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Items: 1 to 20 of 67


Retapamulin-Assisted Ribosome Profiling Reveals the Alternative Bacterial Proteome.

Meydan S, Marks J, Klepacki D, Sharma V, Baranov PV, Firth AE, Margus T, Kefi A, Vázquez-Laslop N, Mankin AS.

Mol Cell. 2019 May 2;74(3):481-493.e6. doi: 10.1016/j.molcel.2019.02.017. Epub 2019 Mar 20.


Cellular Gene Expression during Hepatitis C Virus Replication as Revealed by Ribosome Profiling.

Gerresheim GK, Bathke J, Michel AM, Andreev DE, Shalamova LA, Rossbach O, Hu P, Glebe D, Fricke M, Marz M, Goesmann A, Kiniry SJ, Baranov PV, Shatsky IN, Niepmann M.

Int J Mol Sci. 2019 Mar 15;20(6). pii: E1321. doi: 10.3390/ijms20061321.


Magnesium-sensitive upstream ORF controls PRL phosphatase expression to mediate energy metabolism.

Hardy S, Kostantin E, Wang SJ, Hristova T, Galicia-Vázquez G, Baranov PV, Pelletier J, Tremblay ML.

Proc Natl Acad Sci U S A. 2019 Feb 19;116(8):2925-2934. doi: 10.1073/pnas.1815361116. Epub 2019 Feb 4.


Trips-Viz: a transcriptome browser for exploring Ribo-Seq data.

Kiniry SJ, O'Connor PBF, Michel AM, Baranov PV.

Nucleic Acids Res. 2019 Jan 8;47(D1):D847-D852. doi: 10.1093/nar/gky842.


PausePred and Rfeet: webtools for inferring ribosome pauses and visualizing footprint density from ribosome profiling data.

Kumari R, Michel AM, Baranov PV.

RNA. 2018 Oct;24(10):1297-1304. doi: 10.1261/rna.065235.117. Epub 2018 Jul 26.


TASEP modelling provides a parsimonious explanation for the ability of a single uORF to derepress translation during the integrated stress response.

Andreev DE, Arnold M, Kiniry SJ, Loughran G, Michel AM, Rachinskii D, Baranov PV.

Elife. 2018 Jun 22;7. pii: e32563. doi: 10.7554/eLife.32563.


The GWIPS-viz Browser.

Kiniry SJ, Michel AM, Baranov PV.

Curr Protoc Bioinformatics. 2018 Jun;62(1):e50. doi: 10.1002/cpbi.50. Epub 2018 May 16.


Translation control of mRNAs encoding mammalian translation initiation factors.

Andreev DE, Dmitriev SE, Loughran G, Terenin IM, Baranov PV, Shatsky IN.

Gene. 2018 Apr 20;651:174-182. doi: 10.1016/j.gene.2018.02.013. Epub 2018 Feb 4. Review.


AMD1 mRNA employs ribosome stalling as a mechanism for molecular memory formation.

Yordanova MM, Loughran G, Zhdanov AV, Mariotti M, Kiniry SJ, O'Connor PBF, Andreev DE, Tzani I, Saffert P, Michel AM, Gladyshev VN, Papkovsky DB, Atkins JF, Baranov PV.

Nature. 2018 Jan 18;553(7688):356-360. doi: 10.1038/nature25174. Epub 2018 Jan 3.


GWIPS-viz: 2018 update.

Michel AM, Kiniry SJ, O'Connor PBF, Mullan JP, Baranov PV.

Nucleic Acids Res. 2018 Jan 4;46(D1):D823-D830. doi: 10.1093/nar/gkx790.


Specific reverse transcriptase slippage at the HIV ribosomal frameshift sequence: potential implications for modulation of GagPol synthesis.

Penno C, Kumari R, Baranov PV, van Sinderen D, Atkins JF.

Nucleic Acids Res. 2017 Sep 29;45(17):10156-10167. doi: 10.1093/nar/gkx690.


Stimulation of reverse transcriptase generated cDNAs with specific indels by template RNA structure: retrotransposon, dNTP balance, RT-reagent usage.

Penno C, Kumari R, Baranov PV, van Sinderen D, Atkins JF.

Nucleic Acids Res. 2017 Sep 29;45(17):10143-10155. doi: 10.1093/nar/gkx689.


Itm2a silencing rescues lamin A mediated inhibition of 3T3-L1 adipocyte differentiation.

Davies SJ, Ryan J, O'Connor PBF, Kenny E, Morris D, Baranov PV, O'Connor R, McCarthy TV.

Adipocyte. 2017 Oct 2;6(4):259-276. doi: 10.1080/21623945.2017.1362510. Epub 2017 Sep 5.


Low energy costs of F1Fo ATP synthase reversal in colon carcinoma cells deficient in mitochondrial complex IV.

Zhdanov AV, Andreev DE, Baranov PV, Papkovsky DB.

Free Radic Biol Med. 2017 May;106:184-195. doi: 10.1016/j.freeradbiomed.2017.02.025. Epub 2017 Feb 9.


A [Cu]rious Ribosomal Profiling Pattern Leads to the Discovery of Ribosomal Frameshifting in the Synthesis of a Copper Chaperone.

Atkins JF, Loughran G, Baranov PV.

Mol Cell. 2017 Jan 19;65(2):203-204. doi: 10.1016/j.molcel.2017.01.002.


Insights into the mechanisms of eukaryotic translation gained with ribosome profiling.

Andreev DE, O'Connor PB, Loughran G, Dmitriev SE, Baranov PV, Shatsky IN.

Nucleic Acids Res. 2017 Jan 25;45(2):513-526. doi: 10.1093/nar/gkw1190. Epub 2016 Dec 6. Review.


Position-dependent termination and widespread obligatory frameshifting in Euplotes translation.

Lobanov AV, Heaphy SM, Turanov AA, Gerashchenko MV, Pucciarelli S, Devaraj RR, Xie F, Petyuk VA, Smith RD, Klobutcher LA, Atkins JF, Miceli C, Hatfield DL, Baranov PV, Gladyshev VN.

Nat Struct Mol Biol. 2017 Jan;24(1):61-68. doi: 10.1038/nsmb.3330. Epub 2016 Nov 21.


Comparative survey of the relative impact of mRNA features on local ribosome profiling read density.

O'Connor PB, Andreev DE, Baranov PV.

Nat Commun. 2016 Oct 4;7:12915. doi: 10.1038/ncomms12915.


Novel Ciliate Genetic Code Variants Including the Reassignment of All Three Stop Codons to Sense Codons in Condylostoma magnum.

Heaphy SM, Mariotti M, Gladyshev VN, Atkins JF, Baranov PV.

Mol Biol Evol. 2016 Nov;33(11):2885-2889. Epub 2016 Aug 8.


Catch me if you can: trapping scanning ribosomes in their footsteps.

Baranov PV, Loughran G.

Nat Struct Mol Biol. 2016 Aug 3;23(8):703-4. doi: 10.1038/nsmb.3256. No abstract available.


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