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Items: 28

1.

A tissue-specific self-interacting chromatin domain forms independently of enhancer-promoter interactions.

Brown JM, Roberts NA, Graham B, Waithe D, Lagerholm C, Telenius JM, De Ornellas S, Oudelaar AM, Scott C, Szczerbal I, Babbs C, Kassouf MT, Hughes JR, Higgs DR, Buckle VJ.

Nat Commun. 2018 Sep 21;9(1):3849. doi: 10.1038/s41467-018-06248-4.

2.

Lipid Composition but Not Curvature Is the Determinant Factor for the Low Molecular Mobility Observed on the Membrane of Virus-Like Vesicles.

Urbančič I, Brun J, Shrestha D, Waithe D, Eggeling C, Chojnacki J.

Viruses. 2018 Aug 8;10(8). pii: E415. doi: 10.3390/v10080415.

3.

Statistical Analysis of Scanning Fluorescence Correlation Spectroscopy Data Differentiates Free from Hindered Diffusion.

Schneider F, Waithe D, Lagerholm BC, Shrestha D, Sezgin E, Eggeling C, Fritzsche M.

ACS Nano. 2018 Aug 28;12(8):8540-8546. doi: 10.1021/acsnano.8b04080. Epub 2018 Jul 26.

4.

Nanoscale Spatiotemporal Diffusion Modes Measured by Simultaneous Confocal and Stimulated Emission Depletion Nanoscopy Imaging.

Schneider F, Waithe D, Galiani S, Bernardino de la Serna J, Sezgin E, Eggeling C.

Nano Lett. 2018 Jul 11;18(7):4233-4240. doi: 10.1021/acs.nanolett.8b01190. Epub 2018 Jun 19.

5.

Striking parallels between carotid body glomus cell and adrenal chromaffin cell development.

Hockman D, Adameyko I, Kaucka M, Barraud P, Otani T, Hunt A, Hartwig AC, Sock E, Waithe D, Franck MCM, Ernfors P, Ehinger S, Howard MJ, Brown N, Reese J, Baker CVH.

Dev Biol. 2018 May 25. pii: S0012-1606(17)30905-3. doi: 10.1016/j.ydbio.2018.05.016. [Epub ahead of print]

6.

Active and inactive β1 integrins segregate into distinct nanoclusters in focal adhesions.

Spiess M, Hernandez-Varas P, Oddone A, Olofsson H, Blom H, Waithe D, Lock JG, Lakadamyali M, Strömblad S.

J Cell Biol. 2018 Jun 4;217(6):1929-1940. doi: 10.1083/jcb.201707075. Epub 2018 Apr 9.

7.

Optimized processing and analysis of conventional confocal microscopy generated scanning FCS data.

Waithe D, Schneider F, Chojnacki J, Clausen MP, Shrestha D, de la Serna JB, Eggeling C.

Methods. 2018 May 1;140-141:62-73. doi: 10.1016/j.ymeth.2017.09.010. Epub 2017 Sep 28.

8.

Envelope glycoprotein mobility on HIV-1 particles depends on the virus maturation state.

Chojnacki J, Waithe D, Carravilla P, Huarte N, Galiani S, Enderlein J, Eggeling C.

Nat Commun. 2017 Sep 15;8(1):545. doi: 10.1038/s41467-017-00515-6.

9.

Polarity-Sensitive Probes for Superresolution Stimulated Emission Depletion Microscopy.

Sezgin E, Schneider F, Zilles V, Urbančič I, Garcia E, Waithe D, Klymchenko AS, Eggeling C.

Biophys J. 2017 Sep 19;113(6):1321-1330. doi: 10.1016/j.bpj.2017.06.050. Epub 2017 Jul 19.

10.

Cytoskeletal actin dynamics shape a ramifying actin network underpinning immunological synapse formation.

Fritzsche M, Fernandes RA, Chang VT, Colin-York H, Clausen MP, Felce JH, Galiani S, Erlenkämper C, Santos AM, Heddleston JM, Pedroza-Pacheco I, Waithe D, de la Serna JB, Lagerholm BC, Liu TL, Chew TL, Betzig E, Davis SJ, Eggeling C.

Sci Adv. 2017 Jun 21;3(6):e1603032. doi: 10.1126/sciadv.1603032. eCollection 2017 Jun.

11.

Diffusion of lipids and GPI-anchored proteins in actin-free plasma membrane vesicles measured by STED-FCS.

Schneider F, Waithe D, Clausen MP, Galiani S, Koller T, Ozhan G, Eggeling C, Sezgin E.

Mol Biol Cell. 2017 Jun 1;28(11):1507-1518. doi: 10.1091/mbc.E16-07-0536. Epub 2017 Apr 12.

12.

Super-resolution Microscopy Reveals Compartmentalization of Peroxisomal Membrane Proteins.

Galiani S, Waithe D, Reglinski K, Cruz-Zaragoza LD, Garcia E, Clausen MP, Schliebs W, Erdmann R, Eggeling C.

J Biol Chem. 2016 Aug 12;291(33):16948-62. doi: 10.1074/jbc.M116.734038. Epub 2016 Jun 16.

13.

Predicting the three-dimensional folding of cis-regulatory regions in mammalian genomes using bioinformatic data and polymer models.

Brackley CA, Brown JM, Waithe D, Babbs C, Davies J, Hughes JR, Buckle VJ, Marenduzzo D.

Genome Biol. 2016 Mar 31;17:59. doi: 10.1186/s13059-016-0909-0.

14.

Super-Resolved Traction Force Microscopy (STFM).

Colin-York H, Shrestha D, Felce JH, Waithe D, Moeendarbary E, Davis SJ, Eggeling C, Fritzsche M.

Nano Lett. 2016 Apr 13;16(4):2633-8. doi: 10.1021/acs.nanolett.6b00273. Epub 2016 Mar 4.

15.

A dynamic niche provides Kit ligand in a stage-specific manner to the earliest thymocyte progenitors.

Buono M, Facchini R, Matsuoka S, Thongjuea S, Waithe D, Luis TC, Giustacchini A, Besmer P, Mead AJ, Jacobsen SE, Nerlov C.

Nat Cell Biol. 2016 Feb;18(2):157-67. doi: 10.1038/ncb3299. Epub 2016 Jan 18.

16.

A comparative study on fluorescent cholesterol analogs as versatile cellular reporters.

Sezgin E, Can FB, Schneider F, Clausen MP, Galiani S, Stanly TA, Waithe D, Colaco A, Honigmann A, Wüstner D, Platt F, Eggeling C.

J Lipid Res. 2016 Feb;57(2):299-309. doi: 10.1194/jlr.M065326. Epub 2015 Dec 23.

17.

FoCuS-point: software for STED fluorescence correlation and time-gated single photon counting.

Waithe D, Clausen MP, Sezgin E, Eggeling C.

Bioinformatics. 2016 Mar 15;32(6):958-60. doi: 10.1093/bioinformatics/btv687. Epub 2015 Nov 20.

18.

Peroxisomal Import Reduces the Proapoptotic Activity of Deubiquitinating Enzyme USP2.

Reglinski K, Keil M, Altendorf S, Waithe D, Eggeling C, Schliebs W, Erdmann R.

PLoS One. 2015 Oct 20;10(10):e0140685. doi: 10.1371/journal.pone.0140685. eCollection 2015.

19.

STED-FLCS: An Advanced Tool to Reveal Spatiotemporal Heterogeneity of Molecular Membrane Dynamics.

Vicidomini G, Ta H, Honigmann A, Mueller V, Clausen MP, Waithe D, Galiani S, Sezgin E, Diaspro A, Hell SW, Eggeling C.

Nano Lett. 2015 Sep 9;15(9):5912-8. doi: 10.1021/acs.nanolett.5b02001. Epub 2015 Aug 7.

20.

A straightforward approach for gated STED-FCS to investigate lipid membrane dynamics.

Clausen MP, Sezgin E, Bernardino de la Serna J, Waithe D, Lagerholm BC, Eggeling C.

Methods. 2015 Oct 15;88:67-75. doi: 10.1016/j.ymeth.2015.06.017. Epub 2015 Jun 27.

21.

QuantiFly: Robust Trainable Software for Automated Drosophila Egg Counting.

Waithe D, Rennert P, Brostow G, Piper MD.

PLoS One. 2015 May 18;10(5):e0127659. doi: 10.1371/journal.pone.0127659. eCollection 2015.

22.

The Processed Amino-Terminal Fragment of Human TLR7 Acts as a Chaperone To Direct Human TLR7 into Endosomes.

Hipp MM, Shepherd D, Booth S, Waithe D, Reis e Sousa C, Cerundolo V.

J Immunol. 2015 Jun 1;194(11):5417-25. doi: 10.4049/jimmunol.1402703. Epub 2015 Apr 27.

23.

Spectral imaging to measure heterogeneity in membrane lipid packing.

Sezgin E, Waithe D, Bernardino de la Serna J, Eggeling C.

Chemphyschem. 2015 May 18;16(7):1387-94. doi: 10.1002/cphc.201402794. Epub 2015 Mar 5.

24.

Platelet activating factor contributes to vascular leak in acute dengue infection.

Jeewandara C, Gomes L, Wickramasinghe N, Gutowska-Owsiak D, Waithe D, Paranavitane SA, Shyamali NL, Ogg GS, Malavige GN.

PLoS Negl Trop Dis. 2015 Feb 3;9(2):e0003459. doi: 10.1371/journal.pntd.0003459. eCollection 2015 Feb.

25.

Stargazin-related protein γ₇ is associated with signalling endosomes in superior cervical ganglion neurons and modulates neurite outgrowth.

Waithe D, Ferron L, Dolphin AC.

J Cell Sci. 2011 Jun 15;124(Pt 12):2049-57. doi: 10.1242/jcs.084988. Epub 2011 May 24.

26.

Beta-subunits promote the expression of Ca(V)2.2 channels by reducing their proteasomal degradation.

Waithe D, Ferron L, Page KM, Chaggar K, Dolphin AC.

J Biol Chem. 2011 Mar 18;286(11):9598-611. doi: 10.1074/jbc.M110.195909. Epub 2011 Jan 13.

27.

The stargazin-related protein gamma 7 interacts with the mRNA-binding protein heterogeneous nuclear ribonucleoprotein A2 and regulates the stability of specific mRNAs, including CaV2.2.

Ferron L, Davies A, Page KM, Cox DJ, Leroy J, Waithe D, Butcher AJ, Sellaturay P, Bolsover S, Pratt WS, Moss FJ, Dolphin AC.

J Neurosci. 2008 Oct 15;28(42):10604-17. doi: 10.1523/JNEUROSCI.2709-08.2008.

28.

Bridging the gap between in silico and cell-based analysis of the nuclear factor-kappaB signaling pathway by in vitro studies of IKK2.

Ihekwaba AE, Wilkinson SJ, Waithe D, Broomhead DS, Li P, Grimley RL, Benson N.

FEBS J. 2007 Apr;274(7):1678-90. Epub 2007 Feb 20.

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