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Suliana Manley

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Publications associées (86)

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A role for mitotic bookmarking of SOX2 in pluripotency and differentiation

Suliana Manley, David Michael Suter, Marion Leleu, Cédric Deluz, Aleksandr Benke, Andrea Callegari, Torgil Elias Friman, Mahé Cécile Raccaud, Daniel Strebinger

Mitotic bookmarking transcription factors remain bound to chromosomes during mitosis and were proposed to regulate phenotypic maintenance of stem and progenitor cells at the mitosis-to-G1 (M-G1) transition. However, mitotic bookmarking remains largely unex ...

Cold Spring Harbor Laboratory2016

Nanoscale Pattern Extraction from Relative Positions of Sparse 3D Localizations

Suliana Manley, Christian Sieben

Inferring the organization of fluorescently labeled nanosized structures from single molecule localization microscopy (SMLM) data, typically obscured by stochastic noise and background, remains challenging. To overcome this, we developed a method to extrac ...

AMER CHEMICAL SOC2021

Multicolor Single Molecule Tracking of Stochastically Active Synthetic Dyes

Suliana Manley, Aleksandr Benke, Julia Gunzenhäuser

Single particle tracking can reveal dynamic information at the scale of single molecules in living cells but thus far has been limited either in the range of potential protein targets or in the quality and number of tracks attainable. We demonstrate a new ...

American Chemical Society2012

Label-Free Imaging of DNA Interactions with 2D Materials

Aleksandra Radenovic, Suliana Manley, Nathan Cyprien Arsène Ronceray, Wayne Yang Wen Wei, Jenny Sülzle, Eveline Simone Mayner, Yuta Shimoda

Two-dimensional (2D) materials offer potential as substrates for biosensing devices, as their properties can be engineered to tune interactions between the surface and biomolecules. Yet, not many methods can measure these interactions in a liquid environme ...

2024

Nanoscale spatial organization of the HoxD gene cluster in distinct transcriptional states

Denis Duboule, Suliana Manley, Aleksandr Benke

Chromatin condensation plays an important role in the regulation of gene expression. Recently, it was shown that the transcriptional activation of Hoxd genes during vertebrate digit development involves modifications in 3D interactions within and around th ...

2015

Mechanosensitive Fluorescent Probes to Image Membrane Tension in Mitochondria, Endoplasmic Reticulum, and Lysosomes

Suliana Manley, Dora Mahecic

Measuring forces inside cells is particularly challenging. With the development of quantitative microscopy, fluorophores which allow the measurement of forces became highly desirable. We have previously introduced a mechanosensitive flipper probe, which re ...

AMER CHEMICAL SOC2019

Heterogeneity of AMPA receptor trafficking and molecular interactions revealed by superresolution analysis of live cell imaging

Suliana Manley, Christian Sieben

Simultaneous tracking of many thousands of individual particles in live cells is possible now with the advent of high-density superresolution imaging methods. We present an approach to extract local biophysical properties of cell-particle interaction from ...

Natl Acad Sciences2012

Quantitative evaluation of software packages for single-molecule localization microscopy

Michaël Unser, Suliana Manley, Daniel Sage, Hagay Kirshner, Thomas Pengo

The quality of super-resolution images obtained by single-molecule localization microscopy (SMLM) depends largely on the software used to detect and accurately localize point sources. In this work, we focus on the computational aspects of super-resolution ...

Nature Publishing Group2015

Optical measurement of cell membrane tension

Suliana Manley

Using a novel noncontact technique based on optical interferometry, we quantify the nanoscale thermal fluctuations of red blood cells (RBCs) and giant unilamellar vesicles (GUVs). The measurements reveal a nonvanishing tension coefficient for RBCs, which i ...

American Physical Society2006

Spotiflow: accurate and efficient spot detection for fluorescence microscopy with deep stereographic flow regression

Emine Berna Durmus, Suliana Manley, Joachim Lingner, Gioele La Manno, Martin Weigert, Irina Khven, Can Aztekin, Eftychia Kyriacou, Albert Dominguez Mantes, Anjalie Olivia Schläppi, Georgios Tsissios, Evangelia Skoufa

Identification of spot-like structures in large, noisy microscopy images is a crucial step for many life-science applications. Imaging-based spatial transcriptomics (iST), in particular, relies on the precise detection of millions of transcripts in low sig ...

Nature Publishing Group2025

FALCON: fast and unbiased reconstruction of high-density super-resolution microscopy data

Michaël Unser, Suliana Manley, Cédric René Jean Vonesch, Hagay Kirshner, Seamus John Holden, Lina Carlini

Super resolution microscopy such as STORM and (F) PALM is now a well known method for biological studies at the nanometer scale. However, conventional imaging schemes based on sparse activation of photo-switchable fluorescent probes have inherently slow te ...

Nature Publishing Group2014

Visualizing the HoxD Gene Cluster at the Nanoscale Level

Denis Duboule, Suliana Manley, Aleksandr Benke

Transcription of HoxD cluster genes in limbs is coordinated by two topologically associating domains (TADs), neighboring the cluster and containing various enhancers. Here, we use a combination of microscopy approaches and chromosome conformation capture t ...

2015

Reduced Dyes Enhance Single-Molecule Localization Density for Live Superresolution Imaging

Suliana Manley, Luc Reymond, Grazvydas Lukinavicius, Aleksandr Benke, Lina Carlini

Cell-permeable rhodamine dyes are reductively quenched by NaBH4 into a non-fluorescent leuco-rhodamine form. Quenching is reversible, and their fluorescence is recovered when the dyes are oxidized. In living cells, oxidation occurs spontaneously, and can r ...

Wiley-V C H Verlag Gmbh2014

Single particle maximum likelihood reconstruction from superresolution microscopy images

Suliana Manley, Julia Gunzenhäuser

Point localization superresolution microscopy enables fluorescently tagged molecules to be imaged beyond the optical diffraction limit, reaching single molecule localization precisions down to a few nanometers. For small objects whose sizes are few times t ...

2017

Arrested fluid-fluid phase separation in depletion systems: Implications of the characteristic length on gel formation and rheology

Suliana Manley

We investigate the structural, dynamical, and rheological properties of colloid-polymer mixtures in a volume fraction range of φ=0.15-0.35. Our systems are density-matched, residual charges are screened, and the polymer-colloid size ratio is ∼0.37. For the ...

American Institute of Physics2010

3D Structure From 2D Microscopy Images Using Deep Learning

Suliana Manley, Christian Sieben

Understanding the structure of a protein complex is crucial in determining its function. However, retrieving accurate 3D structures from microscopy images is highly challenging, particularly as many imaging modalities are two-dimensional. Recent advances i ...

Frontiers Media Sa2021

A Quantitative Approach to Evaluate the Impact of Fluorescent Labeling on Membrane-Bound HIV-Gag Assembly by Titration of Unlabeled Proteins

Suliana Manley, Romain Wyss, Julia Gunzenhäuser

The assembly process of the human immunodeficiency virus 1 (HIV-1) is driven by the viral polyprotein Gag. Fluorescence imaging of Gag protein fusions is widely performed and has revealed important information on viral assembly. Gag fusion proteins are com ...

Public Library Science2014

Koehler integrator device and application thereof in a multi-focal confocal microscope

Suliana Manley, Dora Mahecic, Kyle Michael Douglass

A Koehler integrator device (10) comprises a collimating lens (11) being arranged for collimating a light field created by an incoherent or partially coherent light source, a pair of planar first and second micro-lens arrays (12, 13) being arranged for rel ...

2020

Homogeneous multifocal excitation for high-throughput super-resolution imaging

Davide Gambarotto, Pierre Gönczy, Suliana Manley, Paul Guichard, Dora Mahecic, Kyle Michael Douglass, Niccolo Banterle, Virginie Hamel, Khalid Ashraf Mohie Ibrahim

Super-resolution microscopies have become an established tool in biological research. However, imaging throughput remains a main bottleneck in acquiring large datasets required for quantitative biology. Here we describe multifocal flat illumination for fie ...

Nature Publishing Group2020

High throughput 3D super-resolution microscopy reveals Caulobacter crescentus in vivo Z-ring organization

Suliana Manley, Seamus John Holden, Karin Lederballe Meibom, Thomas Pengo

We created a high-throughput modality of photoactivated localization microscopy (PALM) that enables automated 3D PALM imaging of hundreds of synchronized bacteria during all stages of the cell cycle. We used high-throughput PALM to investigate the nanoscal ...

National Academy of Sciences2014