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Items: 44

1.

A Mutation in Histone H2B Represents a New Class of Oncogenic Driver.

Bennett RL, Bele A, Small EC, Will CM, Nabet B, Oyer JA, Huang X, Ghosh RP, Grzybowski AT, Yu T, Zhang Q, Riva A, Lele TP, Schatz GC, Kelleher NL, Ruthenburg AJ, Liphardt J, Licht JD.

Cancer Discov. 2019 Jul 23. doi: 10.1158/2159-8290.CD-19-0393. [Epub ahead of print]

PMID:
31337617
2.

Satb1 integrates DNA binding site geometry and torsional stress to differentially target nucleosome-dense regions.

Ghosh RP, Shi Q, Yang L, Reddick MP, Nikitina T, Zhurkin VB, Fordyce P, Stasevich TJ, Chang HY, Greenleaf WJ, Liphardt JT.

Nat Commun. 2019 Jul 19;10(1):3221. doi: 10.1038/s41467-019-11118-8.

3.

Physical confinement induces malignant transformation in mammary epithelial cells.

Lu YC, Chu T, Hall MS, Fu DJ, Shi Q, Chiu A, An D, Wang LH, Pardo Y, Southard T, Danko CG, Liphardt J, Nikitin AY, Wu M, Fischbach C, Coonrod S, Ma M.

Biomaterials. 2019 Oct;217:119307. doi: 10.1016/j.biomaterials.2019.119307. Epub 2019 Jun 26.

PMID:
31271857
4.

Strong triaxial coupling and anomalous Poisson effect in collagen networks.

Ban E, Wang H, Franklin JM, Liphardt JT, Janmey PA, Shenoy VB.

Proc Natl Acad Sci U S A. 2019 Apr 2;116(14):6790-6799. doi: 10.1073/pnas.1815659116. Epub 2019 Mar 20.

PMID:
30894480
5.

A fluorogenic array for temporally unlimited single-molecule tracking.

Ghosh RP, Franklin JM, Draper WE, Shi Q, Beltran B, Spakowitz AJ, Liphardt JT.

Nat Chem Biol. 2019 Apr;15(4):401-409. doi: 10.1038/s41589-019-0241-6. Epub 2019 Mar 11.

PMID:
30858596
6.

Mechanisms of Plastic Deformation in Collagen Networks Induced by Cellular Forces.

Ban E, Franklin JM, Nam S, Smith LR, Wang H, Wells RG, Chaudhuri O, Liphardt JT, Shenoy VB.

Biophys J. 2018 Jan 23;114(2):450-461. doi: 10.1016/j.bpj.2017.11.3739.

7.

Corrigendum to "Single-molecule in vivo imaging of bacterial respiratory complexes indicates delocalized oxidative phosphorylation" [Biochim. Biophys. Acta 1837(6) (2014) 811-824 DOI: 10.1016/j.bbabio.2014.01.020].

Llorente-Garcia I, Lenn T, Erhardt H, Harriman OL, Liu LN, Robson A, Chiu SW, Matthews S, Willis NJ, Bray CD, Lee SH, Shin JY, Bustamante C, Liphardt J, Friedrich T, Mullineaux CW, Leake MC.

Biochim Biophys Acta Bioenerg. 2018 Feb;1859(2):164. doi: 10.1016/j.bbabio.2017.11.005. Epub 2017 Nov 22. No abstract available.

8.

Origins of chemoreceptor curvature sorting in Escherichia coli.

Draper W, Liphardt J.

Nat Commun. 2017 Mar 21;8:14838. doi: 10.1038/ncomms14838.

9.

ATAC-see reveals the accessible genome by transposase-mediated imaging and sequencing.

Chen X, Shen Y, Draper W, Buenrostro JD, Litzenburger U, Cho SW, Satpathy AT, Carter AC, Ghosh RP, East-Seletsky A, Doudna JA, Greenleaf WJ, Liphardt JT, Chang HY.

Nat Methods. 2016 Dec;13(12):1013-1020. doi: 10.1038/nmeth.4031. Epub 2016 Oct 17.

10.

Human breast cancer invasion and aggression correlates with ECM stiffening and immune cell infiltration.

Acerbi I, Cassereau L, Dean I, Shi Q, Au A, Park C, Chen YY, Liphardt J, Hwang ES, Weaver VM.

Integr Biol (Camb). 2015 Oct;7(10):1120-34. doi: 10.1039/c5ib00040h. Epub 2015 May 11.

11.

Importin-β modulates the permeability of the nuclear pore complex in a Ran-dependent manner.

Lowe AR, Tang JH, Yassif J, Graf M, Huang WY, Groves JT, Weis K, Liphardt JT.

Elife. 2015 Mar 6;4. doi: 10.7554/eLife.04052.

12.

Single-molecule in vivo imaging of bacterial respiratory complexes indicates delocalized oxidative phosphorylation.

Llorente-Garcia I, Lenn T, Erhardt H, Harriman OL, Liu LN, Robson A, Chiu SW, Matthews S, Willis NJ, Bray CD, Lee SH, Shin JY, Bustamante C, Liphardt J, Friedrich T, Mullineaux CW, Leake MC.

Biochim Biophys Acta. 2014 Jun;1837(6):811-24. doi: 10.1016/j.bbabio.2014.01.020. Epub 2014 Feb 7. Erratum in: Biochim Biophys Acta. 2017 Nov 22;:.

13.

Rapid disorganization of mechanically interacting systems of mammary acini.

Shi Q, Ghosh RP, Engelke H, Rycroft CH, Cassereau L, Sethian JA, Weaver VM, Liphardt JT.

Proc Natl Acad Sci U S A. 2014 Jan 14;111(2):658-63. doi: 10.1073/pnas.1311312110. Epub 2013 Dec 30.

14.

Single-molecule superresolution imaging allows quantitative analysis of RAF multimer formation and signaling.

Nan X, Collisson EA, Lewis S, Huang J, Tamgüney TM, Liphardt JT, McCormick F, Gray JW, Chu S.

Proc Natl Acad Sci U S A. 2013 Nov 12;110(46):18519-24. doi: 10.1073/pnas.1318188110. Epub 2013 Oct 24.

15.

Scaffold nucleoporins Nup188 and Nup192 share structural and functional properties with nuclear transport receptors.

Andersen KR, Onischenko E, Tang JH, Kumar P, Chen JZ, Ulrich A, Liphardt JT, Weis K, Schwartz TU.

Elife. 2013 Jun 11;2:e00745. doi: 10.7554/eLife.00745.

16.

A physical sciences network characterization of non-tumorigenic and metastatic cells.

Physical Sciences - Oncology Centers Network, Agus DB, Alexander JF, Arap W, Ashili S, Aslan JE, Austin RH, Backman V, Bethel KJ, Bonneau R, Chen WC, Chen-Tanyolac C, Choi NC, Curley SA, Dallas M, Damania D, Davies PC, Decuzzi P, Dickinson L, Estevez-Salmeron L, Estrella V, Ferrari M, Fischbach C, Foo J, Fraley SI, Frantz C, Fuhrmann A, Gascard P, Gatenby RA, Geng Y, Gerecht S, Gillies RJ, Godin B, Grady WM, Greenfield A, Hemphill C, Hempstead BL, Hielscher A, Hillis WD, Holland EC, Ibrahim-Hashim A, Jacks T, Johnson RH, Joo A, Katz JE, Kelbauskas L, Kesselman C, King MR, Konstantopoulos K, Kraning-Rush CM, Kuhn P, Kung K, Kwee B, Lakins JN, Lambert G, Liao D, Licht JD, Liphardt JT, Liu L, Lloyd MC, Lyubimova A, Mallick P, Marko J, McCarty OJ, Meldrum DR, Michor F, Mumenthaler SM, Nandakumar V, O'Halloran TV, Oh S, Pasqualini R, Paszek MJ, Philips KG, Poultney CS, Rana K, Reinhart-King CA, Ros R, Semenza GL, Senechal P, Shuler ML, Srinivasan S, Staunton JR, Stypula Y, Subramanian H, Tlsty TD, Tormoen GW, Tseng Y, van Oudenaarden A, Verbridge SS, Wan JC, Weaver VM, Widom J, Will C, Wirtz D, Wojtkowiak J, Wu PH.

Sci Rep. 2013;3:1449. doi: 10.1038/srep01449.

17.

A single-molecule analysis reveals morphological targets for cellulase synergy.

Fox JM, Jess P, Jambusaria RB, Moo GM, Liphardt J, Clark DS, Blanch HW.

Nat Chem Biol. 2013 Jun;9(6):356-61. doi: 10.1038/nchembio.1227. Epub 2013 Apr 7.

PMID:
23563526
18.

mMaple: a photoconvertible fluorescent protein for use in multiple imaging modalities.

McEvoy AL, Hoi H, Bates M, Platonova E, Cranfill PJ, Baird MA, Davidson MW, Ewers H, Liphardt J, Campbell RE.

PLoS One. 2012;7(12):e51314. doi: 10.1371/journal.pone.0051314. Epub 2012 Dec 11.

19.

Molecular architecture and assembly principles of Vibrio cholerae biofilms.

Berk V, Fong JC, Dempsey GT, Develioglu ON, Zhuang X, Liphardt J, Yildiz FH, Chu S.

Science. 2012 Jul 13;337(6091):236-9. doi: 10.1126/science.1222981.

20.

Scanning angle interference microscopy reveals cell dynamics at the nanoscale.

Paszek MJ, DuFort CC, Rubashkin MG, Davidson MW, Thorn KS, Liphardt JT, Weaver VM.

Nat Methods. 2012 Jul 1;9(8):825-7. doi: 10.1038/nmeth.2077.

21.

What does physics have to do with cancer?

Michor F, Liphardt J, Ferrari M, Widom J.

Nat Rev Cancer. 2011 Aug 18;11(9):657-70. doi: 10.1038/nrc3092. Review.

22.

Selectivity mechanism of the nuclear pore complex characterized by single cargo tracking.

Lowe AR, Siegel JJ, Kalab P, Siu M, Weis K, Liphardt JT.

Nature. 2010 Sep 30;467(7315):600-3. doi: 10.1038/nature09285. Epub 2010 Sep 1.

23.

Q&A: Single-molecule localization microscopy for biological imaging.

McEvoy AL, Greenfield D, Bates M, Liphardt J.

BMC Biol. 2010 Aug 11;8:106. doi: 10.1186/1741-7007-8-106. No abstract available.

24.

Plasmon rulers as dynamic molecular rulers in enzymology.

Reinhard BM, Yassif JM, Vach P, Liphardt J.

Methods Enzymol. 2010;475:175-98. doi: 10.1016/S0076-6879(10)75008-4.

PMID:
20627158
25.

Potential of light-harvesting proton pumps for bioenergy applications.

Walter JM, Greenfield D, Liphardt J.

Curr Opin Biotechnol. 2010 Jun;21(3):265-70. doi: 10.1016/j.copbio.2010.03.007. Epub 2010 Apr 6. Review.

PMID:
20371172
26.

Self-organization of the Escherichia coli chemotaxis network imaged with super-resolution light microscopy.

Greenfield D, McEvoy AL, Shroff H, Crooks GE, Wingreen NS, Betzig E, Liphardt J.

PLoS Biol. 2009 Jun 16;7(6):e1000137. doi: 10.1371/journal.pbio.1000137. Epub 2009 Jun 23.

27.

Optical measurement of mechanical forces inside short DNA loops.

Shroff H, Sivak D, Siegel JJ, McEvoy AL, Siu M, Spakowitz A, Geissler PL, Liphardt J.

Biophys J. 2008 Mar 15;94(6):2179-86. Epub 2007 Dec 7.

28.

The great hunt for extra compliance.

Liphardt J.

Biophys J. 2007 Dec 15;93(12):4099. Epub 2007 Aug 31. No abstract available.

29.

Controlling DNA capture and propagation through artificial nanopores.

Trepagnier EH, Radenovic A, Sivak D, Geissler P, Liphardt J.

Nano Lett. 2007 Sep;7(9):2824-30. Epub 2007 Aug 18.

PMID:
17705552
30.

Tunable nanowire nonlinear optical probe.

Nakayama Y, Pauzauskie PJ, Radenovic A, Onorato RM, Saykally RJ, Liphardt J, Yang P.

Nature. 2007 Jun 28;447(7148):1098-101.

PMID:
17597756
31.

Use of plasmon coupling to reveal the dynamics of DNA bending and cleavage by single EcoRV restriction enzymes.

Reinhard BM, Sheikholeslami S, Mastroianni A, Alivisatos AP, Liphardt J.

Proc Natl Acad Sci U S A. 2007 Feb 20;104(8):2667-72. Epub 2007 Feb 16.

32.

Light-powering Escherichia coli with proteorhodopsin.

Walter JM, Greenfield D, Bustamante C, Liphardt J.

Proc Natl Acad Sci U S A. 2007 Feb 13;104(7):2408-12. Epub 2007 Feb 2.

33.

ZnO-Al2O3 and ZnO-TiO2 core-shell nanowire dye-sensitized solar cells.

Law M, Greene LE, Radenovic A, Kuykendall T, Liphardt J, Yang P.

J Phys Chem B. 2006 Nov 16;110(45):22652-63.

PMID:
17092013
34.

Optical trapping and integration of semiconductor nanowire assemblies in water.

Pauzauskie PJ, Radenovic A, Trepagnier E, Shroff H, Yang P, Liphardt J.

Nat Mater. 2006 Feb;5(2):97-101. Epub 2006 Jan 22.

PMID:
16429143
35.

Calibration of dynamic molecular rulers based on plasmon coupling between gold nanoparticles.

Reinhard BM, Siu M, Agarwal H, Alivisatos AP, Liphardt J.

Nano Lett. 2005 Nov;5(11):2246-52.

PMID:
16277462
36.

Biocompatible force sensor with optical readout and dimensions of 6 nm3.

Shroff H, Reinhard BM, Siu M, Agarwal H, Spakowitz A, Liphardt J.

Nano Lett. 2005 Jul;5(7):1509-14.

PMID:
16178266
37.

A molecular ruler based on plasmon coupling of single gold and silver nanoparticles.

Sönnichsen C, Reinhard BM, Liphardt J, Alivisatos AP.

Nat Biotechnol. 2005 Jun;23(6):741-5. Epub 2005 May 22.

PMID:
15908940
38.

Experimental test of Hatano and Sasa's nonequilibrium steady-state equality.

Trepagnier EH, Jarzynski C, Ritort F, Crooks GE, Bustamante CJ, Liphardt J.

Proc Natl Acad Sci U S A. 2004 Oct 19;101(42):15038-41. Epub 2004 Oct 6.

39.

Identifying kinetic barriers to mechanical unfolding of the T. thermophila ribozyme.

Onoa B, Dumont S, Liphardt J, Smith SB, Tinoco I Jr, Bustamante C.

Science. 2003 Mar 21;299(5614):1892-5.

40.

Equilibrium information from nonequilibrium measurements in an experimental test of Jarzynski's equality.

Liphardt J, Dumont S, Smith SB, Tinoco I Jr, Bustamante C.

Science. 2002 Jun 7;296(5574):1832-5.

41.

Reversible unfolding of single RNA molecules by mechanical force.

Liphardt J, Onoa B, Smith SB, Tinoco I Jr, Bustamante C.

Science. 2001 Apr 27;292(5517):733-7.

42.

Single-molecule studies of DNA mechanics.

Bustamante C, Smith SB, Liphardt J, Smith D.

Curr Opin Struct Biol. 2000 Jun;10(3):279-85.

PMID:
10851197
43.

Evidence for an RNA pseudoknot loop-helix interaction essential for efficient -1 ribosomal frameshifting.

Liphardt J, Napthine S, Kontos H, Brierley I.

J Mol Biol. 1999 May 7;288(3):321-35.

PMID:
10329145
44.

The role of RNA pseudoknot stem 1 length in the promotion of efficient -1 ribosomal frameshifting.

Napthine S, Liphardt J, Bloys A, Routledge S, Brierley I.

J Mol Biol. 1999 May 7;288(3):305-20.

PMID:
10329144

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