Thomas Braun | DCI

Thomas Braun

Current Project

Single cell visual proteomics and nanomechanical sensing & imaging

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Short Biography

Thomas Braun received his M.Sc. in biophysical chemistry in 1998, and his Ph.D. 2002 in biophysics from the Biozentrum, University of Basel, Switzerland. During his Ph.D. thesis he applied high-resolution electron microscopy and digital image processing to study the structure and function of membrane proteins. Subsequently, he worked on nanomechanical sensors to characterize the mechanics of membrane proteins at the Institute of Physics, University Basel and the CRANN, Trinity College Dublin, Ireland. Since 2009 he works at C-CINA on new methods for single cell analysis and nanomechanical sensors for biological applications.

Publications
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Grayscale e-beam lithography: Effects of a delayed development for well-controlled 3D patterning

Mortelmans, T., Kazasiz, D., Guzenko, V.A., Padeste, C., Braun, T., Stahlberg, H., Li, X., Ekinci, Y.

Microelectronic Engineering 225, 111272 (2020)

21

‘Differential visual proteomics’: Enabling the proteome-wide comparison of protein structures of single-cells

Syntychaki, A., Rima, L., Schmidli, C., Stohler, T., Bieri, A., Sütterlin, R., Stahlberg, H., Castano-Diez, D., Braun, T.

J. of Proteome Research 18(9), 3521-3531 (2019)

20

Microfluidic protein isolation and sample preparation for high resolution cryo-EM

Schmidli, C., Albiez, S., Rima, L., Righetto, R., , ., Oliva, P., Kovacik, L., Stahlberg, H., Braun, T.

PNAS 116(30), 15007-15012 (2019)

19

Array based real-time measurement of fluid viscosities and mass-densities to monitor biological filament formation

Oliva, P., Bircher, B., Schönenberger, C.-A., Braun, T.

Lab on a Chip 19(7), 1305-1314 (2019)

18

Miniaturized sample preparation for transmission electron microscopy

Schmidli, C., Rima, L., Arnold, S., Stohler, T., Syntychaki, A., Bieri, A., Albiez, S., Goldie, K., Chami, M., Stahlberg, H., Braun, T.

Journal of Visual Experiments (JOVE) (137), (2018)

17

Miniaturizing EM Sample Preparation: Opportunities, Challenges and "Visual Proteomics"

Arnold, S., Müller, S., Schmidli, C., Syntychaki, A., Rima, L., Chami, M., Stahlberg, H., Goldie, K., Braun, T.

Proteomics 18(5-6), e1700176 (2018)

16

Direct protein crystallization on ultrathin membranes for diffraction measurements at X-ray free electron lasers

Opara, N., Martiel, I., Arnold, S., Braun, T., Stahlberg, H., Makita, M., David, C., Padeste, C.

J. of Applied Crystallography 50, 909-918 (2017)

15

Blotting-free and lossless cryo-electron microscopy grid preparation from nanoliter-sized protein samples and single-cell extracts

Arnold, S., Albiez, S., Bieri, A., Syntychaki, A., Adaixo, R., McLeod, R., Goldie, K., Stahlberg, H., Braun, T.

J. Struct. Biol. (197), 220-226 (2017)

DOI: 10.1016/j.jsb.2016.11.002

14

Patent: Cryo-electron microscopy from nanoliter sample volumes

Arnold, S., Stahlberg, H., Braun, T.

UniTecTra Technology Opportunity, Ref. No. UA-17/141 (patent application filed), (2016)

13

Total sample conditioning and preparation of nanoliter volumes for electron microscopy

Arnold, S., Albiez, S., Opara, N., Chami, M., Schmidli, C., Bieri, A., Padeste, C., Stahlberg, H., Braun, T.

ACS Nano 10, 4981-4988 (2016)

DOI: 10.1021/acsnano.6b01328

12

Automated high-throughput viscosity and density sensor using nanomechanical resonators

Bircher BA, Krenger R, Braun, T.

Sensor Actuat B-chem 223(C), 784–90 (2016)

DOI: doi:10.1016

11

openBEB: open biological experiment browser for correlative measurements

Ramakrishnan, C., Bieri, A., Sauter, N., Roizard, S., Ringler, P., Müller, S., Goldie, K., Enimanev, K., Stahlberg, H., Rinn, B., Braun, T.

BMC Bioinformatics 15, 84 (2014)

10

Exploring the interactome: microfluidic isolation of proteins and interacting partners for quantitative analysis by electron microscopy

Giss, D., Kemmerling, S., Dandey, V., Stahlberg, H., Braun, T.

Anal Chem 86(10), 4680-7 (2014)

9

Microfluidics to isolate untagged proteins from cell extracts for visual analysis by electron microscopy

D. Giss, S. Kemmerling, Dandey, V., Stahlberg, H., Braun, T.

17th International Conference on Miniaturized Systems for Chemistry and Life Science Conference proceeding, (2013)

8

Single-cell lysis for visual analysis by electron microscopy

Kemmerling, S., Arnold, S., Bircher, B. A., Sauter, N., Escobedo, C., Dernick, G., Hierlemann, A., Stahlberg, H., Braun, T.

J Struct Biol 183(3), 467-73 (2013)

7

Connecting micro-fluidics to electron microscopy

Kemmerling, Simon, Ziegler, J., Schweighauser, G., Arnold, S., Giss, D., Müller, S., Ringler, P., Goldie, K., Goedecke, N., Hierlemann, A., Stahlberg, H., Engel, A., Braun, T.

J Struct Biol 177(1), 128-134 (2012)

6

Ionic liquids as matrices in microfluidic sample deposition for high-mass matrix- assisted laser desorption/ionization mass spectrometry

Weidmann, S., Kemmerling, S., Madler, S., Stahlberg, H., Braun, T., Zenobi, R.

Eur J Mass Spectrom (Chichester, Eng) 18(3), 279-86 (2012)

5

Two-dimensional crystals: a powerful approach to assess structure, function and dynamics of membrane proteins

Stahlberg, H., Fotiadis, D., Scheuring, S., Remigy, H., Braun, T., Mitsuoka, K., Fujiyoshi, Y., Engel, A.

FEBS Lett 504(3), 166-72 (2001)

4

GlpF: A structural variant of the aquaporin tetramer

Braun, T., Philippsen, A., Wirtz, S., Borgnia, J., Agre, P., Kühlbrandt, W., Engel, A., Stahlberg, H.

In `Molecular biology and physiology of water and solute transport`, Hohmann & S. Nielsen (Eds.) Kluwer Academic, New York. ISBN 0-306-46501-9 , 13-22 (2000)

3

The 3.7 Å projection map of the glycerol facilitator GlpF: a variant of the aquaporin tetramer

Braun, T., Philippsen, A., Wirtz, S., Borgnia, M. J., Agre, P., Kühlbrandt, W., Engel, A., Stahlberg, H.

EMBO Rep 1(2), 183-9 (2000)

2

The 6.9-Å structure of GlpF: a basis for homology modeling of the glycerol channel from Escherichia coli

Stahlberg, H., Braun, T., de Groot, B., Philippsen, A., Borgnia, M. J., Agre, P., Kühlbrandt, W., Engel, A.

J Struct Biol 132(2), 133-41 (2000)

1

Team Leader Visual Proteomics

+41 61 387 32 28

C-CINA, Biozentrum, Uni Basel, Mattenstrasse 26, Room P34, CH-4058 Basel, Switzerland

thomas.braun@unibas.ch Full CV