Publications

1. Signal-processing and adaptive prototissue formation in metabolic DNA protocells.
   Samanta A, Hörner M, Liu W, Weber W, Walther A.
   Nat Commun. 2022 Jul 8;13(1):3968.
2. Designing electrochemical microfluidic multiplexed biosensors for on-site applications.
   Glatz RT, Ates HC, Mohsenin H, Weber W, Dincer C.
   Anal Bioanal Chem. 2022 Jul 6. Online ahead of print.
3. Spatially Defined Gene Delivery into Native Cells with the Red Light-Controlled OptoAAV Technology.
   Hörner M, Weber W.
   Curr Protoc. 2022 Jun;2(6):e440.
4. Benchmarking of Cph1 Mutants and DrBphP for Light-Responsive Phytochrome-Based Hydrogels with Reversibly Adjustable Mechanical Properties.
   Emig R, Hoess P, Cai H, Kohl P, Peyronnet R, Weber W, Hörner M.
   Adv Biol (Weinh). 2022 Jul;6(7):e2000337.
5. The living interface between synthetic biology and biomaterial design.
   Liu AP, Appel EA, Ashby PD, Baker BM, Franco E, Gu L, Haynes K, Joshi NS, Kloxin AM, Kouwer PHJ, Mittal J, Morsut L, Noireaux V, Parekh S, Schulman R, Tang SKY, Valentine MT, Vega SL, Weber W, Stephanopoulos N, Chaudhuri O.
   Nat Mater. 2022 Apr;21(4):390-397
6. Reversible Shielding and Immobilization of Liposomes and Viral Vectors by Tailored Antibody-Ligand Interactions.
   Thomas OS, Rebmann B, Tonn M, Schirmeister IC, Wehrle S, Becker J, Zea Jimenez GJ, Hook S, Jäger S, Klenzendorf M, Laskowski M, Kaier A, Pütz G, Zurbriggen MD, Weber W, Hörner M, Wagner HJ.
   Small. 2022 Feb;18(6):e2105157
7. A small and highly sensitive red/far-red optogenetic switch for applications in mammals.
   Zhou Y, Kong D, Wang X, Yu G, Wu X, Guan N, Weber W, Ye H.
   Nat Biotechnol. 2022 Feb;40(2):262-272.
8. Biosensor-Enabled Multiplexed On-Site Therapeutic Drug Monitoring of Antibiotics.
   Ates HC, Mohsenin H, Wenzel C, Glatz RT, Wagner HJ, Bruch R, Höfflin N, Spassov S, Streicher L, Lozano-Zahonero S, Flamm B, Trittler R, Hug MJ, Köhn M, Schmidt J, Schumann S, Urban GA, Weber W, Dincer C.
   Adv Mater. 2022 Jan;34(2):e2104555
9. Green Light-Controlled Gene Switch for Mammalian and Plant Cells.
   Schneider N, Chatelle CV, Ochoa-Fernandez R, Zurbriggen MD, Weber W.
   Methods Mol Biol. 2021;2312:89-107.
10. Spatiotemporally confined red light-controlled gene delivery at single-cell resolution using adeno-associated viral vectors.
    Hörner M, Jerez-Longres C, Hudek A, Hook S, Yousefi OS, Schamel WWA, Hörner C, Zurbriggen MD, Ye H, Wagner HJ, Weber W.
    Sci Adv. 2021 Jun 16;7(25):eabf0797.
11. Optogenetic Approaches for the Spatiotemporal Control of Signal Transduction Pathways.
    Kramer MM, Lataster L, Weber W, Radziwill G.
    Int J Mol Sci. 2021 May 18;22(10):5300.
12. Cross-TCR Antagonism Revealed by Optogenetically Tuning the Half-Life of the TCR Ligand Binding.
    Yousefi OS, Ruggieri M, Idstein V, von Prillwitz KU, Herr LA, Chalupsky J, Köhn M, Weber W, Timmer J, Schamel WWA.
    Int J Mol Sci. 2021 May 6;22(9):4920.
13. The Rise of Molecular Optogenetics.
    Di Ventura B, Weber W.
    Adv Biol (Weinh). 2021 May;5(5):e2100776.
14. Synthetic Biology: Emerging Concepts to Design and Advance Adeno-Associated Viral Vectors for Gene Therapy.
    Wagner HJ, Weber W, Fussenegger M.
    Adv Sci (Weinh). 2021 Feb 26;8(9):2004018
15. Synthetic Biology-Empowered Hydrogels for Medical Diagnostics.
    Wagner HJ, Mohsenin H, Weber W.
    Adv Biochem Eng Biotechnol. 2021;178:197-226.
16. Liquid-liquid phase separation of light-inducible transcription factors increases transcription activation in mammalian cells and mice
    Schneider N, Wieland FG, Kong D, Fischer A, Hörner M, Timmer J, Ye H, Weber W.
    Sci. Adv. 2021; 7 : eabd3568
17. Crispr-Powered Electrochemical Microfluidic Multiplexed Biosensor For Target Amplification-Free Mirna Diagnostics
    Bruch R, Johnston M, Kling A, Mattmüller T, Baaske J, Partel S, Madlener S, Weber W, Urban G, Dincer C
    Biosensors and Bioelectronics 2021; Apr 1;177:112887
18. Multichromatic control of signaling pathways in mammalian cells.
    Kramer MM, Mühlhäuser WWD, Weber W, Radziwill G.
    Adv Biosyst. 2021 May;5(5):e2000196
19. A versatile genetic control system in mammalian cells and mice responsive to clinically licensed sodium ferulate.
    Wang Y, Liao S, Guan N, Liu Y, Dong K, Weber W, Ye H.
    Sci Adv. 2020 Aug 7;6(32):eabb9484.
20. A graphical user interface to design high-throughput optogenetic experiments with the optoPlate-96.
    Thomas OS, Hörner M, Weber W.
    Nat Protoc. 2020 Sep;15(9):2785-2787
21. Synthesis of a light-controlled phytochrome-based extracellular matrix with reversibly adjustable mechanical properties.
    Hörner M, Hoess P, Emig R, Rebmann B, Weber W.
    Methods Mol Biol. 2020;2173:217-231.
22. Optogenetic downregulation of protein levels to control programmed cell death in mammalian cells with a dual blue-light switch.
    Fischbach P, Gonschorek P, Baaske J, Davies JA, Weber W, Zurbriggen MD.
    Methods Mol Biol. 2020;2173:159-170.
23. Optogenetic control of gene expression in plants in the presence of ambient white light.
    Ochoa-Fernandez R, Abel NB, Wieland FG, Schlegel J, Koch LA, Miller JB, Engesser R, Giuriani G, Brandl SM, Timmer J, Weber W, Ott T, Simon R, Zurbriggen MD.
    Nat Methods. 2020 Jul;17(7):717-725.
24. Production, Purification and Characterization of Recombinant Biotinylated Phytochrome B for Extracellular Optogenetics.
    Hörner M, Yousefi OS, Schamel WWA, Weber W.
    Bio Protoc. 2020 Mar 5;10(5):e3541.
25. Optogenetic Tuning of Ligand Binding to The Human T cell Receptor Using The opto-ligand-TCR System.
    Yousefi OS, Hörner M, Wess M, Idstein V, Weber W, Schamel WWA.
    Bio Protoc. 2020 Mar 5;10(5):e3540.
26. Smart Hydrogels for the Augmentation of Bone Regeneration by Endogenous Mesenchymal Progenitor Cell Recruitment.
    Lienemann PS, Vallmajo-Martin Q, Papageorgiou P, Blache U, Metzger S, Kiveliö AS, Milleret V, Sala A, Hoehnel S, Roch A, Reuten R, Koch M, Naveiras O, Weber FE, Weber W, Lutolf MP, Ehrbar M.
    Adv Sci (Weinh). 2020 Feb 5;7(7):1903395.
27. Human atrial bibroblast adaptation to heterogeneities in substrate stiffness.
    Emig R, Zgierski-Johnston CM, Beyersdorf F, Rylski B, Ravens U, Weber W, Kohl P, Hörner M, Peyronnet R.
    Front Physiol. 2020 Jan 10;10:1526.
28. Flow-based regenerable chemiluminescence receptor assay for the detection of tetracyclines.
    Meyer VK, Chatelle CV, Weber W, Niessner R, Seidel M.
    Anal Bioanal Chem. 2020 May;412(14):3467-3476
29. Optogenetic control of integrin-matrix interaction.
    Baaske J, Mühlhäuser WWD, Yousefi OS, Zanner S, Radziwill G, Hörner M, Schamel WWA, Weber W.
    Commun Biol. 2019 Jan 8;2(1):15.
30. Overcoming physiological barriers to nanoparticle delivery-are wetThere yet?
    Thomas OS, Weber W.
    Front Bioeng Biotechnol. 2019 Dec 17;7:415.
31. CRISPR/Cas13a-powered electrochemical microfluidic biosensor for nucleic acid amplification-free miRNA diagnostics.
    Bruch R, Baaske J, Chatelle C, Meirich M, Madlener S, Weber W, Dincer C, Urban GA.
    Adv Mater. 2019 Dec;31(51):e1905311
32. Production of phytochromes by high cell density E. coli fermentation.
    Hörner M, Gerhardt K, Salavei P, Hoess P, Härrer D, Kaiser J, Tabor JJ, Weber W.
    ACS Synth Biol. 2019 Oct 18;8(10):2442-2450.
33. High-throughput stem cell-based phenotypic screening through microniches.
    Kolb L, Allazetta S, Karlsson M, Girgin M, Weber W, Lutolf MP.
    Biomater Sci. 2019 Jul 23;7(8):3471-3479
34. OpEn-Tag-A customizable optogenetic toolbox to dissect subcellular signaling.
    Mühlhäuser WWD, Weber W, Radziwill G.
    ACS Synth Biol. 2019 Jul 19;8(7):1679-1684
35. Design of a human rhinovirus-14 3C protease-inducible caspase-3
    Wagner HJ, Weber W.
    Molecules. 2019 May 21;24(10).
36. Optogenetic control shows that kinetic proofreading regulates the activity of the T cell receptor.
    Yousefi OS, Günther M, Hörner M, Chalupsky J, Wess M, Brandl SM, Smith RW, Fleck C, Kunkel T, Zurbriggen MD, Höfer T, Weber W, Schamel WW.
    Elife. 2019 Apr 5;8. pii: e42475.
37. Light-controlled affinity purification of protein complexes exemplified by the resting ZAP70 interactome.
    Hörner M, Eble J, Yousefi OS, Schwarz J, Warscheid B, Weber W, Schamel WWA.
    Front Immunol. 2019 Feb 26;10:226.
38. Phytochrome-based extracellular matrix with reversibly tunable mechanical properties
    Hörner M, Raute K, Hummel B, Madl J, Creusen G, Thomas OS, Christen EH, Hotz N, Gübeli RJ, Engesser R, Rebmann B, Lauer J, Rolauffs B, Timmer J, Schamel WWA, Pruszak J, Römer W, Zurbriggen MD, Friedrich C, Walther A, Minguet S, Sawarkar R, Weber W.
    Adv Mater. 2019 Mar;31(12):e1806727.
39. Optogenetic control of integrin–matrix interaction.
    Baaske J, Mühlhäuser WWD, Yousefi OS, Zanner S, Radziwill G, Hörner M, Schamel WWA, Weber W .
    Commun Biol. 2019 Jan 8;2:15.
40. A two-step approach for the design and generation of nanobodies.
    Wagner HJ, Wehrle S, Weiss E, Cavallari M, Weber W.
    Int J Mol Sci. 2018 Nov 2;19(11). pii: E3444.
41. Biofunctionalized materials featuring feedforward and feedback circuits exemplified by the detection of Botulinum Toxin A.
    Wagner HJ, Kemmer S, Engesser R, Timmer J, Weber W.
    Adv Sci (Weinh). 2018 Nov 28;6(4):1801320.
42. Genetic code expansion method for temporal labeling of endogenously expressed proteins.
    Schneider N, Gäbelein C, Wiener J, Georgiev T, Gobet N, Weber W, Meier M.
    ACS Chem Biol. 2018 Nov 16;13(11):3049-3053.
43. Dual-controlled optogenetic system for the rapid down-regulation of protein levels in mammalian cells.
    Baaske J, Gonschorek P, Engesser R, Dominguez-Monedero A, Raute K, Fischbach P, Müller K, Cachat E, Schamel WWA, Minguet S, Davies JA, Timmer J, Weber W, Zurbriggen MD.
    Sci Rep. 2018 Oct 9;8(1):15024.
44. Generic and reversible opto-trapping of biomolecules.
    Beyer HM, Thomas OS, Riegel N, Zurbriggen MD, Weber W, Hörner M.
    Acta Biomater. 2018 Oct 1;79:276-282.
45. OptoBase: A web platform for molecular optogenetics.
    Kolar K, Knobloch C, Stork H, Žnidarič M, Weber W.
    ACS Synth Biol. 2018 Jul 20;7(7):1825-1828.
46. Characterization of the synthetic biology-inspired implementation of a materials-based positive feedback loop.
    Wagner HJ, Engesser R, Ermes K, Geraths C, Timmer J, Weber W.
    Data Brief. 2018 May 18;19:665-677.
47. A green-light-responsive system for the control of transgene expression in mammalian and plant cells.
    Chatelle C, Ochoa-Fernandez R, Engesser R, Schneider N, Beyer HM, Jones AR, Timmer J, Zurbriggen MD, Weber W.
    ACS Synth Biol. 2018 May 18;7(5):1349-1358.
48. Synthetic biology-inspired design of signal-amplifying materials systems
    Wagner HJ, Engesser R, Ermes K, Geraths C, Timmer J, Weber W.
    Materials Today 2018; doi: 10.1016/j.mattod.2018.04.006
49. Synthetic Biology makes polymer materials count
    Beyer HM, Engesser R, Hörner M, Koschmieder J, Beyer P, Timmer J, Zurbriggen MD, Weber W.
    Adv Mater. 2018 May;30(21):e1800472
50. Data-driven modeling of intracellular auxin fluxes indicates a dominant role of the ER in controlling nuclear auxin uptake.
    Middleton AM, Dal Bosco C, Chlap P, Bensch R, Harz H, Ren F, Bergmann S, Wend S, Weber W, Hayashi KI, Zurbriggen MD, Uhl R, Ronneberger O, Palme K, Fleck C, Dovzhenko A.
    Cell Rep. 2018 Mar 13;22(11):3044-3057.
51. Optogenetic control of focal adhesion kinase signaling.
    Hörner M, Chatelle C, Mühlhäuser WWD, Stocker DR, Coats M, Weber W, Radziwill G.
    Cell Signal. 2018 Jan;42:176-183.
52. Light-responsive promoters.
    Hörner M, Müller K, Weber W.
    Methods Mol Biol. 2017;1651:173-186.
53. Synthetic biological approaches to optogenetically control cell signaling.
    Kolar K, Weber W.
    Curr Opin Biotechnol. 2017 Jul 14;47:112-119.
54. Label-Free SnO₂ nanowire FET biosensor for protein detection.
    Jakob MH, Dong B, Gutsch S, Chatelle C, Krishnaraja A, Weber W, Zacharias M.
    Nanotechnology. 2017 Jun 16;28(24):245503
55. Light-regulated protein kinases based on the CRY2-CIB1 system.
    Mühlhäuser WW, Hörner M, Weber W, Radziwill G.
    Methods Mol Biol. 2017;1596:257-270.
56. Clinical on-site monitoring of ß-lactam antibiotics for a personalized antibiotherapy
    Bruch R, Chatelle C2, Kling A, Rebmann B, Wirth S, Schumann S, Weber W, Dincer C, Urban G.
    Sci Rep. 2017 Jun 9;7(1):3127
57. AKT-dependent phosphorylation of the SAM domain induces oligomerization and activation of the scaffold protein CNK1.
    Fischer A, Weber W, Warscheid B, Radziwill G.
    Biochim Biophys Acta. 2017 Jan;1864(1):89-100.
58. Optogenetic clustering of CNK1 reveals mechanistic insights in RAF and AKT signalling controlling cell fate decisions.
    Fischer A, Warscheid B, Weber W, Radziwill G.
    Sci Rep. 2016 Nov 30;6:38155.
59. Unearthing the transition rates between photoreceptor conformers.
    Smith RW, Helwig B, Westphal AH, Pel E, Hörner M, Beyer HM, Samodelov SL, Weber W, Zurbriggen MD, Borst JW, Fleck C.
    BMC Syst Biol. 2016 Nov 25;10(1):110.
60. StrigoQuant: A genetically encoded biosensor for quantifying strigolactone activity and specificity.
    Samodelov SL, Beyer HM, Guo X, Augustin M, Jia KP, Baz L, Ebenhöh O, Beyer P, Weber W, Al-Babili S, Zurbriggen MD.
    Sci Adv. 2016 Nov 4;2(11):e1601266.
61. Optogenetics - Bringing light into the darkness of mammalian signal transduction.
    Mühlhäuser WW, Fischer A, Weber W, Radziwill G.
    Biochim Biophys Acta. 2017 Feb;1864(2):280-292.
62. Cell-mediated proteolytic release of growth factors from Poly(Ethylene Glycol) matrices.
    Metzger S, Blache U, Lienemann PS, Karlsson M, Weber FE, Weber W, Ehrbar M.
    Macromol Biosci. 2016 Nov;16(11):1703-1713.
63. Multianalyte antibiotic detection on an electrochemical microfluidic platform.
    Kling A, Chatelle C, Armbrecht L, Qelibari E, Kieninger J, Dincer C, Weber W, Urban G.
    Anal Chem. 2016 Oct 18;88(20):10036-10043.
64. Cell-mediated proteolytic release of growth factors from Poly(Ethylene Glycol) matrices.
    Metzger S, Blache U, Lienemann PS, Karlsson M, Weber FE, Weber W, Ehrbar M.
    Macromol Biosci. 2016 Nov;16(11):1703-1713.
65. Upgrading biomaterials with synthetic biological modules for advanced medical applications.
    Wagner HJ, Sprenger A, Rebmann B, Weber W.
    Adv Drug Deliv Rev. 2016 Oct 1;105(Pt A):77-95. Review.
66. Optogenetically controlled RAF to characterize BRAF and CRAF protein kinase inhibitors.
    Chatelle CV, Hövermann D, Müller A, Wagner HJ, Weber W, Radziwill G.y
    Sci Rep. 2016 Mar 30;6:23713.
67. Optogenetics in Plants: Red/Far-Red Light Control of Gene Expression.
    Ochoa-Fernandez R, Samodelov SL, Brandl SM, Wehinger E, Müller K, Weber W, Zurbriggen MD.
    Methods Mol Biol. 2016;1408:125-39.
68. A synthetic mammalian network to compute population borders based on engineered reciprocal cell-cell communication.
    Kolar K, Wischhusen HM, Müller K, Karlsson M, Weber W, Zurbriggen MD.
    BMC Syst Biol. 2015 Dec 30;9(1):97.
69. Signalling to the nucleus under the control of light and small molecules.
    Juillot S, Beyer HM, Madl J, Weber W, Zurbriggen MD, Römer W.
    Mol Biosyst. 2016 Feb;12(2):345-9. 
70. Systematic reconstruction of binding and stability landscapes of the fluorogenic aptamer spinach.
    Ketterer S, Fuchs D, Weber W, Meier M.
    Nucleic Acids Res. 2015 Oct 30;43(19):9564-72.
71. AQUA Cloning: A Versatile and Simple Enzyme-Free Cloning Approach.
    Beyer HM, Gonschorek P, Samodelov SL, Meier M, Weber W, Zurbriggen MD.
    PLoS One. 2015 Sep 11;10(9):e0137652.
72. Red Light-Regulated Reversible Nuclear Localization of Proteins in Mammalian Cells and Zebrafish.
    Beyer HM, Juillot S, Herbst K, Samodelov SL, Müller K, Schamel WW, Römer W, Schäfer E, Nagy F, Strähle U, Weber W, Zurbriggen MD.
    ACS Synth Biol. 2015 Sep 18;4(9):951-8.
73. An optogenetic upgrade for the Tet-OFF system.
    Müller K, Zurbriggen MD, Weber W.
    Biotechnol Bioeng. 2015 Jul;112(7):1483-7.
74. Modularized CRISPR/dCas9 effector toolkit for target-specific gene regulation.
    Agne M, Blank I, Emhardt AJ, Gäbelein CG, Gawlas F, Gillich N, Gonschorek P, Juretschke TJ, Krämer SD, Louis N, Müller A, Rudorf A, Schäfer LM, Scheidmann MC, Schmunk LJ, Schwenk PM, Stammnitz MR, Warmer PM, Weber W, Fischer A, Kaufmann B, Wagner HJ, Radziwill G.
    ACS Synth Biol. 2014 Dec 19;3(12):986-9.
75. Transcription factor sensor system for parallel quantification of metabolites on-chip.
    Ketterer S, Hövermann D, Guebeli RJ, Bartels-Burgahn F, Riewe D, Altmann T, Zurbriggen MD, Junker B, Weber W, Meier M.
    Anal Chem. 2014 Dec 16;86(24):12152-8.
76. Modular Poly(ethylene glycol) Matrices for the Controlled 3D-Localized Osteogenic Differentiation of Mesenchymal Stem Cells.
    Metzger S, Lienemann PS, Ghayor C, Weber W, Martin I, Weber FE, Ehrbar M.
    Adv Healthc Mater. 2015 Mar;4(4):550-8
77. Orthogonal optogenetic triple-gene control in Mammalian cells.
    Müller K, Engesser R, Timmer J, Zurbriggen MD, Weber W.
    ACS Synth Biol. 2014 Nov 21;3(11):796-801.
78. Optogenetic control of signaling in mammalian cells.
    Beyer HM, Naumann S, Weber W, Radziwill G.
    Biotechnol J. 2015 Feb;10(2):273-83
79. Optogenetics for gene expression in mammalian cells.
    Müller K, Naumann S, Weber W, Zurbriggen MD.
    Biol Chem. 2015 Feb;396(2):145-52.
80. Microfluidic Synthesis of Pharmacologically Responsive Supramolecular Biohybrid Microgels.
    Hövermann D, Rossow T, Gübeli RJ, Seiffert S, Weber W.
    Macromol Biosci. 2014 Dec;14(12):1730-4.
81. A chemical switch for controlling viral infectivity.
    Hörner M, Kaufmann B, Cotugno G, Wiedtke E, Büning H, Grimm D, Weber W.
    Chem Commun (Camb). 2014 Sep 14;50(71):10319-22.
82. Focal adhesion kinase (FAK) perspectives in mechanobiology: implications for cell behaviour.
    Tomakidi P, Schulz S, Proksch S, Weber W, Steinberg T.
    Cell Tissue Res. 2014 Sep;357(3):515-26.
83. Control of gene expression using a red- and far-red light-responsive bi-stable toggle switch.
    Müller K, Zurbriggen MD, Weber W.
    Nat Protoc. 2014 Mar;9(3):622-32.
84. A red light-controlled synthetic gene expression switch for plant systems.
    Müller K, Siegel D, Rodriguez Jahnke F, Gerrer K, Wend S, Decker EL, Reski R, Weber W, Zurbriggen MD.
    Mol Biosyst. 2014 Jul;10(7):1679-88.
85. Optogenetic control of protein kinase activity in mammalian cells.
    Wend S, Wagner HJ, Müller K, Zurbriggen MD, Weber W, Radziwill G.
    ACS Synth Biol. 2014 May 16;3(5):280-5.
86. Pharmacologically controlled protein switch for ON-OFF regulation of growth factor activity.
    Karlsson M, Rebmann B, Lienemann PS, Sprossmann N, Ehrbar M, Radziwill G, Weber W.
    Sci Rep. 2013;3:2716. doi: 10.1038/srep02716.
87. Remote-controlled hydrogel depots for time-scheduled vaccination.
    Gübeli RJ, Hövermann D, Seitz H, Rebmann B, Schoenmakers RG, Ehrbar M, El Hamri GC, El Baba MD, Werner M, Müller M, Weber W.
    Adv Funct Mat 2013;23,5355-5362.
    Front Cover Image of Issue 23 (43).
88. Pharmacologically triggered hydrogel for scheduling hepatitis B vaccine administration.
    Gübeli RJ, Schöneweis K, Huzly D, Ehrbar M, Charpin-El Hamri G, El-Baba MD, Urban S, Weber W.
    Sci Rep. 2013;3:2610.
89. Design, synthesis, and application of stimulus-sensing biohybrid hydrogels.
    Hotz N, Wilcke L, Weber W.
    Macromol Rapid Commun. 2013 Oct;34(20):1594-610.
90. Detection of real-time dynamics of drug-target interactions by ultralong nanowalls.
    Menzel A, Gübeli RJ, Güder F, Weber W, Zacharias M.
    Lab Chip. 2013 Nov 7;13(21):4173-9.
91. Synthesis of phycocyanobilin in mammalian cells.
    Müller K, Engesser R, Timmer J, Nagy F, Zurbriggen MD, Weber W.
    Chem Commun (Camb). 2013 Oct 11;49(79):8970-2.
92. A biohybrid hydrogel for the urate-responsive release of urate oxidase.
    Geraths C, Daoud-El Baba M, Charpin-El Hamri G, Weber W.
    J Control Release. 2013 Oct 10;171(1):57-62.
93. A quantitative ratiometric sensor for time-resolved analysis of auxin dynamics.
    Wend S, Dal Bosco C, Kämpf MM, Ren F, Palme K, Weber W, Dovzhenko A, Zurbriggen MD.
    Sci Rep. 2013;3:2052.
94. A generic strategy for pharmacological caging of growth factors for tissue engineering.
    Karlsson M, Lienemann PS, Sprossmann N, Heilmann K, Brummer T, Lutolf MP, Ehrbar M, Weber W.
    Chem Commun (Camb). 2013 Jul 7;49(53):5927-9.
95. Pharmacologically tunable polyethylene-glycol-based cell growth substrate.
    Gübeli RJ, Laird D, Ehrbar M, Ritter BS, Steinberg T, Tomakidi P, Weber W.
    Acta Biomater. 2013 Sep;9(9):8272-8.
96. Multi-chromatic control of mammalian gene expression and signaling.
    Müller K, Engesser R, Schulz S, Steinberg T, Tomakidi P, Weber CC, Ulm R, Timmer J, Zurbriggen MD, Weber W.
    Nucleic Acids Res. 2013 Jul;41(12):e124.
97. Optogenetic tools for mammalian systems.
    Müller K, Weber W.
    Mol Biosyst. 2013 Apr 5;9(4):596-608.
98. A red/far-red light-responsive bi-stable toggle switch to control gene expression in mammalian cells.
    Müller K, Engesser R, Metzger S, Schulz S, Kämpf MM, Busacker M, Steinberg T, Tomakidi P, Ehrbar M, Nagy F, Timmer J, Zubriggen MD, Weber W.
    Nucleic Acids Res. 2013 Apr;41(7):e77.
99. A versatile approach to engineering biomolecule-presenting cellular microenvironments.
    Lienemann PS, Karlsson M, Sala A, Wischhusen HM, Weber FE, Zimmermann R, Weber W, Lutolf MP, Ehrbar M.
    Adv Healthc Mater. 2013 Feb;2(2):292-6.
100. Increasing the dynamic control space of mammalian transcription devices by combinatorial assembly of homologous regulatory elements from different bacterial species.
     Bacchus W, Weber W, Fussenegger M.
     Metab Eng. 2013 Jan;15:144-50.
101. Synthesis and characterization of a stimulus-responsive L-ornithine-degrading hydrogel.
     Geraths C, Eichstädter L, Gübeli RJ, Christen EH, Friedrich C, Weber W.
     J Control Release. 2013 Jan 10;165(1):38-43.
102. A Hydrogel Sensing Pathological Urate Concentrations.
     Geraths C, Christen EH, Weber W.
     Macromol Rapid Commun. 2012 Oct 19. [Epub ahead of print]
103. Synthetic two-way communication between mammalian cells.
     Bacchus W, Lang M, El-Baba MD, Weber W, Stelling J, Fussenegger M.
     Nat Biotechnol. 2012 Oct;30(10):991-6.
104. Building synthetic cell systems from the ground up.
     Alper H, Weber W.
     Curr Opin Biotechnol. 2012 Oct;23(5):641-3.
105. Evaluation of bicinchoninic acid as a ligand for copper(I)-catalyzed azide-alkyne bioconjugations.
     Christen EH, Gübeli RJ, Kaufmann B, Merkel L, Schoenmakers R, Budisa N, Fussenegger M, Weber W, Wiltschi B.
     Org Biomol Chem. 2012 Sep 7;10(33):6629-32.
106. Molecular switches in animal cells.
     Hörner M, Weber W.
     FEBS Lett. 2012 Jul 16;586(15):2084-96.
107. Synthesis and characterization of PEG-based drug-responsive biohybrid hydrogels.
     Gübeli RJ, Ehrbar M, Fussenegger M, Friedrich C, Weber W.
     Macromol Rapid Commun. 2012 Aug 14;33(15):1280-5.
108. Rewiring and dosing of systems modules as a design approach for synthetic mammalian signaling networks.
     Kämpf MM, Engesser R, Busacker M, Hörner M, Karlsson M, Zurbriggen MD, Fussenegger M, Timmer J, Weber W.
     Mol Biosyst. 2012 Jun;8(6):1824-32.
109. Plant and bacterial systems biology as platform for plant synthetic bio(techno)logy.
     Zurbriggen MD, Moor A, Weber W.
     J Biotechnol. 2012 Jul 31;160(1-2):80-90.
110. Therapeutic synthetic gene networks.
     Karlsson M, Weber W.
     Curr Opin Biotechnol. 2012 Oct;23(5):703-11.
111. Synthetic biology for mammalian cell technology and materials sciences.
     Gübeli RJ, Burger K, Weber W.
     Biotechnol Adv. 2013 Jan-Feb;31(1):68-78.
112. Synthetic biology: programming cells for biomedical applications.
     Hörner M, Reischmann N, Weber W.
     Perspect Biol Med. 2012;55(4):490-502.
113. The food additive vanillic acid controls transgene expression in mammalian cells and mice.
     Gitzinger M, Kemmer C, Fluri DA, El-Baba MD, Weber W, Fussenegger M.
     Nucleic Acids Res. 2012 Mar;40(5):e37.
114. Emerging biomedical applications of synthetic biology.
     Weber W, Fussenegger M.
     Nat Rev Genet. 2011 Nov 29;13(1):21-35.
115. Synthetic gene networks as blueprint for smart hydrogels.
     Kämpf MM, Weber W.
     Methods Mol Biol. 2012;813:377-89.
116. Design and construction of synthetic gene networks in mammalian cells.
     Karlsson M, Weber W, Fussenegger M.
     Methods Mol Biol. 2012;813:359-76.
117. Synthetic mammalian gene networks as a blueprint for the design of interactive biohybrid materials.
     Jakobus K, Wend S, Weber W.
     Chem Soc Rev. 2012 Feb 7;41(3):1000-18.
118. De novo design and construction of an inducible gene expression system in mammalian cells.
     Karlsson M, Weber W, Fussenegger M.
     Methods Enzymol. 2011;497:239-53.
119. Molecular diversity--the toolbox for synthetic gene switches and networks.
     Weber W, Fussenegger M.
     Curr Opin Chem Biol. 2011 Jun;15(3):414-20.
120. Conditional DNA-protein interaction confer stimulus-sensing properties to biohybrid materials.
     Christen EH, Karlsson M, Kämpf MM, Schoenmakers R, Gübeli RJ, Wischhusen HM, Friedrich C, Fussenegger M, Weber W.
     Adv Funct Mat 2011;21,2861-2867
121. Design of synthetic mammalian quorum-sensing systems.
     Weber W, Fussenegger M.
     Methods Mol Biol. 2011;692:235-49.
122. A gene therapy techology-based biomaterial for the trigger-inducible release of biopharmaceuticals in mice.
     Kämpf MM, Christen EH, Ehrbar M, El Baba MD, El Hambri GC, Fussenegger M, Weber W.
     Adv Funct Mat 2010;20,2534-2538
123. Synthetic gene networks in mammalian cells.
     Weber W, Fussenegger M.
     Curr Opin Biotechnol. 2010 Oct;21(5):690-6.
124. Synthetic biology in the analysis and engineering of signaling processes.
     Kämpf MM, Weber W.
     Integr Biol (Camb). 2010 Jan;2(1):12-24.
125. The impact of synthetic biology on drug discovery.
     Weber W, Fussenegger M.
     Drug Discov Today. 2009 Oct;14(19-20):956-63.
126. A synthetic metabolite-based mammalian inter-cell signaling system.
     Weber W, Schuetz M, Dénervaud N, Fussenegger M.
     Mol Biosyst. 2009 Jul;5(7):757-63.
127. Controlling transgene expression in subcutaneous implants using a skin lotion containing the apple metabolite phloretin.
     Gitzinger M, Kemmer C, El-Baba MD, Weber W, Fussenegger M.
     Proc Natl Acad Sci U S A. 2009 Jun 30;106(26):10638-43.
128. Magnet-guided transduction of mammalian cells and mice using engineered magnetic lentiviral particles.
     Weber W, Lienhart C, Daoud-El Baba M, Grass RN, Kohler T, Müller R, Stark WJ, Fussenegger M.
     J Biotechnol. 2009 May 20;141(3-4):118-22.
129. A general strategy for the production of difficult-to-express inducer-dependent bacterial repressor proteins in Escherichia coli.
     Christen EH, Karlsson M, Kämpf MM, Weber CC, Fussenegger M, Weber W.
     Protein Expr Purif. 2009 Aug;66(2):158-64.
130. Engineering of synthetic mammalian gene networks.
     Weber W, Fussenegger M.
     Chem Biol. 2009 Mar 27;16(3):287-97.
131. A novel hybrid dual-channel catalytic-biological sensor system for assessment of fruit quality.
     Weber W, Luzi S, Karlsson M, Fussenegger M.
     J Biotechnol. 2009 Feb 23;139(4):314-7.
132. A biotin-triggered genetic switch in mammalian cells and mice.
     Weber W, Lienhart C, Baba MD, Fussenegger M.
     Metab Eng. 2009 Mar;11(2):117-24.
133. A synthetic mammalian electro-genetic transcription circuit.
     Weber W, Luzi S, Karlsson M, Sanchez-Bustamante CD, Frey U, Hierlemann A, Fussenegger M.
     Nucleic Acids Res. 2009 Mar;37(4):e33.
134. Optimisation of protein expression and establishment of the Wave Bioreactor for Baculovirus/insect cell culture.
     Weber W, Weber E, Geisse S, Memmert K.
     Cytotechnology. 2002 Jan;38(1-3):77-85.
135. Drug-sensing hydrogels for the inducible release of biopharmaceuticals.
     Ehrbar M, Schoenmakers R, Christen EH, Fussenegger M, Weber W.
     Nat Mater. 2008 Oct;7(10):800-4.
136. A synthetic mammalian gene circuit reveals antituberculosis compounds.
     Weber W, Schoenmakers R, Keller B, Gitzinger M, Grau T, Daoud-El Baba M, Sander P, Fussenegger M.
     Proc Natl Acad Sci U S A. 2008 Jul 22;105(29):9994-8.
137. An engineered L-arginine sensor of Chlamydia pneumoniae enables arginine-adjustable transcription control in mammalian cells and mice.
     Hartenbach S, Daoud-El Baba M, Weber W, Fussenegger M.
     Nucleic Acids Res. 2007;35(20):e136.
138. Inducible product gene expression technology tailored to bioprocess engineering.
     Weber W, Fussenegger M.
     Curr Opin Biotechnol. 2007 Oct;18(5):399-410.
139. Vitamin H-regulated transgene expression in mammalian cells.
     Weber W, Bacchus W, Daoud-El Baba M, Fussenegger M.
     Nucleic Acids Res. 2007;35(17):e116.
140. A novel vector platform for vitamin H-inducible transgene expression in mammalian cells.
     Weber W, Bacchus W, Gruber F, Hamberger M, Fussenegger M.
     J Biotechnol. 2007 Aug 31;131(2):150-8.
141. Synthetic ecosystems based on airborne inter- and intrakingdom communication.
     Weber W, Daoud-El Baba M, Fussenegger M.
     Proc Natl Acad Sci U S A. 2007 Jun 19;104(25):10435-40.
142. RepTAGs: universal tags for isolation and labeling of proteins, for labeling live mammalian cells and for drug discovery.
     Weber W, Link N, Aubel D, Weber CC, Fussenegger M.
     Biotechnol Bioeng. 2007 Dec 15;98(6):1276-87.
143. A genetic time-delay circuitry in mammalian cells.
     Weber W, Kramer BP, Fussenegger M.
     Biotechnol Bioeng. 2007 Nov 1;98(4):894-902.
144. A synthetic time-delay circuit in mammalian cells and mice.
     Weber W, Stelling J, Rimann M, Keller B, Daoud-El Baba M, Weber CC, Aubel D, Fussenegger M.
     Proc Natl Acad Sci U S A. 2007 Feb 20;104(8):2643-8.
145. A novel generic dipstick-based technology for rapid and precise detection of tetracycline, streptogramin and macrolide antibiotics in food samples.
     Link N, Weber W, Fussenegger M.
     J Biotechnol. 2007 Feb 20;128(3):668-80.
146. A gas-inducible expression system in HEK.EBNA cells applied to controlled proliferation studies by expression of p27(Kip1).
     Werner NS, Weber W, Fussenegger M, Geisse S.
     Biotechnol Bioeng. 2007 Apr 15;96(6):1155-66.
147. Pharmacologic transgene control systems for gene therapy.
     Weber W, Fussenegger M.
     J Gene Med. 2006 May;8(5):535-56.
148. A genetic redox sensor for mammalian cells.
     Weber W, Link N, Fussenegger M.
     Metab Eng. 2006 May;8(3):273-80.
149. Therapeutic protein transduction of mammalian cells and mice by nucleic acid-free lentiviral nanoparticles.
     Link N, Aubel C, Kelm JM, Marty RR, Greber D, Djonov V, Bourhis J, Weber W, Fussenegger M.
     Nucleic Acids Res. 2006 Jan 30;34(2):e16.
150. Design of high-throughput-compatible protocols for microencapsulation, cryopreservation and release of bovine spermatozoa.
     Weber W, Rimann M, Schafroth T, Witschi U, Fussenegger M.
     J Biotechnol. 2006 May 17;123(2):155-63.
151. A novel mammalian expression system derived from components coordinating nicotine degradation in arthrobacter nicotinovorans pAO1.
     Malphettes L, Weber CC, El-Baba MD, Schoenmakers RG, Aubel D, Weber W, Fussenegger M.
     Nucleic Acids Res. 2005 Jul 7;33(12):e107.
152. Quorum-sensing-based toolbox for regulatable transgene and siRNA expression in mammalian cells.
     Weber W, Malphettes L, Rinderknecht M, Schoenmakers RG, Spielmann M, Keller B, van de Wetering P, Weber CC, Fussenegger M.
     Biotechnol Prog. 2005 Jan-Feb;21(1):178-85.
153. Gas-inducible product gene expression in bioreactors.
     Weber W, Rimann M, de Glutz FN, Weber E, Memmert K, Fussenegger M.
     Metab Eng. 2005 May;7(3):174-81.
154. Tobacco smoke as inducer for gas phase-controlled transgene expression in mammalian cells and mice.
     Weber W, Spielmann M, Daoud El-Baba M, Keller B, Aubel D, Fussenegger M.
     Biotechnol Bioeng. 2005 Jun 30;90(7):893-7.
155. Effects of protein and gene transfer of the angiopoietin-1 fibrinogen-like receptor-binding domain on endothelial and vessel organization.
     Weber CC, Cai H, Ehrbar M, Kubota H, Martiny-Baron G, Weber W, Djonov V, Weber E, Mallik AS, Fussenegger M, Frei K, Hubbell JA, Zisch AH.
     J Biol Chem. 2005 Jun 10;280(23):22445-53.
156. Broad-spectrum protein biosensors for class-specific detection of antibiotics.
     Weber CC, Link N, Fux C, Zisch AH, Weber W, Fussenegger M.
     Biotechnol Bioeng. 2005 Jan 5;89(1):9-17.
157. CellMAC: a novel technology for encapsulation of mammalian cells in cellulose sulfate/pDADMAC capsules assembled on a transient alginate/Ca2+ scaffold.
     Weber W, Rinderknecht M, Daoud-El Baba M, de Glutz FN, Aubel D, Fussenegger M.
     J Biotechnol. 2004 Nov 9;114(3):315-26.
158. Engineered Streptomyces quorum-sensing components enable inducible siRNA-mediated translation control in mammalian cells and adjustable transcription control in mice.
     Weber W, Malphettes L, de Jesus M, Schoenmakers R, El-Baba MD, Spielmann M, Keller B, Weber CC, van de Wetering P, Aubel D, Wurm FM, Fussenegger M.
     J Gene Med. 2005 Apr;7(4):518-25.
159. Gas-inducible transgene expression in mammalian cells and mice.
     Weber W, Rimann M, Spielmann M, Keller B, Daoud-El Baba M, Aubel D, Weber CC, Fussenegger M.
     Nat Biotechnol. 2004 Nov;22(11):1440-4.
160. Approaches for trigger-inducible viral transgene regulation in gene-based tissue engineering.
     Weber W, Fussenegger M.
     Curr Opin Biotechnol. 2004 Oct;15(5):383-91.
161. Inducible gene expression in mammalian cells and mice.
     Weber W, Fussenegger M.
     Methods Mol Biol. 2004;267:451-66.
162. An engineered epigenetic transgene switch in mammalian cells.
     Kramer BP, Viretta AU, Daoud-El-Baba M, Aubel D, Weber W, Fussenegger M.
     Nat Biotechnol. 2004 Jul;22(7):867-70.
163. New-generation multicistronic expression platform: pTRIDENT vectors containing size-optimized IRES elements enable homing endonuclease-based cistron swapping into lentiviral expression vectors.
     Fux C, Langer D, Kelm JM, Weber W, Fussenegger M.
     Biotechnol Bioeng. 2004 Apr 20;86(2):174-87.
164. Novel macrolide-adjustable bidirectional expression modules for coordinated expression of two different transgenes in mice.
     Fux C, Weber W, Daoud-El Baba M, Heinzen C, Aubel D, Fussenegger M.
     J Gene Med. 2003 Dec;5(12):1067-79.
165. Artificial regulatory networks and cascades for discrete multilevel transgene control in mammalian cells.
     Kramer BP, Weber W, Fussenegger M.
     Biotechnol Bioeng. 2003 Sep 30;83(7):810-20.
166. Streptomyces-derived quorum-sensing systems engineered for adjustable transgene expression in mammalian cells and mice.
     Weber W, Schoenmakers R, Spielmann M, El-Baba MD, Folcher M, Keller B, Weber CC, Link N, van de Wetering P, Heinzen C, Jolivet B, Séquin U, Aubel D, Thompson CJ, Fussenegger M.
     Nucleic Acids Res. 2003 Jul 15;31(14):e71.
167. Conditional human VEGF-mediated vascularization in chicken embryos using a novel temperature-inducible gene regulation (TIGR) system.
     Weber W, Marty RR, Link N, Ehrbar M, Keller B, Weber CC, Zisch AH, Heinzen C, Djonov V, Fussenegger M.
     Nucleic Acids Res. 2003 Jun 15;31(12):e69.
168. Novel promoter/transactivator configurations for macrolide- and streptogramin-responsive transgene expression in mammalian cells.
     Weber W, Kramer BP, Fux C, Keller B, Fussenegger M.
     J Gene Med. 2002 Nov-Dec;4(6):676-86.
169. Versatile macrolide-responsive mammalian expression vectors for multiregulated multigene metabolic engineering.
     Weber W, Marty RR, Keller B, Rimann M, Kramer BP, Fussenegger M.
     Biotechnol Bioeng. 2002 Dec 20;80(6):691-705.
170. Macrolide-based transgene control in mammalian cells and mice.
     Weber W, Fux C, Daoud-el Baba M, Keller B, Weber CC, Kramer BP, Heinzen C, Aubel D, Bailey JE, Fussenegger M.
     Nat Biotechnol. 2002 Sep;20(9):901-7.
171. Artificial mammalian gene regulation networks-novel approaches for gene therapy and bioengineering.
     Weber W, Fussenegger M.
     J Biotechnol. 2002 Sep 25;98(2-3):161-87.
172. Generation of a cell line with smooth muscle phenotype from hypertrophied urinary bladder.
     Zheng Y, Weber WT, Wang S, Wein AJ, Zderic SA, Chacko S, DiSanto ME.
     Am J Physiol Cell Physiol. 2002 Jul;283(1):C373-82.

Book chapters, misc.

1. Hal Alper and Wilfried Weber (2012). Building synthetic cell systems from the ground up. Current Opinion in Biotechnology 23, 641-643.
2. Michael Kämpf and Wilfried Weber (2012). Synthetic gene networks as blueprint for smart hydrogels. Methods in Molecular Biology, 813, 377-389.
3. Maria Karlsson, Wilfried Weber and Martin Fussenegger (2012). Design and construction of synthetic gene networks in mammalian cells. Methods in Molecular Biology, 813, 359-376.
4. Maria Karlsson, Wilfried Weber and Martin Fussenegger (2011). De novo design and construction of an inducible gene expression system in mammalian cells. Methods in Enzymology, 497, 239-253.
5. Wilfried Weber and Martin Fussenegger (2011). Design of Synthetic Mammalian Quorum-sensing Systems. Methods in Molecular Biology, 692, 235-249.
6. Wilfried Weber and Martin Fussenegger (2009). Towards genetically designed tissues for regenerative medicine. In “Fundamentals of Tissue Engineering and Regenerative Medicine”. U. Meyer, T. Meyer, J. Handschel, H.P. Wiesmann (Eds). Springer, Heidelberg, Germany, Chapter 9, Page 93-108.
7. Wilfried Weber and Martin Fussenegger (2009). Cell-to-cell communication for cell-density-controlled bioprocesses. In “Cells and Culture”. T. Noll (Ed). Springer, Dordrecht, The Netherlands.
8. Wilfried Weber and Martin Fussenegger (2008). Insect cell-based recombinant protein production. In: Cell and Tissue Reaction Engineering, Springer, Dordrecht, The Netherlands, Page 263-277
9. Wilfried Weber and Martin Fussenegger (2007) Novel Gene Switches. Handbook of Experimental Pharmacology, Springer, Dordrecht, The Netherlands, 178, 73-105.
10. Helmut Blöcker, Edda Klipp, Thomas Lengauer, Karsten Niehaus, Alfred Pühler, Dietmar Schomburg, Karsten Schürrle, Peter Uetz, Wilfried Weber, Wolfgang Wiechert and Olaf Wolkenhauer (2006). Status- und Strategiepapier zur Systembiologie. Arbeitsausschuss Bioinformatik der DECHEMA e.V. http://biotech.dechema.de/Publikationen.html
11. Wilfried Weber, Bettina Keller, Markus Rimann, Marie Daoud-El Baba and Martin Fussenegger (2006). Eine säugetierzellbasierte genetische Ausschaltverzögerung. Chemie Ingenieur Technik 78, 1430-1431.
12. Nicole-Susann Werner, Wilfried Weber, Martin Fussenegger and Sabine Geisse (2005). A novel AIR-induced gene expression system in HEK.EBNA cells and its applications. In “Cell Technology for Cell Products”. R. Smith (Ed). Springer, Dordrecht, The Netherlands.
13. Wilfried Weber and Martin Fussenegger (2005). Baculovirus-Based Production of Biopharmaceuticals Using Insect Cell Culture Processes. In “Modern Biopharmaceuticals”, J. Knäblein (Ed). Wiley-VCH, Weinheim, Germany, 1045-1062.
14. Wilfried Weber Nils Link, Manuela Spielmann, Bettina Keller, Cornelia C. Weber and Martin Fussenegger (2005). Inducible Gene Expression for antibiotic drug discovery and diagnostics. In “Animal Cell technology meets genomics”, M. Fussenegger and F. Godia (Eds.), Springer, Dordrecht, The Netherlands, 345-350.
15. Wilfried Weber and Martin Fussenegger (2004). Inducible gene expression in mammalian cells and mice. Methods in Molecular Biology 267, 451-66.
16. Wilfried Weber and Martin Fussenegger (2003). Inducible gene expression in mammalian cells. In “Gene Transfer and Expression in Mammalian Cells”, Makrides SC (ed.), Elsevier, Chapter 22, 589-604.
17. Wilfried Weber, Eric Weber, Sabine Geisse and Klaus Memmert  (2001). Catching the Wave: The BEVS and the Biowave. In “From target to market”, Lindner-Olsson, E., Chatzissavidou, N., and Lüllau, E.  (ed.) Kluwer academic publishers, 335-337.
18. Wilfried Weber (2003). Engineering of prokaryotic transcription regulators for mammalian cell biotechnology. PhD thesis work No. 15097, ETH Zurich, Zurich, Switzerland.
19. Wilfried Weber (2000). Optimization of protein expression in the baculovirus system and establishment of the Wave bioreactor for Sf-9 insect cell culture. Diploma Thesis Work, Ecole Supérieure de Biotechnology de Strasbourg, Strasbourg, France.