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Publications

 

·   Moshiri H, Mehta V, Salavati R.
RNA catalyst as a reporter for screening drugs against RNA editing in trypanosomes
Journal of visualized experiments : JoVE 2014.

·   Moshiri H, Mehta V, Yip CW, Salavati R.
Pilot-Scale Compound Screening against RNA Editing Identifies Trypanocidal Agents
Journal of biomolecular screening 2014.

·   Gazestani VH, Lu Z, Salavati R.
Deciphering RNA regulatory elements in trypanosomatids: one piece at a time or genome-wide?
Trends Parasitol. 2014;30: 234-240

·   Najafabadi HS, Lu Z, Macpherson C, Mehta V, Adoue V, Pastinen T, Salavati R.
Global identification of conserved post-transcriptional regulatory programs in trypanosomatids.
Nucleic Acids Res. 2013;41: 8591-8600

·   Kala S, Moshiri H, Mehta V, Yip CW, Salavati R.
The Oligonucleotide Binding (OB)-Fold Domain of KREPA4 Is Essential for Stable Incorporation into Editosomes.
PLoS One;doi: 10.1371/journal.pone.0046864.

·   Goodarzi H, Najafabadi HS, Oikonomou P, Greco TM, Fish L, Salavati R, Cristea IM, Tavazoie S.
Systematic discovery of structural elements governing stability of mammalian messenger RNAs
Nature 2012; doi: 10.1038/nature11013.

·   Salavati R, Moshiri H, Kala S, Najafabadi HS.
Inhibitors of RNA editing as potential chemotherapeutics against trypanosomatid pathogens
Int J Parasitol Drugs Drug Resist. 2012; 2:36-46.

·   Moshiri H, Acoca S, Kala S, Najafabadi HS, Hogues H, Purisima E, Salavati R.
Naphthalene-based RNA editing inhibitor blocks RNA editing activities and editosome assembly in Trypanosoma brucei
J Biol Chem. 2011; 286(16):14178-89.

·   Najafabadi HS, Salavati R.
Functional genome annotation by combined analysis across microarray studies of Trypanosoma brucei
PLoS Negl Trop Dis. 2010; 4(8):e810
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·   Kala S, Salavati R.
OB-fold domain of KREPA4 mediates high affinity interaction with guide RNA and also possesses annealing activity
RNA. 2010; 16(10):1951-1967

·   Moshiri H, Salavati R.
A fluorescence-based reporter substrate for monitoring RNA editing in trypanosomatid pathogens.
Nucleic Acids Res. 2010; 38(13):e138

·   Salavati R, Najafabadi HS.
Sequence-based functional annotation: what if most of the genes are unique to a genome?
Trends Parasitol. 2010; 26(5):225-229

·   Najafabadi HS, Goodarzi H, Salavati R.
Universal function-specificity of codon usage.
Nucleic Acids Res. 2009; 37(21):7014-7023
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·   Mao Y, Najafabadi HS, Salavati R.  |||Highly accessed|||
Genome-wide computational identification of functional RNA elements in Trypanosoma brucei.
BMC Genomics. 2009;10(1):355

·   Shaneh A, Salavati R.
Kinetoplastid RNA editing ligases 1 and 2 exhibit different electrostatic properties.
J Mol Model. 2009 May 27.

·   Najafabadi HS, Salavati R. |||Highly accessed|||
Sequence-based prediction of protein-protein interactions by means of codon usage.
Genome Biol. 2008;9(5):R87. Epub 2008 May 23.
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·   Mian IS, Worthey EA, Salavati R.
Taking U out, with two nucleases?
BMC Bioinformatics. 2006 Jun 16;7:305.

·   Panigrahi AK, Ernst NL, Domingo GJ, Fleck M, Salavati R, Stuart KD.
Compositionally and functionally distinct editosomes in Trypanosoma brucei.
RNA. 2006 Jun;12(6):1038-49. Epub 2006 Apr 12.

·   Salavati R, Ernst NL, O'Rear J, Gilliam T, Tarun S Jr, Stuart K.
KREPA4, an RNA binding protein essential for editosome integrity and survival of Trypanosoma brucei.
RNA. 2006 May;12(5):819-31. Epub 2006 Apr 6.

·   Deng J, Schnaufer A, Salavati R, Stuart KD, Hol WG.
High resolution crystal structure of a key editosome enzyme from Trypanosoma brucei: RNA editing ligase 1.
J Mol Biol. 2004 Oct 22;343(3):601-13.

·   Worthey EA, Schnaufer A, Mian IS, Stuart K, Salavati R.
Comparative analysis of editosome proteins in trypanosomatids.
Nucleic Acids Res. 2003 Nov 15;31(22):6392-408.

·   Schnaufer A, Ernst NL, Palazzo SS, O'Rear J, Salavati R, Stuart K.
Separate insertion and deletion subcomplexes of the Trypanosoma brucei RNA editing complex.
Mol Cell. 2003 Aug;12(2):307-19.

·   Ernst NL, Panicucci B, Igo RP Jr, Panigrahi AK, Salavati R, Stuart K.
TbMP57 is a 3' terminal uridylyl transferase (TUTase) of the Trypanosoma brucei editosome.
Mol Cell. 2003 Jun;11(6):1525-36.

·   Worthey EA, Martinez-Calvillo S, Schnaufer A, Aggarwal G, Cawthra J, Fazelinia G, Fong C, Fu G, Hassebrock M, Hixson G, Ivens AC, Kiser P, Marsolini F, Rickel E, Salavati R, Sisk E, Sunkin SM, Stuart KD, Myler PJ.
Leishmania major chromosome 3 contains two long convergent polycistronic gene clusters separated by a tRNA gene.
Nucleic Acids Res. 2003 Jul 15;31(14):4201-10. Erratum in: Nucleic Acids Res. 2004 Dec;32(22):6716. Rickell, Erika [corrected to Rickel, Erika].

·   Wang B, Ernst NL, Palazzo SS, Panigrahi AK, Salavati R, Stuart K.
TbMP44 is essential for RNA editing and structural integrity of the editosome in Trypanosoma brucei.
Eukaryot Cell. 2003 Jun;2(3):578-87.

·   Domingo GJ, Palazzo SS, Wang B, Pannicucci B, Salavati R, Stuart KD.
Dyskinetoplastic Trypanosoma brucei contains functional editing complexes.
Eukaryot Cell. 2003 Jun;2(3):569-77.

·   Palazzo SS, Panigrahi AK, Igo RP, Salavati R, Stuart K.
Kinetoplastid RNA editing ligases: complex association, characterization, and substrate requirements.
Mol Biochem Parasitol. 2003 Apr 3;127(2):161-7.

·   Panigrahi AK, Schnaufer A, Ernst NL, Wang B, Carmean N, Salavati R, Stuart K.
Identification of novel components of Trypanosoma brucei editosomes.
RNA. 2003 Apr;9(4):484-92.

·   Igo RP Jr, Weston DS, Ernst NL, Panigrahi AK, Salavati R, Stuart K.
Role of uridylate-specific exoribonuclease activity in Trypanosoma brucei RNA editing.
Eukaryot Cell. 2002 Feb;1(1):112-8.

·   Panigrahi AK, Ernst NL, Domingo GJ, Fleck M, Salavati R, Stuart KD.
Compositionally and functionally distinct editosomes in Trypanosoma brucei.
RNA. 2006 Jun;12(6):1038-49. Epub 2006 Apr 12.

·   Salavati R, Panigrahi AK, Morach BA, Palazzo SS, Igo RP, Stuart K.
Endoribonuclease activities of Trypanosoma brucei mitochondria.
Mol Biochem Parasitol. 2002 Mar;120(1):23-31.

·   Drozdz M, Palazzo SS, Salavati R, O'Rear J, Clayton C, Stuart K.
TbMP81 is required for RNA editing in Trypanosoma brucei.
EMBO J. 2002 Apr 2;21(7):1791-9.

·   Wang B, Salavati R, Heidmann S, Stuart K.
A hammerhead ribozyme substrate and reporter for in vitro kinetoplastid RNA editing.
RNA. 2002 Apr;8(4):548-54.