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Full-length direct RNA sequencing reveals extensive remodeling of RNA expression, processing and modification in aging Caenorhabditis elegans. Nucleic Acids Res. 2024 Dec 11; 52(22):13896-13913.
Schiksnis EC, Nicastro IA, Pasquinelli AE. PMID: 39558169; PMCID: PMC11662692.
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PubMed Mentions:
1 Fields:
Translation:
AnimalsCells
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Full-length direct RNA sequencing reveals extensive remodeling of RNA expression, processing and modification in aging Caenorhabditis elegans. bioRxiv. 2024 Jun 22.
Schiksnis EC, Nicastro IA, Pasquinelli AE. PMID: 38948813; PMCID: PMC11213008.
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PubMed Mentions:
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Expression, not sequence, distinguishes miR-238 from its miR-239ab sister miRNAs in promoting longevity in Caenorhabditis elegans. PLoS Genet. 2023 Nov; 19(11):e1011055.
Chipman LB, Luc S, Nicastro IA, Hulahan JJ, Dann DC, Bodas DM, Pasquinelli AE. PMID: 38011256; PMCID: PMC10703411.
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PubMed Mentions: Fields:
Translation:
HumansAnimals
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Nuclear and cytoplasmic poly(A) binding proteins (PABPs) favor distinct transcripts and isoforms. Nucleic Acids Res. 2022 05 06; 50(8):4685-4702.
Nicholson-Shaw AL, Kofman ER, Yeo GW, Pasquinelli AE. PMID: 35438785; PMCID: PMC9071453.
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PubMed Mentions:
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New Roles for MicroRNAs in Old Worms. Front Aging. 2022; 3:871226.
Elder CR, Pasquinelli AE. PMID: 35821862; PMCID: PMC9261348.
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PubMed Mentions:
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Caenorhabditis elegans transposable elements harbor diverse transcription factor DNA-binding sites. G3 (Bethesda). 2022 03 04; 12(3).
Garrigues JM, Pasquinelli AE. PMID: 35088854; PMCID: PMC8896005.
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PubMed Mentions:
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Recovery from heat shock requires the microRNA pathway in Caenorhabditis elegans. PLoS Genet. 2021 08; 17(8):e1009734.
Pagliuso DC, Bodas DM, Pasquinelli AE. PMID: 34351906; PMCID: PMC8370650.
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PubMed Mentions:
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Auxin-independent depletion of degron-tagged proteins by TIR1. MicroPubl Biol. 2020 Jan 28; 2020.
Schiksnis E, Nicholson A, Modena M, Pule M, Arribere J, Pasquinelli A. PMID: 32550513; PMCID: PMC7252403.
View in:
PubMed Mentions:
13
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Diversification of the Caenorhabditis heat shock response by Helitron transposable elements. Elife. 2019 12 11; 8.
Garrigues JM, Tsu BV, Daugherty MD, Pasquinelli AE. PMID: 31825311; PMCID: PMC6927752.
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PubMed Mentions:
21 Fields:
Translation:
AnimalsCells
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Remodeling of the Caenorhabditis elegans non-coding RNA transcriptome by heat shock. Nucleic Acids Res. 2019 10 10; 47(18):9829-9841.
Schreiner WP, Pagliuso DC, Garrigues JM, Chen JS, Aalto AP, Pasquinelli AE. PMID: 31396626; PMCID: PMC6765114.
View in:
PubMed Mentions:
21 Fields:
Translation:
AnimalsCells
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Todos Santos small RNA symposium. RNA Biol. 2019 11; 16(11):1526-1530.
Winkenbach LP, Doser R, Reed KJ, Pasquinelli AE, Phillips CM, Claycomb JM. PMID: 31397621; PMCID: PMC6779373.
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PubMed Mentions: Fields:
Translation:
Animals
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RNA interference may result in unexpected phenotypes in Caenorhabditis elegans. Nucleic Acids Res. 2019 05 07; 47(8):3957-3969.
De-Souza EA, Camara H, Salgueiro WG, Moro RP, Knittel TL, Tonon G, Pinto S, Pinca APF, Antebi A, Pasquinelli AE, Massirer KB, Mori MA. PMID: 30838421; PMCID: PMC6486631.
View in:
PubMed Mentions:
3 Fields:
Translation:
AnimalsCells
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miRNA Targeting: Growing beyond the Seed. Trends Genet. 2019 03; 35(3):215-222.
Chipman LB, Pasquinelli AE. PMID: 30638669; PMCID: PMC7083087.
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PubMed Mentions:
126 Fields:
Translation:
HumansCells
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Tales of Detailed Poly(A) Tails. Trends Cell Biol. 2019 03; 29(3):191-200.
Nicholson AL, Pasquinelli AE. PMID: 30503240; PMCID: PMC7083203.
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PubMed Mentions:
95 Fields:
Translation:
HumansAnimalsCells
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Opposing roles of microRNA Argonautes during Caenorhabditis elegans aging. PLoS Genet. 2018 06; 14(6):e1007379.
Aalto AP, Nicastro IA, Broughton JP, Chipman LB, Schreiner WP, Chen JS, Pasquinelli AE. PMID: 29927939; PMCID: PMC6013023.
View in:
PubMed Mentions:
36 Fields:
Translation:
AnimalsCells
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A rADAR defense against RNAi. Genes Dev. 2018 02 01; 32(3-4):199-201.
Pasquinelli AE. PMID: 29491134; PMCID: PMC5859962.
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PubMed Mentions:
1 Fields:
Translation:
AnimalsCells
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Detection of microRNA-Target Interactions by Chimera PCR (ChimP). Methods Mol Biol. 2018; 1823:153-165.
Broughton JP, Pasquinelli AE. PMID: 29959680.
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PubMed Mentions:
2 Fields:
Translation:
AnimalsCells
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Short poly(A) tails are a conserved feature of highly expressed genes. Nat Struct Mol Biol. 2017 Dec; 24(12):1057-1063.
Lima SA, Chipman LB, Nicholson AL, Chen YH, Yee BA, Yeo GW, Coller J, Pasquinelli AE. PMID: 29106412; PMCID: PMC5877826.
View in:
PubMed Mentions:
13 Fields:
Translation:
AnimalsCells
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Pairing beyond the Seed Supports MicroRNA Targeting Specificity. Mol Cell. 2016 10 20; 64(2):320-333.
Broughton JP, Lovci MT, Huang JL, Yeo GW, Pasquinelli AE. PMID: 27720646; PMCID: PMC5074850.
View in:
PubMed Mentions:
271 Fields:
Translation:
AnimalsCells
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A sense-able microRNA. Genes Dev. 2016 09 15; 30(18):2019-2020.
Pasquinelli AE. PMID: 27798846; PMCID: PMC5066609.
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PubMed Mentions: Fields:
Translation:
Animals
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A tale of two sequences: microRNA-target chimeric reads. Genet Sel Evol. 2016 Apr 04; 48:31.
Broughton JP, Pasquinelli AE. PMID: 27044644; PMCID: PMC4819279.
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PubMed Mentions:
3 Fields:
Translation:
AnimalsCells
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Splicing remodels the let-7 primary microRNA to facilitate Drosha processing in Caenorhabditis elegans. RNA. 2015 Aug; 21(8):1396-403.
Mondol V, Ahn BC, Pasquinelli AE. PMID: 26081559; PMCID: PMC4509930.
View in:
PubMed Mentions:
1 Fields:
Translation:
AnimalsCells
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MicroRNAs: heralds of the noncoding RNA revolution. RNA. 2015 Apr; 21(4):709-10.
Pasquinelli AE. PMID: 25780202; PMCID: PMC4371344.
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PubMed Mentions:
7 Fields:
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Period homolog LIN-42 regulates miRNA transcription to impact developmental timing. Worm. 2014 Oct-Dec; 3(4):e974453.
Van Wynsberghe PM, Pasquinelli AE. PMID: 26435883; PMCID: PMC4589994.
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PubMed Mentions:
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Mass spectrometry-based shotgun proteomic analysis of C. elegans protein complexes. WormBook. 2014 Jun 24; 1-18.
Fonslow BR, Moresco JJ, Tu PG, Aalto AP, Pasquinelli AE, Dillin AG, Yates JR. PMID: 24967700; PMCID: PMC4716738.
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PubMed Mentions:
4 Fields:
Translation:
AnimalsCells
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The Period protein homolog LIN-42 negatively regulates microRNA biogenesis in C. elegans. Dev Biol. 2014 Jun 15; 390(2):126-35.
Van Wynsberghe PM, Finnegan EF, Stark T, Angelus EP, Homan KE, Yeo GW, Pasquinelli AE. PMID: 24699545; PMCID: PMC4077587.
View in:
PubMed Mentions:
20 Fields:
Translation:
Animals
-
Identification of miRNAs and their targets in C. elegans. Adv Exp Med Biol. 2014; 825:431-50.
Lima SA, Pasquinelli AE. PMID: 25201113.
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PubMed Mentions:
3 Fields:
Translation:
Animals
-
The primary target of let-7 microRNA. Biochem Soc Trans. 2013 Aug; 41(4):821-4.
Pasquinelli AE. PMID: 23863138.
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PubMed Mentions:
4 Fields:
Translation:
HumansAnimals
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Identifying Argonaute binding sites in Caenorhabditis elegans using iCLIP. Methods. 2013 Sep 15; 63(2):119-25.
Broughton JP, Pasquinelli AE. PMID: 23583680; PMCID: PMC3749250.
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PubMed Mentions:
10 Fields:
Translation:
AnimalsCells
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Functional genomic analysis of the let-7 regulatory network in Caenorhabditis elegans. PLoS Genet. 2013; 9(3):e1003353.
Hunter SE, Finnegan EF, Zisoulis DG, Lovci MT, Melnik-Martinez KV, Yeo GW, Pasquinelli AE. PMID: 23516374; PMCID: PMC3597506.
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PubMed Mentions:
13 Fields:
Translation:
HumansAnimals
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MicroRNAs that interfere with RNAi. Worm. 2013 Jan 01; 2(1):e21835.
Massirer KB, Pasquinelli AE. PMID: 24058860; PMCID: PMC3670461.
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PubMed Mentions:
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Multiple cis-elements and trans-acting factors regulate dynamic spatio-temporal transcription of let-7 in Caenorhabditis elegans. Dev Biol. 2013 Feb 01; 374(1):223-33.
Kai ZS, Finnegan EF, Huang S, Pasquinelli AE. PMID: 23201578; PMCID: PMC3548979.
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PubMed Mentions:
10 Fields:
Translation:
AnimalsCells
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MicroRNA biogenesis: regulating the regulators. Crit Rev Biochem Mol Biol. 2013 Jan-Feb; 48(1):51-68.
Finnegan EF, Pasquinelli AE. PMID: 23163351; PMCID: PMC3557704.
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PubMed Mentions:
84 Fields:
Translation:
HumansAnimalsCells
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Birthing histone mRNAs by CSR-1 section. EMBO J. 2012 Oct 03; 31(19):3790-1.
Pasquinelli AE. PMID: 22960639; PMCID: PMC3463852.
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PubMed Mentions:
1 Fields:
Translation:
Animals
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Autoregulation of microRNA biogenesis by let-7 and Argonaute. Nature. 2012 Jun 28; 486(7404):541-4.
Zisoulis DG, Kai ZS, Chang RK, Pasquinelli AE. PMID: 22722835; PMCID: PMC3387326.
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PubMed Mentions:
91 Fields:
Translation:
AnimalsCells
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Small non-coding RNAs mount a silent revolution in gene expression. Curr Opin Cell Biol. 2012 Jun; 24(3):333-40.
Aalto AP, Pasquinelli AE. PMID: 22464106; PMCID: PMC3372702.
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PubMed Mentions:
31 Fields:
Translation:
HumansCells
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MicroRNAs and their targets: recognition, regulation and an emerging reciprocal relationship. Nat Rev Genet. 2012 Mar 13; 13(4):271-82.
Pasquinelli AE. PMID: 22411466.
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PubMed Mentions:
841 Fields:
Translation:
Cells
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The miR-35-41 family of microRNAs regulates RNAi sensitivity in Caenorhabditis elegans. PLoS Genet. 2012; 8(3):e1002536.
Massirer KB, Perez SG, Mondol V, Pasquinelli AE. PMID: 22412382; PMCID: PMC3297572.
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PubMed Mentions:
14 Fields:
Translation:
AnimalsCells
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A team effort blocks the ribosome in its tracks. Nat Struct Mol Biol. 2012 Feb 03; 19(2):133-4.
Pasquinelli AE. PMID: 22301874.
View in:
PubMed Mentions:
1 Fields:
Translation:
HumansAnimalsCells
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Let's make it happen: the role of let-7 microRNA in development. Curr Top Dev Biol. 2012; 99:1-30.
Mondol V, Pasquinelli AE. PMID: 22365733.
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PubMed Mentions:
29 Fields:
Translation:
Animals
-
LIN-28 co-transcriptionally binds primary let-7 to regulate miRNA maturation in Caenorhabditis elegans. Nat Struct Mol Biol. 2011 Mar; 18(3):302-8.
Van Wynsberghe PM, Kai ZS, Massirer KB, Burton VH, Yeo GW, Pasquinelli AE. PMID: 21297634; PMCID: PMC3077891.
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PubMed Mentions:
59 Fields:
Translation:
HumansAnimalsCells
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Analysis of microRNA expression and function. Methods Cell Biol. 2011; 106:219-252.
Van Wynsberghe PM, Chan SP, Slack FJ, Pasquinelli AE. PMID: 22118279; PMCID: PMC4314212.
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PubMed Mentions:
28 Fields:
Translation:
Animals
-
Comprehensive identification of miRNA target sites in live animals. Methods Mol Biol. 2011; 732:169-85.
Zisoulis DG, Yeo GW, Pasquinelli AE. PMID: 21431713.
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PubMed Mentions:
5 Fields:
Translation:
Animals
-
Regulation of lin-4 miRNA expression, organismal growth and development by a conserved RNA binding protein in C. elegans. Dev Biol. 2010 Dec 15; 348(2):210-21.
Bracht JR, Van Wynsberghe PM, Mondol V, Pasquinelli AE. PMID: 20937268; PMCID: PMC2982876.
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PubMed Mentions:
10 Fields:
Translation:
AnimalsCells
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Molecular biology. Paring miRNAs through pairing. Science. 2010 Jun 18; 328(5985):1494-5.
Pasquinelli AE. PMID: 20558697.
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PubMed Mentions:
11 Fields:
Translation:
AnimalsCells
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A distinct microRNA signature for definitive endoderm derived from human embryonic stem cells. Stem Cells Dev. 2010 Jun; 19(6):797-807.
Hinton A, Afrikanova I, Wilson M, King CC, Maurer B, Yeo GW, Hayek A, Pasquinelli AE. PMID: 19807270.
View in:
PubMed Mentions:
26 Fields:
Translation:
HumansAnimalsCells
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MicroRNAs and cancer: a meeting summary of the eponymous Keystone Conference. Epigenetics. 2010 Feb 16; 5(2):164-8.
Godshalk SE, Melnik-Martinez KV, Pasquinelli AE, Slack FJ. PMID: 20168081.
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PubMed Mentions:
2 Fields:
Translation:
HumansAnimals
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A genome wide view of hunchback-like-1 targets. Cell Cycle. 2010 Jan 15; 9(2):230-1.
Kai Z, Pasquinelli AE. PMID: 20061795.
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PubMed Mentions: Fields:
Translation:
Animals
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Comprehensive discovery of endogenous Argonaute binding sites in Caenorhabditis elegans. Nat Struct Mol Biol. 2010 Feb; 17(2):173-9.
Zisoulis DG, Lovci MT, Wilbert ML, Hutt KR, Liang TY, Pasquinelli AE, Yeo GW. PMID: 20062054; PMCID: PMC2834287.
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PubMed Mentions:
158 Fields:
Translation:
AnimalsCells
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MicroRNA assassins: factors that regulate the disappearance of miRNAs. Nat Struct Mol Biol. 2010 Jan; 17(1):5-10.
Kai ZS, Pasquinelli AE. PMID: 20051982; PMCID: PMC6417416.
View in:
PubMed Mentions:
112 Fields:
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Uncoupling of lin-14 mRNA and protein repression by nutrient deprivation in Caenorhabditis elegans. RNA. 2009 Mar; 15(3):400-5.
Holtz J, Pasquinelli AE. PMID: 19155321; PMCID: PMC2657013.
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PubMed Mentions:
13 Fields:
Translation:
Animals
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Computational prediction and experimental validation of Ciona intestinalis microRNA genes. BMC Genomics. 2007 Nov 29; 8:445.
Norden-Krichmar TM, Holtz J, Pasquinelli AE, Gaasterland T. PMID: 18047675; PMCID: PMC2243180.
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PubMed Mentions:
11 Fields:
Translation:
AnimalsCells
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MicroRNA silencing through RISC recruitment of eIF6. Nature. 2007 Jun 14; 447(7146):823-8.
Chendrimada TP, Finn KJ, Ji X, Baillat D, Gregory RI, Liebhaber SA, Pasquinelli AE, Shiekhattar R. PMID: 17507929.
View in:
PubMed Mentions:
168 Fields:
Translation:
HumansAnimalsCells
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The evolving role of microRNAs in animal gene expression. Bioessays. 2006 May; 28(5):449-52.
Massirer KB, Pasquinelli AE. PMID: 16615087.
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PubMed Mentions:
7 Fields:
Translation:
Animals
-
Demystifying small RNA pathways. Dev Cell. 2006 Apr; 10(4):419-24.
Pasquinelli AE. PMID: 16625708.
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PubMed Mentions:
6 Fields:
Translation:
HumansAnimalsCells
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Identification and analysis of microRNAs. Genet Eng (N Y). 2006; 27:1-20.
Bagga S, Pasquinelli AE. PMID: 16382868.
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PubMed Mentions:
13 Fields:
Translation:
HumansAnimals
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Analysis of the regulation of lin-41 during chick and mouse limb development. Dev Dyn. 2005 Dec; 234(4):948-60.
Lancman JJ, Caruccio NC, Harfe BD, Pasquinelli AE, Schageman JJ, Pertsemlidis A, Fallon JF. PMID: 16245339.
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PubMed Mentions:
19 Fields:
Translation:
AnimalsCells
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Regulation by let-7 and lin-4 miRNAs results in target mRNA degradation. Cell. 2005 Aug 26; 122(4):553-63.
Bagga S, Bracht J, Hunter S, Massirer K, Holtz J, Eachus R, Pasquinelli AE. PMID: 16122423.
View in:
PubMed Mentions:
482 Fields:
Translation:
AnimalsCells
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MicroRNAs: a developing story. Curr Opin Genet Dev. 2005 Apr; 15(2):200-5.
Pasquinelli AE, Hunter S, Bracht J. PMID: 15797203.
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PubMed Mentions:
105 Fields:
Translation:
HumansAnimalsCells
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Functional genomic analysis of RNA interference in C. elegans. Science. 2005 May 20; 308(5725):1164-7.
Kim JK, Gabel HW, Kamath RS, Tewari M, Pasquinelli A, Rual JF, Kennedy S, Dybbs M, Bertin N, Kaplan JM, Vidal M, Ruvkun G. PMID: 15790806.
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PubMed Mentions:
130 Fields:
Translation:
AnimalsCells
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MicroRNA-responsive 'sensor' transgenes uncover Hox-like and other developmentally regulated patterns of vertebrate microRNA expression. Nat Genet. 2004 Oct; 36(10):1079-83.
Mansfield JH, Harfe BD, Nissen R, Obenauer J, Srineel J, Chaudhuri A, Farzan-Kashani R, Zuker M, Pasquinelli AE, Ruvkun G, Sharp PA, Tabin CJ, McManus MT. PMID: 15361871.
View in:
PubMed Mentions:
174 Fields:
Translation:
AnimalsCells
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Trans-splicing and polyadenylation of let-7 microRNA primary transcripts. RNA. 2004 Oct; 10(10):1586-94.
Bracht J, Hunter S, Eachus R, Weeks P, Pasquinelli AE. PMID: 15337850; PMCID: PMC1370645.
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PubMed Mentions:
67 Fields:
Translation:
AnimalsCells
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Coordinate regulation of small temporal RNAs at the onset of Drosophila metamorphosis. Dev Biol. 2003 Jul 01; 259(1):1-8.
Bashirullah A, Pasquinelli AE, Kiger AA, Perrimon N, Ruvkun G, Thummel CS. PMID: 12812783.
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PubMed Mentions:
40 Fields:
Translation:
AnimalsCells
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Expression of the 22 nucleotide let-7 heterochronic RNA throughout the Metazoa: a role in life history evolution? Evol Dev. 2003 Jul-Aug; 5(4):372-8.
Pasquinelli AE, McCoy A, Jiménez E, Saló E, Ruvkun G, Martindale MQ, Baguñà J. PMID: 12823453.
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PubMed Mentions:
29 Fields:
Translation:
Animals
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The C elegans hunchback homolog, hbl-1, controls temporal patterning and is a probable microRNA target. Dev Cell. 2003 May; 4(5):639-50.
Lin SY, Johnson SM, Abraham M, Vella MC, Pasquinelli A, Gamberi C, Gottlieb E, Slack FJ. PMID: 12737800.
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PubMed Mentions:
132 Fields:
Translation:
AnimalsCells
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Control of developmental timing by micrornas and their targets. Annu Rev Cell Dev Biol. 2002; 18:495-513.
Pasquinelli AE, Ruvkun G. PMID: 12142272.
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PubMed Mentions:
97 Fields:
Translation:
Animals
-
MicroRNAs: deviants no longer. Trends Genet. 2002 Apr; 18(4):171-3.
Pasquinelli AE. PMID: 11932009.
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PubMed Mentions:
21 Fields:
Translation:
HumansAnimals
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Genes and mechanisms related to RNA interference regulate expression of the small temporal RNAs that control C. elegans developmental timing. Cell. 2001 Jul 13; 106(1):23-34.
Grishok A, Pasquinelli AE, Conte D, Li N, Parrish S, Ha I, Baillie DL, Fire A, Ruvkun G, Mello CC. PMID: 11461699.
View in:
PubMed Mentions:
629 Fields:
Translation:
Animals
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A cellular function for the RNA-interference enzyme Dicer in the maturation of the let-7 small temporal RNA. Science. 2001 Aug 03; 293(5531):834-8.
Hutvágner G, McLachlan J, Pasquinelli AE, Bálint E, Tuschl T, Zamore PD. PMID: 11452083.
View in:
PubMed Mentions:
908 Fields:
Translation:
HumansAnimalsCells
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Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA. Nature. 2000 Nov 02; 408(6808):86-9.
Pasquinelli AE, Reinhart BJ, Slack F, Martindale MQ, Kuroda MI, Maller B, Hayward DC, Ball EE, Degnan B, Müller P, Spring J, Srinivasan A, Fishman M, Finnerty J, Corbo J, Levine M, Leahy P, Davidson E, Ruvkun G. PMID: 11081512.
View in:
PubMed Mentions:
660 Fields:
Translation:
HumansAnimalsCells
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The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans. Nature. 2000 Feb 24; 403(6772):901-6.
Reinhart BJ, Slack FJ, Basson M, Pasquinelli AE, Bettinger JC, Rougvie AE, Horvitz HR, Ruvkun G. PMID: 10706289.
View in:
PubMed Mentions:
1421 Fields:
Translation:
AnimalsCells
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The constitutive transport element (CTE) of Mason-Pfizer monkey virus (MPMV) accesses a cellular mRNA export pathway. EMBO J. 1997 Dec 15; 16(24):7500-10.
Pasquinelli AE, Ernst RK, Lund E, Grimm C, Zapp ML, Rekosh D, Hammarskjöld ML, Dahlberg JE. PMID: 9405378; PMCID: PMC1170349.
View in:
PubMed Mentions:
105 Fields:
Translation:
HumansAnimalsCells
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Reverse 5' caps in RNAs made in vitro by phage RNA polymerases. RNA. 1995 Nov; 1(9):957-67.
Pasquinelli AE, Dahlberg JE, Lund E. PMID: 8548660; PMCID: PMC1369344.
View in:
PubMed Mentions:
34 Fields:
Translation:
AnimalsCells
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BstUI and DpnII RFLPs at the COL5A1 gene. Hum Mol Genet. 1994 Feb; 3(2):385.
Greenspan DS, Pasquinelli AE. PMID: 7911701.
View in:
PubMed Mentions:
10 Fields:
Translation:
HumansCells