(*equal contribution, #corresponding author)

Joao C Guimaraes. Design principles for controlling gene expression (2013). PhD Thesis.

Ana Luisa Correia, Joao C Guimaraes, Priska Auf der Maur, Duvini de Silva, Marcel P Trefny, Ryoko Okamoto, Sandro Bruno, Alexander Schmidt, Kirsten Mertz, Katrin Volkmann, Luigi M Terracciano, Alfred Zippelius, Marcus Vetter, Christian Kurzeder and Mohamed Bentires-Alj. Hepatic stellate cells suppress NK cell sustained breast cancer dormancy. Nature (2021).

Souvik Ghosh*, Joao C Guimaraes*#, Manuela Lanzafame, Alexander Schmidt, Afzal Pasha Syed, Beatrice Dimitriades, Anastasiya Börsch, Shreemoyee Ghosh, Nitish Mittal, Thomas Montavon, Ana Luisa Correia, Johannes Danner, Gunter Meister, Luigi M Terracciano, Sébastien Pfeffer, Salvatore Piscuoglio and Mihaela Zavolan#. Prevention of dsRNA‐induced interferon signaling by AGO1x is linked to breast cancer cell proliferation. EMBO J (2020).

Joao C Guimaraes#, Nitish Mittal, Alexandra Gnann, Dominik Jedlinski, Andrea Riba, Katarzyna Buczak, Alexander Schmidt and Mihaela Zavolan#. A rare codon-based translational program of cell proliferation. Genome Biology (2020).

Katharina Essig*, Nina Kronbeck*, Joao C Guimaraes*, Claudia Lohs*, Andreas Schlundt, Anne Hoffmann, Gesine Behrens, Sven Brenner, Joanna Kowalska, Cristina Lopez-Rodriguez, Jacek Jemielity, Helmut Holtmann, Kristin Reiche, Jörg Hackermüller, Michael Sattler, Mihaela Zavolan and Vigo Heissmeyer. Roquin targets mRNAs in a 3′-UTR-specific manner by different modes of regulation. Nature Communications, 9, 3810 (2018).

Guillaume Cambray, Joao C Guimaraes and Adam P Arkin. Evaluation of 244,000 synthetic sequences reveals design principles to optimize translation in Escherichia coliNature Biotechnology (2018).

Highlights: Nature Biotechnology

Katharina Essig, Desheng Hu, Joao C. Guimaraes, Dominik Alterauge, Stephanie Edelmann, Timsse Raj, Jan Kranich, Gesine Behrens, Alexander Heiseke, Stefan Floess, Juliane Klein, Andreas Maiser, Susan Marschall, Martin Hrabĕ de Angelis, Heinrich Leonhardt, Cornelis F. Calkhoven, Elfriede Noessner, Thomas Brocker, Jochen Huehn, Anne B. Krug, Mihaela Zavolan, Dirk Baumjohann and Vigo Heissmeyer. Roquin Suppresses the PI3K-mTOR Signaling Pathway to Inhibit T Helper Cell Differentiation and Conversion of Treg to Tfr Cells. Immunity (2017).

Nitish Mittal*, Joao C. Guimaraes*, Thomas Gross, Alexander Schmidt, Arnau Vina-Vilaseca, Danny D. Nedialkova, Florian Aeschimann, Sebastian A. Leidel, Anne Spang and Mihaela Zavolan. The Gcn4 Transcription Factor Reduces Protein Synthesis Capacity and Extends Yeast Lifespan. Nature Communications, 8, 457 (2017).

Joao C Guimaraes# and Mihaela Zavolan#. Patterns of ribosomal protein expression specify normal and malignant human cells (2016). Genome Biology, 17, 236.

Joao C Guimaraes, Miguel Rocha and Adam P Arkin. Transcript level and sequence determinants of protein abundance and noise in E. coli (2014). Nucleic Acids Research,  42, 4791-4799.

Joao C Guimaraes, Miguel Rocha, Adam P Arkin and Guillaume Cambray. D‑Tailor: automated analysis and design of DNA sequences (2014). Bioinformatics, 30, 1087-1094.

Joao C Guimaraes, Chang C Liu and Adam P Arkin. From biological parts to circuit design (2013). In Synthetic biology: tools and applications (pp. 63‑80). Elsevier.

Guillaume Cambray*, Joao C Guimaraes*, Vivek K Mutalik, Colin Lam, Quynh-Anh Mai, Tim Thimmaiah, James M Carothers, Adam P Arkin and Drew Endy. Measurement and Modeling of Intrinsic Transcription Terminators (2013). Nucleic Acids Research,  41, 5139-5148.

Vivek K Mutalik, Joao C Guimaraes, Guillaume Cambray, Colin Lam, Marc Juul Christoffersen, Quynh-Anh Mai, Andrew B Tran, Morgan Paull, Jay Keasling, Adam P Arkin and Drew Endy. Precise and Reliable Gene Expression via Standard Transcription and Translation Initiation Elements (2013). Nature Methods, 10, 354-360.

Vivek K Mutalik*, Joao C Guimaraes*, Guillaume Cambray*, Quynh‑Anh Mai, Marc Juul Christoffersen, Lance Martin, Ayumi Yu, Colin Lam, Cesar Rodriguez, Gaymon Bennett, Jay Keasling, Drew Endy and Adam P Arkin. Quantitative Estimation of Activity and Quality for Collections of Functional Genetic Elements (2013). Nature Methods, 10, 347-353.

Press release: Synberc, LBNL      Highlights: Nature, Nature Reviews Genetics, Wired

Vivek K Mutalik, Lei Qi, Joao C Guimaraes, Julius B Lucks and Adam P Arkin. Rationally Designed Families of Orthogonal RNA Regulators of Translation (2012). Nature Chemical Biology, 8, 447-454.

Highlights: Nature Chemical Biology


Contact info:

e-mail: joaoguima@gmail.com
twitter: @jcg

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