82
Zhang, G.83
Xiong, Y.84
Li, Z.85
Mao, L.86
Zhou, C.87
Zhu, Z.88
Chen, R.89
Hao, B.90
Zheng, W.91
Chen, S.92
Guo, W.93
Li, G.94
Liu, S.95
Tao, M.96
Wang, J.97
Zhu, L.98
Yuan, L.99
Yang, H.100
more..
-
39
-
-
0037624063
-
Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice
-
10.1126/science.1081288 12869764
-
Kikuchi S Satoh K Nagata T Kawagashira N Doi K Kishimoto N Yazaki J Ishikawa M Yamada H Ooka H Hotta I Kojima K Namiki T Ohneda E Yahagi W Suzuki K Li CJ Ohtsuki K Shishiki T Otomo Y Murakami K Iida Y Sugano S Fujimura T Suzuki Y Tsunoda Y Kurosaki T Kodama T Masuda H Kobayashi M Xie Q Lu M Narikawa R Sugiyama A Mizuno K Yokomizo S Niikura J Ikeda R Ishibiki J Kawamata M Yoshimura A Miura J Kusumegi T Oka M Ryu R Ueda M Matsubara K Kawai J Carninci P Adachi J Aizawa K Arakawa T Fukuda S Hara A Hashizume W Hayatsu N Imotani K Ishii Y Itoh M Kagawa I Kondo S Konno H Miyazaki A Osato N Ota Y Saito R Sasaki D Sato K Shibata K Shinagawa A Shiraki T Yoshino M Hayashizaki Y Yasunishi A Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice Science 2003, 301(5631):376-379. 10.1126/science.1081288 12869764
-
(2003)
Science
, vol.301
, Issue.5631
, pp. 376-379
-
-
Kikuchi, S.1
Satoh, K.2
Nagata, T.3
Kawagashira, N.4
Doi, K.5
Kishimoto, N.6
Yazaki, J.7
Ishikawa, M.8
Yamada, H.9
Ooka, H.10
Hotta, I.11
Kojima, K.12
Namiki, T.13
Ohneda, E.14
Yahagi, W.15
Suzuki, K.16
Li, C.J.17
Ohtsuki, K.18
Shishiki, T.19
Otomo, Y.20
Murakami, K.21
Iida, Y.22
Sugano, S.23
Fujimura, T.24
Suzuki, Y.25
Tsunoda, Y.26
Kurosaki, T.27
Kodama, T.28
Masuda, H.29
Kobayashi, M.30
Xie, Q.31
Lu, M.32
Narikawa, R.33
Sugiyama, A.34
Mizuno, K.35
Yokomizo, S.36
Niikura, J.37
Ikeda, R.38
Ishibiki, J.39
Kawamata, M.40
Yoshimura, A.41
Miura, J.42
Kusumegi, T.43
Oka, M.44
Ryu, R.45
Ueda, M.46
Matsubara, K.47
Kawai, J.48
Carninci, P.49
Adachi, J.50
Aizawa, K.51
Arakawa, T.52
Fukuda, S.53
Hara, A.54
Hashizume, W.55
Hayatsu, N.56
Imotani, K.57
Ishii, Y.58
Itoh, M.59
Kagawa, I.60
Kondo, S.61
Konno, H.62
Miyazaki, A.63
Osato, N.64
Ota, Y.65
Saito, R.66
Sasaki, D.67
Sato, K.68
Shibata, K.69
Shinagawa, A.70
Shiraki, T.71
Yoshino, M.72
Hayashizaki, Y.73
Yasunishi, A.74
more..
-
40
-
-
0141942053
-
Construction and characterization of a half million clone BAC library of durum wheat (Triticum turgidum ssp. durum)
-
10.1007/s00122-003-1331-z 12830387
-
Cenci A Chantret N Kong X Gu Y Anderson OD Fahima T Distelfeld A Dubcovsky J Construction and characterization of a half million clone BAC library of durum wheat (Triticum turgidum ssp. durum) Theor Appl Genet 2003, 107(5):931-939. 10.1007/s00122-003-1331-z 12830387
-
(2003)
Theor Appl Genet
, vol.107
, pp. 931-939
-
-
Cenci, A.1
Chantret, N.2
Kong, X.3
Gu, Y.4
Anderson, O.D.5
Fahima, T.6
Distelfeld, A.7
Dubcovsky, J.8
-
41
-
-
0035895505
-
The sequence of the human genome
-
10.1126/science.1058040 11181995
-
Venter JC Adams MD Myers EW Li PW Mural RJ Sutton GG Smith HO Yandell M Evans CA Holt RA Gocayne JD Amanatides P Ballew RM Huson DH Wortman JR Zhang Q Kodira CD Zheng XH Chen L Skupski M Subramanian G Thomas PD Zhang J Gabor Miklos GL Nelson C Broder S Clark AG Nadeau J McKusick VA Zinder N Levine AJ Roberts RJ Simon M Slayman C Hunkapiller M Bolanos R Delcher A Dew I Fasulo D Flanigan M Florea L Halpern A Hannenhalli S Kravitz S Levy S Mobarry C Reinert K Remington K Abu-Threideh J Beasley E Biddick K Bonazzi V Brandon R Cargill M Chandramouliswaran I Charlab R Chaturvedi K Deng Z Di Francesco V Dunn P Eilbeck K Evangelista C Gabrielian AE Gan W Ge W Gong F Gu Z Guan P Heiman TJ Higgins ME Ji RR Ke Z Ketchum KA Lai Z Lei Y Li Z Li J Liang Y Lin X Lu F Merkulov GV Milshina N Moore HM Naik AK Narayan VA Neelam B Nusskern D Rusch DB Salzberg S Shao W Shue B Sun J Wang Z Wang A Wang X Wang J Wei M Wides R Xiao C et al. The sequence of the human genome Science 2001, 291(5507):1304-1351. 10.1126/science.1058040 11181995
-
(2001)
Science
, vol.291
, Issue.5507
, pp. 1304-1351
-
-
Venter, J.C.1
Adams, M.D.2
Myers, E.W.3
Li, P.W.4
Mural, R.J.5
Sutton, G.G.6
Smith, H.O.7
Yandell, M.8
Evans, C.A.9
Holt, R.A.10
Gocayne, J.D.11
Amanatides, P.12
Ballew, R.M.13
Huson, D.H.14
Wortman, J.R.15
Zhang, Q.16
Kodira, C.D.17
Zheng, X.H.18
Chen, L.19
Skupski, M.20
Subramanian, G.21
Thomas, P.D.22
Zhang, J.23
Gabor Miklos, G.L.24
Nelson, C.25
Broder, S.26
Clark, A.G.27
Nadeau, J.28
McKusick, V.A.29
Zinder, N.30
Levine, A.J.31
Roberts, R.J.32
Simon, M.33
Slayman, C.34
Hunkapiller, M.35
Bolanos, R.36
Delcher, A.37
Dew, I.38
Fasulo, D.39
Flanigan, M.40
Florea, L.41
Halpern, A.42
Hannenhalli, S.43
Kravitz, S.44
Levy, S.45
Mobarry, C.46
Reinert, K.47
Remington, K.48
Abu-Threideh, J.49
Beasley, E.50
Biddick, K.51
Bonazzi, V.52
Brandon, R.53
Cargill, M.54
Chandramouliswaran, I.55
Charlab, R.56
Chaturvedi, K.57
Deng, Z.58
Di Francesco, V.59
Dunn, P.60
Eilbeck, K.61
Evangelista, C.62
Gabrielian, A.E.63
Gan, W.64
Ge, W.65
Gong, F.66
Gu, Z.67
Guan, P.68
Heiman, T.J.69
Higgins, M.E.70
Ji, R.R.71
Ke, Z.72
Ketchum, K.A.73
Lai, Z.74
Lei, Y.75
Li, Z.76
Li, J.77
Liang, Y.78
Lin, X.79
Lu, F.80
Merkulov, G.V.81
Milshina, N.82
Moore, H.M.83
Naik, A.K.84
Narayan, V.A.85
Neelam, B.86
Nusskern, D.87
Rusch, D.B.88
Salzberg, S.89
Shao, W.90
Shue, B.91
Sun, J.92
Wang, Z.93
Wang, A.94
Wang, X.95
Wang, J.96
Wei, M.97
Wides, R.98
Xiao, C.99
more..
-
43
-
-
0032491377
-
Predicting function: From genes to genomes and back
-
10.1006/jmbi.1998.2144 9790834
-
Bork P Dandekar T Diaz-Lazcoz Y Eisenhaber F Huynen M Yuan Y Predicting function: From genes to genomes and back J Mol Biol 1998, 283(4):707-725. 10.1006/jmbi.1998.2144 9790834
-
(1998)
J Mol Biol
, vol.283
, Issue.4
, pp. 707-725
-
-
Bork, P.1
Dandekar, T.2
Diaz-Lazcoz, Y.3
Eisenhaber, F.4
Huynen, M.5
Yuan, Y.6
-
44
-
-
0030660581
-
A genomic perspective on protein families
-
10.1126/science.278.5338.631 9381173
-
Tatusov RL Koonin EV Lipman DJ A genomic perspective on protein families Science 1997, 278(5338):631-637. 10.1126/science.278.5338.631 9381173
-
(1997)
Science
, vol.278
, Issue.5338
, pp. 631-637
-
-
Tatusov, R.L.1
Koonin, E.V.2
Lipman, D.J.3
-
45
-
-
0027968068
-
CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
-
308517 10.1093/nar/22.22.4673
-
Thompson JD Higgins DG Gibson TJ CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Nucleic Acids Res 1994, 22(22):4673-4680. 308517 7984417 10.1093/nar/22.22.4673
-
(1994)
Nucleic Acids Res
, vol.22
, pp. 4673-4680
-
-
Thompson, J.D.1
Higgins, D.G.2
Gibson, T.J.3
-
46
-
-
0037113965
-
Abrogation of upstream open reading frame-mediated translational control of a plant S-adenosylmethionine decarboxylase results in polyamine disruption and growth perturbations
-
10.1074/jbc.M206161200 12205086
-
Hanfrey C Franceschetti M Mayer MJ Illingworth C Michael AJ Abrogation of upstream open reading frame-mediated translational control of a plant S-adenosylmethionine decarboxylase results in polyamine disruption and growth perturbations J Biol Chem 2002, 277(46):44131-44139. 10.1074/ jbc.M206161200 12205086
-
(2002)
J Biol Chem
, vol.277
, pp. 44131-44139
-
-
Hanfrey, C.1
Franceschetti, M.2
Mayer, M.J.3
Illingworth, C.4
Michael, A.J.5
-
47
-
-
0031460023
-
Context sequences of translation initiation codon in plants
-
10.1023/A:1005816823636 9426620
-
Joshi CP Zhou H Huang X Chiang VL Context sequences of translation initiation codon in plants Plant Mol Biol 1997, 35(6):993-1001. 10.1023/ A:1005816823636 9426620
-
(1997)
Plant Mol Biol
, vol.35
, Issue.6
, pp. 993-1001
-
-
Joshi, C.P.1
Zhou, H.2
Huang, X.3
Chiang, V.L.4
-
48
-
-
2542589355
-
5′-untranslated regions with multiple upstream AUG codons can support low-level translation via leaky scanning and reinitiation
-
390293 10.1093/nar/gkh305
-
Wang XQ Rothnagel JA 5′-untranslated regions with multiple upstream AUG codoncan support low-level translation via leaky scanning and reinitiation Nucleic Acids Res 2004, 32(4):1382-1391. 390293 14990743 10.1093/nar/gkh305
-
(2004)
Nucleic Acids Res
, vol.32
, Issue.4
, pp. 1382-1391
-
-
Wang, X.Q.1
Rothnagel, J.A.2
-
49
-
-
19944433283
-
Ribosome stalling regulates IRES-mediated translation in eukaryotes, a parallel to prokaryotic attenuation
-
10.1016/j.molcel.2004.12.024 15694341
-
Fernandez J Yaman I Huang C Liu H Lopez AB Komar AA Caprara MG Merrick WC Snider MD Kaufman RJ Lamers WH Hatzoglou M Ribosome stalling regulates IRES-mediated translation in eukaryotes, a parallel to prokaryotic attenuation Mol Cell 2005, 17(3):405-416. 10.1016/ j.molcel.2004.12.024 15694341
-
(2005)
Mol Cell
, vol.17
, Issue.3
, pp. 405-416
-
-
Fernandez, J.1
Yaman, I.2
Huang, C.3
Liu, H.4
Lopez, A.B.5
Komar, A.A.6
Caprara, M.G.7
Merrick, W.C.8
Snider, M.D.9
Kaufman, R.J.10
Lamers, W.H.11
Hatzoglou, M.12
-
50
-
-
0037901828
-
Ribosomes stalling on uORF1 in the Xenopus Cx41 5′ UTR inhibit downstream translation initiation
-
162333 10.1093/nar/gkg429
-
Meijer HA Thomas AA Ribosomes stalling on uORF1 in the Xenopus Cx41 5′ UTR inhibit downstream translation initiation Nucleic Acids Res 2003, 31(12):3174-3184. 162333 12799445 10.1093/nar/gkg429
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.12
, pp. 3174-3184
-
-
Meijer, H.A.1
Thomas, A.A.2
-
51
-
-
33747682140
-
Translation of 'rare' codons in a cell-free protein synthesis system from Escherichia coli
-
10.1007/s10969-006-9007-y 16703415
-
Chumpolkulwong N Sakamoto K Hayashi A Iraha F Shinya N Matsuda N Kiga D Urushibata A Shirouzu M Oki K Kigawa T Yokoyama S Translation of 'rare' codons in a cell-free protein synthesis system from Escherichia coli J Struct Funct Genomics 2006, 7(1):31-36. 10.1007/s10969-006-9007-y 16703415
-
(2006)
J Struct Funct Genomics
, vol.7
, Issue.1
, pp. 31-36
-
-
Chumpolkulwong, N.1
Sakamoto, K.2
Hayashi, A.3
Iraha, F.4
Shinya, N.5
Matsuda, N.6
Kiga, D.7
Urushibata, A.8
Shirouzu, M.9
Oki, K.10
Kigawa, T.11
Yokoyama, S.12
-
52
-
-
33749322772
-
Inhibition of translation by consecutive rare leucine codons in E. coli: Absence of effect of varying mRNA stability
-
10.3727/000000006783991881 17017124
-
Shu P Dai H Gao W Goldman E Inhibition of translation by consecutive rare leucine codons in E. coli: Absence of effect of varying mRNA stability Gene Expr 2006, 13(2):97-106. 10.3727/000000006783991881 17017124
-
(2006)
Gene Expr
, vol.13
, Issue.2
, pp. 97-106
-
-
Shu, P.1
Dai, H.2
Gao, W.3
Goldman, E.4
-
53
-
-
34548659178
-
Translational regulation of human methionine synthase by upstream open reading frames
-
17683808
-
Col B Oltean S Banerjee R Translational regulation of human methionine synthase by upstream open reading frames Biochim Biophys Acta 2007, 1769(9-10):532-540. 17683808
-
(2007)
Biochim Biophys Acta
, vol.1769
, Issue.9-10
, pp. 532-540
-
-
Col, B.1
Oltean, S.2
Banerjee, R.3
-
54
-
-
40749151132
-
A novel mechanism for the control of translation initiation by amino acids, mediated by phosphorylation of eukaryotic initiation factor eIF2B
-
2258763 10.1128/MCB.01512-07
-
Wang X Proud CG A novel mechanism for the control of translation initiation by amino acids, mediated by phosphorylation of eukaryotic initiation factor eIF2B Mol Cell Biol 2008, 28(5):1429-1442. 2258763 18160716 10.1128/MCB.01512-07
-
(2008)
Mol Cell Biol
, vol.28
, Issue.5
, pp. 1429-1442
-
-
Wang, X.1
Proud, C.G.2
-
55
-
-
28344450939
-
Arginine-rich motifs present multiple interfaces for specific binding by RNA
-
1370873 10.1261/rna.2167605
-
Bayer TS Booth LN Knudsen SM Ellington AD Arginine-rich motifs present multiple interfaces for specific binding by RNA Rna 2005, 11(12):1848-1857. 1370873 16314457 10.1261/rna.2167605
-
(2005)
Rna
, vol.11
, Issue.12
, pp. 1848-1857
-
-
Bayer, T.S.1
Booth, L.N.2
Knudsen, S.M.3
Ellington, A.D.4
-
56
-
-
15944400722
-
Expression of AtMHX, an Arabidopsis vacuolar metal transporter, is repressed by the 5′ untranslated region of its gene
-
10.1093/jxb/eri097 15710632
-
David-Assael O Saul H Saul V Mizrachy-Dagri T Berezin I Brook E Shaul O Expression of AtMHX, an Arabidopsis vacuolar metal transporter, is repressed by the 5′ untranslated region of its gene J Exp Bot 2005, 56(413):1039-1047. 10.1093/jxb/eri097 15710632
-
(2005)
J Exp Bot
, vol.56
, Issue.413
, pp. 1039-1047
-
-
David-Assael, O.1
Saul, H.2
Saul, V.3
Mizrachy-Dagri, T.4
Berezin, I.5
Brook, E.6
Shaul, O.7
-
57
-
-
33749037973
-
Posttranscriptional regulation by the upstream open reading frame of the phosphoethanolamine N-methyltransferase gene
-
10.1271/bbb.60309 16960350
-
Tabuchi T Okada T Azuma T Nanmori T Yasuda T Posttranscriptional regulation by the upstream open reading frame of the phosphoethanolamine N-methyltransferase gene Biosci Biotechnol Biochem 2006, 70(9):2330-2334. 10.1271/bbb.60309 16960350
-
(2006)
Biosci Biotechnol Biochem
, vol.70
, Issue.9
, pp. 2330-2334
-
-
Tabuchi, T.1
Okada, T.2
Azuma, T.3
Nanmori, T.4
Yasuda, T.5
-
58
-
-
33750381409
-
The dwarf phenotype of the Arabidopsis acl5 mutant is suppressed by a mutation in an upstream ORF of a bHLH gene
-
10.1242/dev.02535 16936072
-
Imai A Hanzawa Y Komura M Yamamoto KT Komeda Y Takahashi T The dwarf phenotype of the Arabidopsis acl5 mutant is suppressed by a mutation in an upstream ORF of a bHLH gene Development 2006, 133(18):3575-3585. 10.1242/dev.02535 16936072
-
(2006)
Development
, vol.133
, Issue.18
, pp. 3575-3585
-
-
Imai, A.1
Hanzawa, Y.2
Komura, M.3
Yamamoto, K.T.4
Komeda, Y.5
Takahashi, T.6
-
59
-
-
28244500966
-
A dual upstream open reading frame-based autoregulatory circuit controlling polyamine-responsive translation
-
10.1074/jbc.M509340200 16176926
-
Hanfrey C Elliott KA Franceschetti M Mayer MJ Illingworth C Michael AJ A dual upstream open reading frame-based autoregulatory circuit controlling polyamine-responsive translation J Biol Chem 2005, 280(47):39229-39237. 10.1074/jbc.M509340200 16176926
-
(2005)
J Biol Chem
, vol.280
, Issue.47
, pp. 39229-39237
-
-
Hanfrey, C.1
Elliott, K.A.2
Franceschetti, M.3
Mayer, M.J.4
Illingworth, C.5
Michael, A.J.6
-
60
-
-
20044371793
-
Leaky ribosomal scanning in mammalian genomes: Significance of histone H4 alternative translation in vivo
-
552952 10.1093/nar/gki248
-
Smith E Meyerrose TE Kohler T Namdar-Attar M Bab N Lahat O Noh T Li J Karaman MW Hacia JG Chen TT Nolta JA Muller R Bab I Frenkel B Leaky ribosomal scanning in mammalian genomes: Significance of histone H4 alternative translation in vivo Nucleic Acids Res 2005, 33(4):1298-1308. 552952 15741183 10.1093/nar/gki248
-
(2005)
Nucleic Acids Res
, vol.33
, Issue.4
, pp. 1298-1308
-
-
Smith, E.1
Meyerrose, T.E.2
Kohler, T.3
Namdar-Attar, M.4
Bab, N.5
Lahat, O.6
Noh, T.7
Li, J.8
Karaman, M.W.9
Hacia, J.G.10
Chen, T.T.11
Nolta, J.A.12
Muller, R.13
Bab, I.14
Frenkel, B.15
-
61
-
-
0033588103
-
Translational control by an upstream open reading frame in the HER-2/neu transcript
-
10.1074/jbc.274.34.24335 10446211
-
Child SJ Miller MK Geballe AP Translational control by an upstream open reading frame in the HER-2/neu transcript J Biol Chem 1999, 274(34):24335-24341. 10.1074/jbc.274.34.24335 10446211
-
(1999)
J Biol Chem
, vol.274
, Issue.34
, pp. 24335-24341
-
-
Child, S.J.1
Miller, M.K.2
Geballe, A.P.3
-
62
-
-
2142738304
-
WebLogo: A sequence logo generator
-
419797 10.1101/gr.849004
-
Crooks GE Hon G Chandonia JM Brenner SE WebLogo: A sequence logo generator Genome Res 2004, 14(6):1188-1190. 419797 15173120 10.1101/ gr.849004
-
(2004)
Genome Res
, vol.14
, Issue.6
, pp. 1188-1190
-
-
Crooks, G.E.1
Hon, G.2
Chandonia, J.M.3
Brenner, S.E.4
|