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Sebastian Maerkl

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Related publications (67)

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Massively parallel measurements of molecular interaction kinetics on a microfluidic platform

Sebastian Maerkl

Quantitative biology requires quantitative data. No high-throughput technologies exist capable of obtaining several hundred independent kinetic binding measurements in a single experiment. We present an integrated microfluidic device (k-MITOMI) for the sim ...

National Academy of Sciences2012

A 1024-sample serum analyzer chip for cancer diagnostics

Sebastian Maerkl

We present a platform that combines microarrays and microfluidic techniques to measure four protein biomarkers in 1024 serum samples for a total of 4096 assays per device. Detection is based on a surface fluorescence sandwich immunoassay with a limit of de ...

Royal Society of Chemistry2014

C2CAplus: A One-Pot Isothermal Circle-to-Circle DNA Amplification System

Sebastian Maerkl, Laura Sophie Grasemann

Rolling circle amplification (RCA) is a widely used DNA amplification method that uses circular template DNA as input and produces multimeric, linear single- or double-stranded DNA. Circle-to-circle amplification (C2CA) has further expanded this method by ...

Amer Chemical Soc2023

A High-Throughput Microfluidic Platform for Mammalian Cell Transfection and Culturing

Sebastian Maerkl, Kristina Pan Woodruff

Mammalian synthetic biology could be augmented through the development of high-throughput microfluidic systems that integrate cellular transfection, culturing, and imaging. We created a microfluidic chip that cultures cells and implements 280 independent t ...

Nature Research2016

Regulatory Components for Bacterial Cell-Free Systems Engineering

Sebastian Maerkl

Cell-free systems are advancing synthetic biology through fast prototyping and modularity. Complex regulatory networks can now be implemented in cell-free systems enabling various applications, such as diagnostic tool development, gene circuit prototyping, ...

AMER CHEMICAL SOC2024

A field-capable rapid plant DNA extraction protocol using microneedle patches for botanical surveying and monitoring

Jonathan Selz, Sebastian Maerkl

PremiseA novel protocol for rapid plant DNA extraction using microneedles is proposed, which supports botanic surveys, taxonomy, and systematics. This protocol can be conducted in the field with limited laboratory skills and equipment. The protocol is vali ...

WILEY2023

High-throughput nanoimmunoassay chip

Sebastian Maerkl

The nanoimmunoassay chip comprises at least flow and control layers, divided into several rows, each row containing a plurality of single assay units, each assay unit contains two spotting chambers (1) and an assay chamber in the middle, wherein neck valve ...

2015

LSPR Chip for Parallel, Rapid, and Sensitive Detection of Cancer Markers in Serum

Sebastian Maerkl

Label-free biosensing based on metallic nano-particles supporting localized surface plasmon resonances (LSPR) has recently received growing interest (Anker, J. N., et al. Nat. Mater. 2008, 7, 442-453). Besides its competitive sensitivity (Yonzon, C. R., et ...

Amer Chemical Soc2014

Real-Time mRNA Measurement during an

Sebastian Maerkl, Henrike Marie Niederholtmeyer

In vitro transcription and translation reactions have become popular for a bottom-up approach to synthetic biology. Concentrations of the mRNA intermediate are rarely determined, although knowledge of synthesis and degradation rates could facilitate ration ...

Amer Chemical Soc2012

Single Molecule Localization and Discrimination of DNA–Protein Complexes by Controlled Translocation Through Nanocapillaries

Aleksandra Radenovic, Sebastian Maerkl, Sanjin Marion, Roman Bulushev, Sebastian James Davis, Ekaterina Emilova Petrova

Through the use of optical tweezers we performed controlled translocations of DNA-protein complexes through nanocapillaries. We used RNA polymerase (RNAP) with two binding sites on a 7.2 kbp DNA fragment and a dCas9 protein tailored to have five binding si ...

American Chemical Society (ACS)2016

Systematic analysis of low-affinity transcription factor binding site clusters in vitro and in vivo establishes their functional relevance

Sebastian Maerkl, Shiyu Cheng, Amir Shahein, Maria Lopez Malo, Evan James Olson, Ivan Istomin

Binding to binding site clusters has yet to be characterized in depth, and the functional relevance of low-affinity clusters remains uncertain. We characterized transcription factor binding to low-affinity clusters in vitro and found that transcription fac ...

Nature Portfolio2022

Multiplexed surface micropatterning of proteins with a pressure-modulated microfluidic button-membrane

Sebastian Maerkl

We report the flow-based in situ patterning of multiple proteins in microfluidic channels by simply tuning the actuation pressure of a microfluidic button-membrane. We show that a single button-membrane can pattern several concentric protein annuli, and we ...

Royal Society of Chemistry2013

Microfluidic device for real-time formulation of reagents and their subsequent encapsulation into double emulsions

Esther Amstad, Sebastian Maerkl, Zoe Newell Swank, Jui-Chia Chang

Emulsion drops are often employed as picoliter-sized containers to perform screening assays. These assays usually entail the formation of drops encompassing discrete objects such as cells or microparticles and reagents to study interactions between the dif ...

Nature Research2018

Nature-inspired recycling of a protein mixture into a green fluorescent protein-based hydrogel

Francesco Stellacci, Sebastian Maerkl, Laura Roset Julia

Protein-based materials are biocompatible and have a variety of remarkable properties; consequently, they are finding more and more applications. Nature recycles proteins in multiple ways, ranging from bio-degradation (a slow approach) to fast recycling of ...

2024

iSLIM: a comprehensive approach to mapping and characterizing gene regulatory networks

Bart Deplancke, Sebastian Maerkl, Sylvie Rockel

Mapping gene regulatory networks is a significant challenge in systems biology, yet only a few methods are currently capable of systems-level identification of transcription factors (TFs) that bind a specific regulatory element. We developed a microfluidic ...

Oxford University Press2013

GreA and GreB Enhance Expression of Escherichia coil RNA Polymerase Promoters in a Reconstituted Transcription-Translation System

Sebastian Maerkl, Zoe Newell Swank, Henrike Marie Niederholtmeyer

Cell-free environments are becoming viable alternatives for implementing biological networks in synthetic biology. The reconstituted cell-free expression system (PURE) allows characterization of genetic networks under defined conditions but its applicabili ...

Amer Chemical Soc2016

A comprehensive review of Microfluidic approaches in cell-free synthetic biology

Sebastian Maerkl, Amogh Kumar Baranwal

Cell-free synthetic biology has gained increasing popularity owing to its ability to elucidate biological functions in isolation from intricate cellular environments and the capacity to build increasingly complex biochemical systems in vitro. But cellfree ...

Frontiers Media SA2024

A SARS-CoV-2 omicron (B.1.1.529) variant outbreak in a primary school in Geneva, Switzerland

Sebastian Maerkl, Idris Guessous, Grégoire Michielin

ELSEVIER SCI LTD2022

Epidemiological, virological and serological investigation of a SARS-CoV-2 outbreak (Alpha variant) in a primary school: A prospective longitudinal study

Sebastian Maerkl, Grégoire Michielin, Fatemeh Arefi

Objectives ...

PUBLIC LIBRARY SCIENCE2022

MITOMI: A Microfluidic Platform for In Vitro Characterization of Transcription Factor–DNA Interaction

Sebastian Maerkl, Sylvie Rockel

2011