Sebastian Maerkl
Professeur associé
sebastian.maerkl@epfl.ch +41 21 693 78 35 http://lbnc.epfl.ch
Nationalité : German
EPFL STI IBI-STI LBNC
BM 5130 (Bâtiment BM)
Station 17
CH-1015 Lausanne
+41 21 693 78 35
+41 21 693 11 61
Local: BM 5130
EPFL > STI > IBI-STI > LBNC
Web site: Site web: https://lbnc.epfl.ch/
Domaines de compétences
microfluidics, systems biology, cell-free synthetic biology, transcription factor biophysics / transcriptional regulation, molecular diagnostics
Publications
Publications Infoscience
Infoscience
A. J. van der Linden; M. Yelleswarapu; P. A. Pieters; Z. Swank; W. T. S. Huck et al. : A Multilayer Microfluidic Platform for the Conduction of Prolonged Cell-Free Gene Expression; Journal of Visualized Experiments. 2019-10-06. DOI : 10.3791/59655.
X. Wan; F. Volpetti; E. Petrova; C. French; S. J. Maerkl et al. : Cascaded amplifying circuits enable ultrasensitive cellular sensors for toxic metals; Nature Chemical Biology. 2019-05-01. DOI : 10.1038/s41589-019-0244-3.
Z. Swank; N. Laohakunakorn; S. J. Maerkl : Cell-free gene-regulatory network engineering with synthetic transcription factors; Proceedings Of The National Academy Of Sciences Of The United States Of America. 2019-03-26. DOI : 10.1073/pnas.1816591116.
B. Lavickova; S. J. Maerkl : A Simple, Robust, and Low-Cost Method To Produce the PURE Cell Free System; Acs Synthetic Biology. 2019-02-01. DOI : 10.1021/acssynbio.8b00427.
K. Woodruff; S. J. Maerkl : Microfluidic Transfection for High-Throughput Mammalian Protein Expression; Methods in Molecular Biology. 2018-09-22. DOI : 10.1007/978-1-4939-8730-6_13.
K. Woodruff; S. Maerkl : Microfluidic Module for Real-Time Generation of Complex Multimolecule Temporal Concentration Profiles; ANALYTICAL CHEMISTRY. 2018. DOI : 10.1021/acs.analchem.7b04099.
J.-C. Chang; Z. N. Swank; O. Keiser; S. Maerkl; E. Amstad : Microfluidic device for real-time formulation of reagents and their subsequent encapsulation into double emulsions; Scientific Reports. 2018. DOI : 10.1038/s41598-018-26542-x.
F. Volpetti; E. Petrova; S. J. Maerkl : A Microfluidic Biodisplay; Acs Synthetic Biology. 2017. DOI : 10.1021/acssynbio.7b00088.
S. J. Maerkl; F. Piraino; F. Volpetti ; A system, device and method for multiplexed biomarker diagnostics of ultra-low volume whole blood samples. WO2017102593 . 2017.
R. D. Bulushev; S. Marion; E. Petrova; S. J. Davis; S. J. Maerkl et al. : Single Molecule Localization and Discrimination of DNA–Protein Complexes by Controlled Translocation Through Nanocapillaries; Nano Letters. 2016. DOI : 10.1021/acs.nanolett.6b04165.
L. L. De Maddalena; H. Niederholtmeyer; M. Turtola; Z. N. Swank; G. A. Belogurov et al. : GreA and GreB Enhance Expression of Escherichia coil RNA Polymerase Promoters in a Reconstituted Transcription-Translation System; Acs Synthetic Biology. 2016. DOI : 10.1021/acssynbio.6b00017.
Z. Tatarova; J. P. Abbuehl; S. Maerkl; J. Huelsken : Microfluidic co-culture platform to quantify chemotaxis of primary stem cells; Lab On A Chip. 2016. DOI : 10.1039/c6lc00236f.
M. C. Blackburn; E. Petrova; B. E. Correia; S. J. Maerkl : Integrating gene synthesis and microfluidic protein analysis for rapid protein engineering; Nucleic Acids Research. 2016. DOI : 10.1093/nar/gkv1497.
K. Woodruff; S. J. Maerkl : A High-Throughput Microfluidic Platform for Mammalian Cell Transfection and Culturing; Scientific Reports. 2016. DOI : 10.1038/srep23937.
F. Piraino; F. Volpetti; C. Watson; S. J. Maerkl : A Digital-Analog Microfluidic Platform for Patient-Centric Multiplexed Biomarker Diagnostics of Ultralow Volume Samples; Acs Nano. 2016. DOI : 10.1021/acsnano.5b07939.
H. Niederholtmeyer; Z. Z. Sun; Y. Hori; E. Yeung; A. Verpoorte et al. : Rapid cell-free forward engineering of novel genetic ring oscillators; eLife. 2015-10-02. DOI : 10.7554/eLife.09771.
S. Maerkl; J. L. Garcia-Cordero ; High-throughput nanoimmunoassay chip. US2015285794 ; EP2908949 ; WO2014060869 . 2015.
J. L. Garcia-Cordero; S. J. Maerkl : Mechanically Induced Trapping of Molecular Interactions and Its Applications; Journal of laboratory automation. 2015. DOI : 10.1177/2211068215578586.
F. Volpetti; J. Garcia-Cordero; S. J. Maerkl : A microfluidic platform for high-throughput multiplexed protein quantitation; PloS One. 2015. DOI : 10.1371/journal.pone.0117744.
B. Knight; S. Kubik; B. Ghosh; M. J. Bruzzone; M. Geertz et al. : Two distinct promoter architectures centered on dynamic nucleosomes control ribosomal protein gene transcription; Genes & Development. 2014. DOI : 10.1101/gad.244434.114.
J. L. Garcia-Cordero; S. J. Maerkl : A 1024-sample serum analyzer chip for cancer diagnostics; Lab On A Chip. 2014. DOI : 10.1039/c31c51153g.
S. S. Acimovic; M. A. Ortega; V. Sanz; J. Berthelot; J. L. Garcia-Cordero et al. : LSPR Chip for Parallel, Rapid, and Sensitive Detection of Cancer Markers in Serum; Nano Letters. 2014. DOI : 10.1021/nl500574n.
J.-B. Nobs; S. J. Maerkl : Long-Term Single Cell Analysis of S. pombe on a Microfluidic Microchemostat Array; Plos One. 2014. DOI : 10.1371/journal.pone.0093466.
H. Niederholtmeyer; V. Stepanova; S. J. Maerkl : Implementation of cell-free biological networks at steady state; Proceedings Of The National Academy Of Sciences Of The United States Of America. 2013. DOI : 10.1073/pnas.1311166110.
A. S. Rajkumar; N. Denervaud; S. J. Maerkl : Mapping the fine structure of a eukaryotic promoter input-output function; Nature Genetics. 2013. DOI : 10.1038/ng.2729.
N. Dénervaud; J. Becker; R. Delgado-Gonzalo; P. Damay; A. S. Rajkumar et al. : A chemostat array enables the spatio-temporal analysis of the yeast proteome; Proceedings of the National Academy of Sciences of the United States of America. 2013. DOI : 10.1073/pnas.1308265110.
S. Rockel; M. Geertz; K. Hens; B. Deplancke; S. J. Maerkl : iSLIM: a comprehensive approach to mapping and characterizing gene regulatory networks; Nucleic Acids Research. 2013. DOI : 10.1093/nar/gks1323.
K. P. Woodruff; L. M. Fidalgo; S. Gobaa; M. Lutolf; S. Maerkl : Live mammalian cell arrays; Nature Methods. 2013. DOI : 10.1038/nmeth.2473.
J. L. Garcia-Cordero; C. Nembrini; A. Stano; J. A. Hubbell; S. J. Maerkl : A high-throughput nanoimmunoassay chip applied to large-scale vaccine adjuvant screening; Integrative Biology. 2013. DOI : 10.1039/c3ib20263a.
J. L. Garcia-Cordero; S. J. Maerkl : Multiplexed surface micropatterning of proteins with a pressure-modulated microfluidic button-membrane; Chemical Communications. 2013. DOI : 10.1039/c2cc37740c.
C. Schröter; S. Ares; L. G. Morelli; A. Isakova; K. Hens et al. : Topology and dynamics of the zebrafish segmentation clock core circuit; PLoS Biology. 2012. DOI : 10.1371/journal.pbio.1001364.
H. Niederholtmeyer; L. Xu; S. J. Maerkl : Real-Time mRNA Measurement during an; ACS Synthetic Biology. 2012. DOI : 10.1021/sb300104f.
M. Geertz; D. Shore; S. J. Maerkl : Massively parallel measurements of molecular interaction kinetics on a microfluidic platform; Proceedings Of The National Academy Of Sciences Of The United States Of America. 2012. DOI : 10.1073/pnas.1206011109.
A. S. Rajkumar; S. J. Maerkl : Rapid Synthesis of Defined Eukaryotic Promoter Libraries; Acs Synthetic Biology. 2012. DOI : 10.1021/sb300045j.
R. K. Shultzaberger; S. J. Maerkl; J. F. Kirsch; M. B. Eisen : Probing the Informational and Regulatory Plasticity of a Transcription Factor DNA-Binding Domain; Plos Genetics. 2012. DOI : 10.1371/journal.pgen.1002614.
S. Rockel; M. Geertz; S. J. Maerkl : MITOMI: A Microfluidic Platform for In Vitro Characterization of Transcription Factor–DNA Interaction; Gene Regulatory Networks. 2011. DOI : 10.1007/978-1-61779-292-2_6.
M. Geertz; S. Rockel; S. J. Maerkl : A High-Throughput Microfluidic Method for Generating and Characterizing Transcription Factor Mutant Libraries; Synthetic Gene Networks. 2011. DOI : 10.1007/978-1-61779-412-4_6.
B. Z. He; A. K. Holloway; S. J. Maerkl; M. Kreitman : Does Positive Selection Drive Transcription Factor Binding Site Turnover? A Test with Drosophila Cis-Regulatory Modules; PLoS Genetics. 2011. DOI : 10.1371/journal.pgen.1002053.
F. Rabanera; L. Miguel; S. J. Maerkl : A software-programmable microfluidic device for automated biology; Lab on a Chip. 2011. DOI : 10.1039/C0LC00537A.
S. J. Maerkl : Next generation microfluidic platforms for high-throughput protein biochemistry; Current Opinion in Biotechnology. 2011. DOI : 10.1016/j.copbio.2010.08.010.
L. M. Fidalgo; S. Maerkl : Software-reconfigurable universally-applicable microfluidic platform. 2010. p. 18-ANYL.
M. Geertz; S. J. Maerkl : Experimental strategies for studying transcription factor-DNA binding specificities; Briefings in Functional Genomics. 2010. DOI : 10.1093/bfgp/elq023.
L. Huang; O. J. F. Martin; S. J. Maerkl : Integration of plasmonic trapping in a microfluidic environment; Optics Express. 2009. DOI : 10.1364/OE.17.006018.
S. Maerkl; S. Quake : Experimental determination of the evolvability of a transcription factor; Proceedings of the National Academy of Sciences of the United States of America. 2009. DOI : 10.1073/pnas.0907688106.
S. Maerkl : Integration column: Microfluidic high-throughput screening; Integrative Biology. 2009. DOI : 10.1039/b819762h.
D. Gerber; S. Maerkl; S. Quake : An in vitro microfluidic approach to generating protein-interaction networks; Nature Methods. 2009. DOI : 10.1038/nmeth.1289.
S. Einav; D. Gerber; P. Bryson; E. Sklan; M. Elazar et al. : Discovery of a hepatitis C target and its pharmacological inhibitors by microfluidic affinity analysis; Nature Biotechnology. 2008.
S. Maerkl; S. Quake : A Systems Approach to Measuring the Binding Energy Landscapes of Transcription Factors; Science. 2007. DOI : 10.1126/science.1131007.
T. Thorsen; S. Maerkl; S. Quake : Microfluidic Large-Scale Integration; Science. 2002. DOI : 10.1126/science.1076996.
2019
A. J. van der Linden; M. Yelleswarapu; P. A. Pieters; Z. Swank; W. T. S. Huck et al. : A Multilayer Microfluidic Platform for the Conduction of Prolonged Cell-Free Gene Expression; Journal of Visualized Experiments. 2019-10-06. DOI : 10.3791/59655.
X. Wan; F. Volpetti; E. Petrova; C. French; S. J. Maerkl et al. : Cascaded amplifying circuits enable ultrasensitive cellular sensors for toxic metals; Nature Chemical Biology. 2019-05-01. DOI : 10.1038/s41589-019-0244-3.
Z. Swank; N. Laohakunakorn; S. J. Maerkl : Cell-free gene-regulatory network engineering with synthetic transcription factors; Proceedings Of The National Academy Of Sciences Of The United States Of America. 2019-03-26. DOI : 10.1073/pnas.1816591116.
B. Lavickova; S. J. Maerkl : A Simple, Robust, and Low-Cost Method To Produce the PURE Cell Free System; Acs Synthetic Biology. 2019-02-01. DOI : 10.1021/acssynbio.8b00427.
2018
K. Woodruff; S. J. Maerkl : Microfluidic Transfection for High-Throughput Mammalian Protein Expression; Methods in Molecular Biology. 2018-09-22. DOI : 10.1007/978-1-4939-8730-6_13.
K. Woodruff; S. Maerkl : Microfluidic Module for Real-Time Generation of Complex Multimolecule Temporal Concentration Profiles; ANALYTICAL CHEMISTRY. 2018. DOI : 10.1021/acs.analchem.7b04099.
J.-C. Chang; Z. N. Swank; O. Keiser; S. Maerkl; E. Amstad : Microfluidic device for real-time formulation of reagents and their subsequent encapsulation into double emulsions; Scientific Reports. 2018. DOI : 10.1038/s41598-018-26542-x.
2017
F. Volpetti; E. Petrova; S. J. Maerkl : A Microfluidic Biodisplay; Acs Synthetic Biology. 2017. DOI : 10.1021/acssynbio.7b00088.
S. J. Maerkl; F. Piraino; F. Volpetti ; A system, device and method for multiplexed biomarker diagnostics of ultra-low volume whole blood samples. WO2017102593 . 2017.
2016
R. D. Bulushev; S. Marion; E. Petrova; S. J. Davis; S. J. Maerkl et al. : Single Molecule Localization and Discrimination of DNA–Protein Complexes by Controlled Translocation Through Nanocapillaries; Nano Letters. 2016. DOI : 10.1021/acs.nanolett.6b04165.
L. L. De Maddalena; H. Niederholtmeyer; M. Turtola; Z. N. Swank; G. A. Belogurov et al. : GreA and GreB Enhance Expression of Escherichia coil RNA Polymerase Promoters in a Reconstituted Transcription-Translation System; Acs Synthetic Biology. 2016. DOI : 10.1021/acssynbio.6b00017.
Z. Tatarova; J. P. Abbuehl; S. Maerkl; J. Huelsken : Microfluidic co-culture platform to quantify chemotaxis of primary stem cells; Lab On A Chip. 2016. DOI : 10.1039/c6lc00236f.
M. C. Blackburn; E. Petrova; B. E. Correia; S. J. Maerkl : Integrating gene synthesis and microfluidic protein analysis for rapid protein engineering; Nucleic Acids Research. 2016. DOI : 10.1093/nar/gkv1497.
K. Woodruff; S. J. Maerkl : A High-Throughput Microfluidic Platform for Mammalian Cell Transfection and Culturing; Scientific Reports. 2016. DOI : 10.1038/srep23937.
F. Piraino; F. Volpetti; C. Watson; S. J. Maerkl : A Digital-Analog Microfluidic Platform for Patient-Centric Multiplexed Biomarker Diagnostics of Ultralow Volume Samples; Acs Nano. 2016. DOI : 10.1021/acsnano.5b07939.
2015
H. Niederholtmeyer; Z. Z. Sun; Y. Hori; E. Yeung; A. Verpoorte et al. : Rapid cell-free forward engineering of novel genetic ring oscillators; eLife. 2015-10-02. DOI : 10.7554/eLife.09771.
S. Maerkl; J. L. Garcia-Cordero ; High-throughput nanoimmunoassay chip. US2015285794 ; EP2908949 ; WO2014060869 . 2015.
J. L. Garcia-Cordero; S. J. Maerkl : Mechanically Induced Trapping of Molecular Interactions and Its Applications; Journal of laboratory automation. 2015. DOI : 10.1177/2211068215578586.
F. Volpetti; J. Garcia-Cordero; S. J. Maerkl : A microfluidic platform for high-throughput multiplexed protein quantitation; PloS One. 2015. DOI : 10.1371/journal.pone.0117744.
2014
B. Knight; S. Kubik; B. Ghosh; M. J. Bruzzone; M. Geertz et al. : Two distinct promoter architectures centered on dynamic nucleosomes control ribosomal protein gene transcription; Genes & Development. 2014. DOI : 10.1101/gad.244434.114.
J. L. Garcia-Cordero; S. J. Maerkl : A 1024-sample serum analyzer chip for cancer diagnostics; Lab On A Chip. 2014. DOI : 10.1039/c31c51153g.
S. S. Acimovic; M. A. Ortega; V. Sanz; J. Berthelot; J. L. Garcia-Cordero et al. : LSPR Chip for Parallel, Rapid, and Sensitive Detection of Cancer Markers in Serum; Nano Letters. 2014. DOI : 10.1021/nl500574n.
J.-B. Nobs; S. J. Maerkl : Long-Term Single Cell Analysis of S. pombe on a Microfluidic Microchemostat Array; Plos One. 2014. DOI : 10.1371/journal.pone.0093466.
2013
H. Niederholtmeyer; V. Stepanova; S. J. Maerkl : Implementation of cell-free biological networks at steady state; Proceedings Of The National Academy Of Sciences Of The United States Of America. 2013. DOI : 10.1073/pnas.1311166110.
A. S. Rajkumar; N. Denervaud; S. J. Maerkl : Mapping the fine structure of a eukaryotic promoter input-output function; Nature Genetics. 2013. DOI : 10.1038/ng.2729.
N. Dénervaud; J. Becker; R. Delgado-Gonzalo; P. Damay; A. S. Rajkumar et al. : A chemostat array enables the spatio-temporal analysis of the yeast proteome; Proceedings of the National Academy of Sciences of the United States of America. 2013. DOI : 10.1073/pnas.1308265110.
S. Rockel; M. Geertz; K. Hens; B. Deplancke; S. J. Maerkl : iSLIM: a comprehensive approach to mapping and characterizing gene regulatory networks; Nucleic Acids Research. 2013. DOI : 10.1093/nar/gks1323.
K. P. Woodruff; L. M. Fidalgo; S. Gobaa; M. Lutolf; S. Maerkl : Live mammalian cell arrays; Nature Methods. 2013. DOI : 10.1038/nmeth.2473.
J. L. Garcia-Cordero; C. Nembrini; A. Stano; J. A. Hubbell; S. J. Maerkl : A high-throughput nanoimmunoassay chip applied to large-scale vaccine adjuvant screening; Integrative Biology. 2013. DOI : 10.1039/c3ib20263a.
J. L. Garcia-Cordero; S. J. Maerkl : Multiplexed surface micropatterning of proteins with a pressure-modulated microfluidic button-membrane; Chemical Communications. 2013. DOI : 10.1039/c2cc37740c.
2012
C. Schröter; S. Ares; L. G. Morelli; A. Isakova; K. Hens et al. : Topology and dynamics of the zebrafish segmentation clock core circuit; PLoS Biology. 2012. DOI : 10.1371/journal.pbio.1001364.
H. Niederholtmeyer; L. Xu; S. J. Maerkl : Real-Time mRNA Measurement during an; ACS Synthetic Biology. 2012. DOI : 10.1021/sb300104f.
M. Geertz; D. Shore; S. J. Maerkl : Massively parallel measurements of molecular interaction kinetics on a microfluidic platform; Proceedings Of The National Academy Of Sciences Of The United States Of America. 2012. DOI : 10.1073/pnas.1206011109.
A. S. Rajkumar; S. J. Maerkl : Rapid Synthesis of Defined Eukaryotic Promoter Libraries; Acs Synthetic Biology. 2012. DOI : 10.1021/sb300045j.
R. K. Shultzaberger; S. J. Maerkl; J. F. Kirsch; M. B. Eisen : Probing the Informational and Regulatory Plasticity of a Transcription Factor DNA-Binding Domain; Plos Genetics. 2012. DOI : 10.1371/journal.pgen.1002614.
2011
S. Rockel; M. Geertz; S. J. Maerkl : MITOMI: A Microfluidic Platform for In Vitro Characterization of Transcription Factor–DNA Interaction; Gene Regulatory Networks. 2011. DOI : 10.1007/978-1-61779-292-2_6.
M. Geertz; S. Rockel; S. J. Maerkl : A High-Throughput Microfluidic Method for Generating and Characterizing Transcription Factor Mutant Libraries; Synthetic Gene Networks. 2011. DOI : 10.1007/978-1-61779-412-4_6.
B. Z. He; A. K. Holloway; S. J. Maerkl; M. Kreitman : Does Positive Selection Drive Transcription Factor Binding Site Turnover? A Test with Drosophila Cis-Regulatory Modules; PLoS Genetics. 2011. DOI : 10.1371/journal.pgen.1002053.
F. Rabanera; L. Miguel; S. J. Maerkl : A software-programmable microfluidic device for automated biology; Lab on a Chip. 2011. DOI : 10.1039/C0LC00537A.
S. J. Maerkl : Next generation microfluidic platforms for high-throughput protein biochemistry; Current Opinion in Biotechnology. 2011. DOI : 10.1016/j.copbio.2010.08.010.
2010
L. M. Fidalgo; S. Maerkl : Software-reconfigurable universally-applicable microfluidic platform. 2010. p. 18-ANYL.
M. Geertz; S. J. Maerkl : Experimental strategies for studying transcription factor-DNA binding specificities; Briefings in Functional Genomics. 2010. DOI : 10.1093/bfgp/elq023.
2009
L. Huang; O. J. F. Martin; S. J. Maerkl : Integration of plasmonic trapping in a microfluidic environment; Optics Express. 2009. DOI : 10.1364/OE.17.006018.
S. Maerkl : Integration column: Microfluidic high-throughput screening; Integrative Biology. 2009. DOI : 10.1039/b819762h.
2008
2007
2002
T. Thorsen; S. Maerkl; S. Quake : Microfluidic Large-Scale Integration; Science. 2002. DOI : 10.1126/science.1076996.
Enseignement & Phd
Enseignement
Life Sciences Engineering