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Amy Pasquinelli

Title(s)Professor, Molecular Biology
SchoolAcademic Aff
Phone858-822-3006
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    Collapse Research 
    Collapse Research Activities and Funding
    Biogenesis and Function of Regulatory RNAs
    NIH/NIGMS R35GM127012Jul 1, 2018 - Jun 30, 2023
    Role: Principal Investigator
    Role of miRNA Argonautes in organismal aging
    NIH/NIA R01AG056562Sep 1, 2017 - Apr 30, 2022
    Role: Principal Investigator
    Role of Argonaute in miRNA biogenesis and function
    NIH/NIGMS R01GM071654Jun 1, 2004 - Jan 31, 2018
    Role: Principal Investigator

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
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    1. Garrigues JM, Tsu BV, Daugherty MD, Pasquinelli AE. Diversification of the Caenorhabditis heat shock response by Helitron transposable elements. Elife. 2019 Dec 11; 8. PMID: 31825311.
      View in: PubMed
    2. Schreiner WP, Pagliuso DC, Garrigues JM, Chen JS, Aalto AP, Pasquinelli AE. Remodeling of the Caenorhabditis elegans non-coding RNA transcriptome by heat shock. Nucleic Acids Res. 2019 10 10; 47(18):9829-9841. PMID: 31396626.
      View in: PubMed
    3. Winkenbach LP, Doser R, Reed KJ, Pasquinelli AE, Phillips CM, Claycomb JM. Todos Santos small RNA symposium. RNA Biol. 2019 11; 16(11):1526-1530. PMID: 31397621.
      View in: PubMed
    4. 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. RNA interference may result in unexpected phenotypes in Caenorhabditis elegans. Nucleic Acids Res. 2019 05 07; 47(8):3957-3969. PMID: 30838421.
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    5. Chipman LB, Pasquinelli AE. miRNA Targeting: Growing beyond the Seed. Trends Genet. 2019 03; 35(3):215-222. PMID: 30638669.
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    6. Nicholson AL, Pasquinelli AE. Tales of Detailed Poly(A) Tails. Trends Cell Biol. 2019 03; 29(3):191-200. PMID: 30503240.
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    7. Aalto AP, Nicastro IA, Broughton JP, Chipman LB, Schreiner WP, Chen JS, Pasquinelli AE. Opposing roles of microRNA Argonautes during Caenorhabditis elegans aging. PLoS Genet. 2018 06; 14(6):e1007379. PMID: 29927939.
      View in: PubMed
    8. Pasquinelli AE. A rADAR defense against RNAi. Genes Dev. 2018 02 01; 32(3-4):199-201. PMID: 29491134.
      View in: PubMed
    9. Broughton JP, Pasquinelli AE. Detection of microRNA-Target Interactions by Chimera PCR (ChimP). Methods Mol Biol. 2018; 1823:153-165. PMID: 29959680.
      View in: PubMed
    10. Lima SA, Chipman LB, Nicholson AL, Chen YH, Yee BA, Yeo GW, Coller J, Pasquinelli AE. Short poly(A) tails are a conserved feature of highly expressed genes. Nat Struct Mol Biol. 2017 Dec; 24(12):1057-1063. PMID: 29106412.
      View in: PubMed
    11. Broughton JP, Lovci MT, Huang JL, Yeo GW, Pasquinelli AE. Pairing beyond the Seed Supports MicroRNA Targeting Specificity. Mol Cell. 2016 10 20; 64(2):320-333. PMID: 27720646.
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    12. Pasquinelli AE. A sense-able microRNA. Genes Dev. 2016 09 15; 30(18):2019-2020. PMID: 27798846.
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    13. Broughton JP, Pasquinelli AE. A tale of two sequences: microRNA-target chimeric reads. Genet Sel Evol. 2016 Apr 04; 48:31. PMID: 27044644.
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    14. Mondol V, Ahn BC, Pasquinelli AE. Splicing remodels the let-7 primary microRNA to facilitate Drosha processing in Caenorhabditis elegans. RNA. 2015 Aug; 21(8):1396-403. PMID: 26081559.
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    15. Pasquinelli AE. MicroRNAs: heralds of the noncoding RNA revolution. RNA. 2015 Apr; 21(4):709-10. PMID: 25780202.
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    16. Van Wynsberghe PM, Pasquinelli AE. Period homolog LIN-42 regulates miRNA transcription to impact developmental timing. Worm. 2014 Oct-Dec; 3(4):e974453. PMID: 26435883.
      View in: PubMed
    17. Fonslow BR, Moresco JJ, Tu PG, Aalto AP, Pasquinelli AE, Dillin AG, Yates JR. Mass spectrometry-based shotgun proteomic analysis of C. elegans protein complexes. WormBook. 2014 Jun 24; 1-18. PMID: 24967700.
      View in: PubMed
    18. Van Wynsberghe PM, Finnegan EF, Stark T, Angelus EP, Homan KE, Yeo GW, Pasquinelli AE. The Period protein homolog LIN-42 negatively regulates microRNA biogenesis in C. elegans. Dev Biol. 2014 Jun 15; 390(2):126-35. PMID: 24699545.
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    19. Lima SA, Pasquinelli AE. Identification of miRNAs and their targets in C. elegans. Adv Exp Med Biol. 2014; 825:431-50. PMID: 25201113.
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    20. Pasquinelli AE. The primary target of let-7 microRNA. Biochem Soc Trans. 2013 Aug; 41(4):821-4. PMID: 23863138.
      View in: PubMed
    21. Broughton JP, Pasquinelli AE. Identifying Argonaute binding sites in Caenorhabditis elegans using iCLIP. Methods. 2013 Sep 15; 63(2):119-25. PMID: 23583680.
      View in: PubMed
    22. Hunter SE, Finnegan EF, Zisoulis DG, Lovci MT, Melnik-Martinez KV, Yeo GW, Pasquinelli AE. Functional genomic analysis of the let-7 regulatory network in Caenorhabditis elegans. PLoS Genet. 2013; 9(3):e1003353. PMID: 23516374.
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    23. Massirer KB, Pasquinelli AE. MicroRNAs that interfere with RNAi. Worm. 2013 Jan 01; 2(1):e21835. PMID: 24058860.
      View in: PubMed
    24. Kai ZS, Finnegan EF, Huang S, Pasquinelli AE. 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. PMID: 23201578.
      View in: PubMed
    25. Finnegan EF, Pasquinelli AE. MicroRNA biogenesis: regulating the regulators. Crit Rev Biochem Mol Biol. 2013 Jan-Feb; 48(1):51-68. PMID: 23163351.
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    26. Pasquinelli AE. Birthing histone mRNAs by CSR-1 section. EMBO J. 2012 Oct 03; 31(19):3790-1. PMID: 22960639.
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    27. Zisoulis DG, Kai ZS, Chang RK, Pasquinelli AE. Autoregulation of microRNA biogenesis by let-7 and Argonaute. Nature. 2012 Jun 28; 486(7404):541-4. PMID: 22722835.
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    28. Aalto AP, Pasquinelli AE. Small non-coding RNAs mount a silent revolution in gene expression. Curr Opin Cell Biol. 2012 Jun; 24(3):333-40. PMID: 22464106.
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    29. Pasquinelli AE. MicroRNAs and their targets: recognition, regulation and an emerging reciprocal relationship. Nat Rev Genet. 2012 Mar 13; 13(4):271-82. PMID: 22411466.
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    30. Massirer KB, Perez SG, Mondol V, Pasquinelli AE. The miR-35-41 family of microRNAs regulates RNAi sensitivity in Caenorhabditis elegans. PLoS Genet. 2012; 8(3):e1002536. PMID: 22412382.
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    31. Pasquinelli AE. A team effort blocks the ribosome in its tracks. Nat Struct Mol Biol. 2012 Feb 03; 19(2):133-4. PMID: 22301874.
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    32. Mondol V, Pasquinelli AE. Let's make it happen: the role of let-7 microRNA in development. Curr Top Dev Biol. 2012; 99:1-30. PMID: 22365733.
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    33. Van Wynsberghe PM, Kai ZS, Massirer KB, Burton VH, Yeo GW, Pasquinelli AE. 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. PMID: 21297634.
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    34. Zisoulis DG, Yeo GW, Pasquinelli AE. Comprehensive identification of miRNA target sites in live animals. Methods Mol Biol. 2011; 732:169-85. PMID: 21431713.
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    35. Van Wynsberghe PM, Chan SP, Slack FJ, Pasquinelli AE. Analysis of microRNA expression and function. Methods Cell Biol. 2011; 106:219-252. PMID: 22118279.
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    36. Bracht JR, Van Wynsberghe PM, Mondol V, Pasquinelli AE. 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. PMID: 20937268.
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    37. Pasquinelli AE. Molecular biology. Paring miRNAs through pairing. Science. 2010 Jun 18; 328(5985):1494-5. PMID: 20558697.
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    38. Hinton A, Afrikanova I, Wilson M, King CC, Maurer B, Yeo GW, Hayek A, Pasquinelli AE. A distinct microRNA signature for definitive endoderm derived from human embryonic stem cells. Stem Cells Dev. 2010 Jun; 19(6):797-807. PMID: 19807270.
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    39. Godshalk SE, Melnik-Martinez KV, Pasquinelli AE, Slack FJ. MicroRNAs and cancer: a meeting summary of the eponymous Keystone Conference. Epigenetics. 2010 Feb 16; 5(2):164-8. PMID: 20168081.
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    40. Kai Z, Pasquinelli AE. A genome wide view of hunchback-like-1 targets. Cell Cycle. 2010 Jan 15; 9(2):230-1. PMID: 20061795.
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    41. Zisoulis DG, Lovci MT, Wilbert ML, Hutt KR, Liang TY, Pasquinelli AE, Yeo GW. Comprehensive discovery of endogenous Argonaute binding sites in Caenorhabditis elegans. Nat Struct Mol Biol. 2010 Feb; 17(2):173-9. PMID: 20062054.
      View in: PubMed
    42. Kai ZS, Pasquinelli AE. MicroRNA assassins: factors that regulate the disappearance of miRNAs. Nat Struct Mol Biol. 2010 Jan; 17(1):5-10. PMID: 20051982.
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    43. Holtz J, Pasquinelli AE. Uncoupling of lin-14 mRNA and protein repression by nutrient deprivation in Caenorhabditis elegans. RNA. 2009 Mar; 15(3):400-5. PMID: 19155321.
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    44. Norden-Krichmar TM, Holtz J, Pasquinelli AE, Gaasterland T. Computational prediction and experimental validation of Ciona intestinalis microRNA genes. BMC Genomics. 2007 Nov 29; 8:445. PMID: 18047675.
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    45. Chendrimada TP, Finn KJ, Ji X, Baillat D, Gregory RI, Liebhaber SA, Pasquinelli AE, Shiekhattar R. MicroRNA silencing through RISC recruitment of eIF6. Nature. 2007 Jun 14; 447(7146):823-8. PMID: 17507929.
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    46. Massirer KB, Pasquinelli AE. The evolving role of microRNAs in animal gene expression. Bioessays. 2006 May; 28(5):449-52. PMID: 16615087.
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    47. Pasquinelli AE. Demystifying small RNA pathways. Dev Cell. 2006 Apr; 10(4):419-24. PMID: 16625708.
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    48. Bagga S, Pasquinelli AE. Identification and analysis of microRNAs. Genet Eng (N Y). 2006; 27:1-20. PMID: 16382868.
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    49. Lancman JJ, Caruccio NC, Harfe BD, Pasquinelli AE, Schageman JJ, Pertsemlidis A, Fallon JF. Analysis of the regulation of lin-41 during chick and mouse limb development. Dev Dyn. 2005 Dec; 234(4):948-60. PMID: 16245339.
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    50. Bagga S, Bracht J, Hunter S, Massirer K, Holtz J, Eachus R, Pasquinelli AE. Regulation by let-7 and lin-4 miRNAs results in target mRNA degradation. Cell. 2005 Aug 26; 122(4):553-63. PMID: 16122423.
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    51. Pasquinelli AE, Hunter S, Bracht J. MicroRNAs: a developing story. Curr Opin Genet Dev. 2005 Apr; 15(2):200-5. PMID: 15797203.
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    52. Kim JK, Gabel HW, Kamath RS, Tewari M, Pasquinelli A, Rual JF, Kennedy S, Dybbs M, Bertin N, Kaplan JM, Vidal M, Ruvkun G. Functional genomic analysis of RNA interference in C. elegans. Science. 2005 May 20; 308(5725):1164-7. PMID: 15790806.
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    53. 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. MicroRNA-responsive 'sensor' transgenes uncover Hox-like and other developmentally regulated patterns of vertebrate microRNA expression. Nat Genet. 2004 Oct; 36(10):1079-83. PMID: 15361871.
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    54. Bracht J, Hunter S, Eachus R, Weeks P, Pasquinelli AE. Trans-splicing and polyadenylation of let-7 microRNA primary transcripts. RNA. 2004 Oct; 10(10):1586-94. PMID: 15337850.
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    55. Pasquinelli AE, McCoy A, Jiménez E, Saló E, Ruvkun G, Martindale MQ, Baguñà J. 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. PMID: 12823453.
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    56. Bashirullah A, Pasquinelli AE, Kiger AA, Perrimon N, Ruvkun G, Thummel CS. Coordinate regulation of small temporal RNAs at the onset of Drosophila metamorphosis. Dev Biol. 2003 Jul 01; 259(1):1-8. PMID: 12812783.
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    57. Lin SY, Johnson SM, Abraham M, Vella MC, Pasquinelli A, Gamberi C, Gottlieb E, Slack FJ. The C elegans hunchback homolog, hbl-1, controls temporal patterning and is a probable microRNA target. Dev Cell. 2003 May; 4(5):639-50. PMID: 12737800.
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    58. Pasquinelli AE, Ruvkun G. Control of developmental timing by micrornas and their targets. Annu Rev Cell Dev Biol. 2002; 18:495-513. PMID: 12142272.
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    59. Pasquinelli AE. MicroRNAs: deviants no longer. Trends Genet. 2002 Apr; 18(4):171-3. PMID: 11932009.
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    60. Grishok A, Pasquinelli AE, Conte D, Li N, Parrish S, Ha I, Baillie DL, Fire A, Ruvkun G, Mello CC. 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. PMID: 11461699.
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    61. Hutvágner G, McLachlan J, Pasquinelli AE, Bálint E, Tuschl T, Zamore PD. 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. PMID: 11452083.
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    62. 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. Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA. Nature. 2000 Nov 02; 408(6808):86-9. PMID: 11081512.
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    63. Reinhart BJ, Slack FJ, Basson M, Pasquinelli AE, Bettinger JC, Rougvie AE, Horvitz HR, Ruvkun G. The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans. Nature. 2000 Feb 24; 403(6772):901-6. PMID: 10706289.
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    64. Pasquinelli AE, Powers MA, Lund E, Forbes D, Dahlberg JE. Inhibition of mRNA export in vertebrate cells by nuclear export signal conjugates. Proc Natl Acad Sci U S A. 1997 Dec 23; 94(26):14394-9. PMID: 9405623.
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    65. Pasquinelli AE, Ernst RK, Lund E, Grimm C, Zapp ML, Rekosh D, Hammarskjöld ML, Dahlberg JE. 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. PMID: 9405378.
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    66. Pasquinelli AE, Dahlberg JE, Lund E. Reverse 5' caps in RNAs made in vitro by phage RNA polymerases. RNA. 1995 Nov; 1(9):957-67. PMID: 8548660.
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    67. Greenspan DS, Pasquinelli AE. BstUI and DpnII RFLPs at the COL5A1 gene. Hum Mol Genet. 1994 Feb; 3(2):385. PMID: 7911701.
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