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Items: 37

1.

Imaging the Life and Death of mRNAs in Single Cells.

Chao JA, Lionnet T.

Cold Spring Harb Perspect Biol. 2018 Dec 3;10(12). pii: a032086. doi: 10.1101/cshperspect.a032086. Review.

PMID:
30510061
2.

Single-Molecule Sensitivity RNA FISH Analysis of Influenza Virus Genome Trafficking.

Chou YY, Lionnet T.

Methods Mol Biol. 2018;1836:195-211. doi: 10.1007/978-1-4939-8678-1_10.

PMID:
30151575
3.

Synthesis of Janelia Fluor HaloTag and SNAP-Tag Ligands and Their Use in Cellular Imaging Experiments.

Grimm JB, Brown TA, English BP, Lionnet T, Lavis LD.

Methods Mol Biol. 2017;1663:179-188. doi: 10.1007/978-1-4939-7265-4_15.

PMID:
28924668
4.

mRNA quantification using single-molecule FISH in Drosophila embryos.

Trcek T, Lionnet T, Shroff H, Lehmann R.

Nat Protoc. 2017 Jul;12(7):1326-1348. doi: 10.1038/nprot.2017.030. Epub 2016 Jun 8.

5.

Quantitative mRNA imaging throughout the entire Drosophila brain.

Long X, Colonell J, Wong AM, Singer RH, Lionnet T.

Nat Methods. 2017 Jul;14(7):703-706. doi: 10.1038/nmeth.4309. Epub 2017 Jun 5.

PMID:
28581495
6.

Bright photoactivatable fluorophores for single-molecule imaging.

Grimm JB, English BP, Choi H, Muthusamy AK, Mehl BP, Dong P, Brown TA, Lippincott-Schwartz J, Liu Z, Lionnet T, Lavis LD.

Nat Methods. 2016 Dec;13(12):985-988. doi: 10.1038/nmeth.4034. Epub 2016 Oct 24.

PMID:
27776112
7.

Real-time quantification of single RNA translation dynamics in living cells.

Morisaki T, Lyon K, DeLuca KF, DeLuca JG, English BP, Zhang Z, Lavis LD, Grimm JB, Viswanathan S, Looger LL, Lionnet T, Stasevich TJ.

Science. 2016 Jun 17;352(6292):1425-9. doi: 10.1126/science.aaf0899. Epub 2016 May 5.

8.

TRICK: A Single-Molecule Method for Imaging the First Round of Translation in Living Cells and Animals.

Halstead JM, Wilbertz JH, Wippich F, Lionnet T, Ephrussi A, Chao JA.

Methods Enzymol. 2016;572:123-57. doi: 10.1016/bs.mie.2016.02.027. Epub 2016 Apr 29.

PMID:
27241753
9.

Multifocus microscopy with precise color multi-phase diffractive optics applied in functional neuronal imaging.

Abrahamsson S, Ilic R, Wisniewski J, Mehl B, Yu L, Chen L, Davanco M, Oudjedi L, Fiche JB, Hajj B, Jin X, Pulupa J, Cho C, Mir M, El Beheiry M, Darzacq X, Nollmann M, Dahan M, Wu C, Lionnet T, Liddle JA, Bargmann CI.

Biomed Opt Express. 2016 Feb 16;7(3):855-69. doi: 10.1364/BOE.7.000855. eCollection 2016 Mar 1.

10.

RNA Polymerase II cluster dynamics predict mRNA output in living cells.

Cho WK, Jayanth N, English BP, Inoue T, Andrews JO, Conway W, Grimm JB, Spille JH, Lavis LD, Lionnet T, Cisse II.

Elife. 2016 May 3;5. pii: e13617. doi: 10.7554/eLife.13617.

11.

Imaging Transcription: Past, Present, and Future.

Coleman RA, Liu Z, Darzacq X, Tjian R, Singer RH, Lionnet T.

Cold Spring Harb Symp Quant Biol. 2015;80:1-8. doi: 10.1101/sqb.2015.80.027201. Epub 2016 Jan 13. Review.

12.

Mapping translation 'hot-spots' in live cells by tracking single molecules of mRNA and ribosomes.

Katz ZB, English BP, Lionnet T, Yoon YJ, Monnier N, Ovryn B, Bathe M, Singer RH.

Elife. 2016 Jan 13;5. pii: e10415. doi: 10.7554/eLife.10415.

13.

Cellular Levels of Signaling Factors Are Sensed by β-actin Alleles to Modulate Transcriptional Pulse Intensity.

Kalo A, Kanter I, Shraga A, Sheinberger J, Tzemach H, Kinor N, Singer RH, Lionnet T, Shav-Tal Y.

Cell Rep. 2015 Nov 10;13(6):1284-1285. doi: 10.1016/j.celrep.2015.10.053. Epub 2015 Nov 10. No abstract available.

14.

CASFISH: CRISPR/Cas9-mediated in situ labeling of genomic loci in fixed cells.

Deng W, Shi X, Tjian R, Lionnet T, Singer RH.

Proc Natl Acad Sci U S A. 2015 Sep 22;112(38):11870-5. doi: 10.1073/pnas.1515692112. Epub 2015 Aug 31.

15.

Drosophila germ granules are structured and contain homotypic mRNA clusters.

Trcek T, Grosch M, York A, Shroff H, Lionnet T, Lehmann R.

Nat Commun. 2015 Aug 5;6:7962. doi: 10.1038/ncomms8962.

16.

Cellular Levels of Signaling Factors Are Sensed by β-actin Alleles to Modulate Transcriptional Pulse Intensity.

Kalo A, Kanter I, Shraga A, Sheinberger J, Tzemach H, Kinor N, Singer RH, Lionnet T, Shav-Tal Y.

Cell Rep. 2015 Apr 21;11(3):419-32. doi: 10.1016/j.celrep.2015.03.039. Epub 2015 Apr 9.

17.

Translation. An RNA biosensor for imaging the first round of translation from single cells to living animals.

Halstead JM, Lionnet T, Wilbertz JH, Wippich F, Ephrussi A, Singer RH, Chao JA.

Science. 2015 Mar 20;347(6228):1367-671. doi: 10.1126/science.aaa3380.

18.

A general method to improve fluorophores for live-cell and single-molecule microscopy.

Grimm JB, English BP, Chen J, Slaughter JP, Zhang Z, Revyakin A, Patel R, Macklin JJ, Normanno D, Singer RH, Lionnet T, Lavis LD.

Nat Methods. 2015 Mar;12(3):244-50, 3 p following 250. doi: 10.1038/nmeth.3256. Epub 2015 Jan 19.

19.

Single-molecule dynamics of enhanceosome assembly in embryonic stem cells.

Chen J, Zhang Z, Li L, Chen BC, Revyakin A, Hajj B, Legant W, Dahan M, Lionnet T, Betzig E, Tjian R, Liu Z.

Cell. 2014 Mar 13;156(6):1274-1285. doi: 10.1016/j.cell.2014.01.062.

20.

Imaging the transcriptome.

Lionnet T.

Mol Syst Biol. 2013 Nov 26;9:710. doi: 10.1038/msb.2013.67. No abstract available.

21.

Colocalization of different influenza viral RNA segments in the cytoplasm before viral budding as shown by single-molecule sensitivity FISH analysis.

Chou YY, Heaton NS, Gao Q, Palese P, Singer RH, Lionnet T.

PLoS Pathog. 2013;9(5):e1003358. doi: 10.1371/journal.ppat.1003358. Epub 2013 May 9. Erratum in: PLoS Pathog. 2013;9(7): doi/10.1371/annotation/8f53e7f2-2348-436f-b37e-a883a01e9bbd. Singer, Robert [corrected to Singer, Robert H].

22.

Transcription goes digital.

Lionnet T, Singer RH.

EMBO Rep. 2012 Apr 2;13(4):313-21. doi: 10.1038/embor.2012.31. Review.

23.

Spatial arrangement of an RNA zipcode identifies mRNAs under post-transcriptional control.

Patel VL, Mitra S, Harris R, Buxbaum AR, Lionnet T, Brenowitz M, Girvin M, Levy M, Almo SC, Singer RH, Chao JA.

Genes Dev. 2012 Jan 1;26(1):43-53. doi: 10.1101/gad.177428.111.

24.

Magnetic trap construction.

Lionnet T, Allemand JF, Revyakin A, Strick TR, Saleh OA, Bensimon D, Croquette V.

Cold Spring Harb Protoc. 2012 Jan 1;2012(1):133-8. doi: 10.1101/pdb.prot067496.

PMID:
22194260
25.

Single-molecule studies using magnetic traps.

Lionnet T, Allemand JF, Revyakin A, Strick TR, Saleh OA, Bensimon D, Croquette V.

Cold Spring Harb Protoc. 2012 Jan 1;2012(1):34-49. doi: 10.1101/pdb.top067488. Review.

PMID:
22194259
26.

Nuclear physics: quantitative single-cell approaches to nuclear organization and gene expression.

Lionnet T, Wu B, Grünwald D, Singer RH, Larson DR.

Cold Spring Harb Symp Quant Biol. 2010;75:113-26. doi: 10.1101/sqb.2010.75.057. Epub 2011 Apr 18.

27.

Modern fluorescent proteins and imaging technologies to study gene expression, nuclear localization, and dynamics.

Wu B, Piatkevich KD, Lionnet T, Singer RH, Verkhusha VV.

Curr Opin Cell Biol. 2011 Jun;23(3):310-7. doi: 10.1016/j.ceb.2010.12.004. Epub 2011 Jan 15. Review.

28.

A transgenic mouse for in vivo detection of endogenous labeled mRNA.

Lionnet T, Czaplinski K, Darzacq X, Shav-Tal Y, Wells AL, Chao JA, Park HY, de Turris V, Lopez-Jones M, Singer RH.

Nat Methods. 2011 Feb;8(2):165-70. doi: 10.1038/nmeth.1551. Epub 2011 Jan 16.

29.

Transcription of functionally related constitutive genes is not coordinated.

Gandhi SJ, Zenklusen D, Lionnet T, Singer RH.

Nat Struct Mol Biol. 2011 Jan;18(1):27-34. doi: 10.1038/nsmb.1934. Epub 2010 Dec 5.

30.

Transcription, one allele at a time.

Lionnet T, Singer RH.

Genome Biol. 2010;11(8):129. doi: 10.1186/gb-2010-11-8-129. Epub 2010 Aug 27.

31.

Imaging transcription in living cells.

Darzacq X, Yao J, Larson DR, Causse SZ, Bosanac L, de Turris V, Ruda VM, Lionnet T, Zenklusen D, Guglielmi B, Tjian R, Singer RH.

Annu Rev Biophys. 2009;38:173-96. doi: 10.1146/annurev.biophys.050708.133728. Review.

32.

Real-time observation of bacteriophage T4 gp41 helicase reveals an unwinding mechanism.

Lionnet T, Spiering MM, Benkovic SJ, Bensimon D, Croquette V.

Proc Natl Acad Sci U S A. 2007 Dec 11;104(50):19790-5. Epub 2007 Dec 5.

33.

Sequence-dependent twist-stretch coupling in DNA.

Lionnet T, Lankas F.

Biophys J. 2007 Feb 15;92(4):L30-2. Epub 2006 Dec 1.

34.

DNA mechanics as a tool to probe helicase and translocase activity.

Lionnet T, Dawid A, Bigot S, Barre FX, Saleh OA, Heslot F, Allemand JF, Bensimon D, Croquette V.

Nucleic Acids Res. 2006;34(15):4232-44. Epub 2006 Aug 25.

35.

Wringing out DNA.

Lionnet T, Joubaud S, Lavery R, Bensimon D, Croquette V.

Phys Rev Lett. 2006 May 5;96(17):178102. Epub 2006 May 5.

PMID:
16712339
36.

Statistical determination of the step size of molecular motors.

Neuman KC, Saleh OA, Lionnet T, Lia G, Allemand JF, Bensimon D, Croquette V.

J Phys Condens Matter. 2005 Nov 30;17(47):S3811-20. doi: 10.1088/0953-8984/17/47/012. Epub 2005 Nov 4.

PMID:
21690726
37.

Single-molecule assay reveals strand switching and enhanced processivity of UvrD.

Dessinges MN, Lionnet T, Xi XG, Bensimon D, Croquette V.

Proc Natl Acad Sci U S A. 2004 Apr 27;101(17):6439-44. Epub 2004 Apr 12.

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