Publications

2019

Škugor M., Valero J., Murayama K., Centola M., Asanuma H., Famulok M. (2019) "Orthogonally Photocontrolled Non-Autonomous DNA Walker" Angew. Chem. Int. Ed., 58, 6948-6951.


Tonapi S.S., Pannu V., Duncan J.E., Rosenow M., Helmstetter A., Magee D., Zhang Q., Tinder T.T., Richards M., Halbert D.D., Famulok M., Spetzler D., Miglarese M.R., O'Neill H.A., Mayer G. (2019) "Translocation of a Cell Surface Spliceosomal Complex Induces Alternative Splicing Events and Lymphoma Cell Necrosis"
Cell Chem Biol. 26, 756-764.e6.


2018

Haydell M.W., Centola M., Adam V., Valero J., Famulok M. (2018) "Temporal and Reversible Control of a DNAzyme by Orthogonal Photoswitching" J. Am Chem Soc. 140, 16868-16872.


Kerzhner M., Matsuoka H., Wuebben C., Famulok M.*, Schiemann O.* (2018) "High yield spin labeling of long RNAs for EPR spectroscopy."
Biochemistry. 57, 2923-2931.
doi: 10.1021/acs.biochem.8b00040

Valero J., Pal N., Dhakal S., Walter N.G., Famulok M. (2018) "A bio-hybrid DNA rotor-stator nanoengine that moves along predefined tracks." Nat. Nanotechnol. 13, 496-503. doi: 10.1038/s41565-018-0109-z

Domenyuk V., Gatalica Z., Santhanam R., Wei X., Stark A., Kennedy P., Toussaint B., Levenberg S., Wang J., Xiao N., Greil R., Rinnerthaler G., Gampenrieder S.P., Heimberger A.B., Berry D.A., Barker A., Quackenbush J., Marshall J.L., Poste G., Vacirca J.L., Vidal G.A., Schwartzberg L.S., Halbert D.D., Voss A., Magee D., Miglarese M.R., Famulok M.*, Mayer G.*, Spetzler D.*. (2018) "Poly-ligand profiling differentiates trastuzumab-treated breast cancer patients according to their outcomes." Nat. Commun. 9, 1219. doi: 10.1038/s41467-018-03631-z

Adam V., Prusty D.K., Centola M., Škugor M., Hannam J.S., Valero J., Klöckner B., Famulok M. (2018) "Expanding the Toolbox of Photoswitches for DNA Nanotechnology Using Arylazopyrazoles" Chemistry 24, 1062-1066. doi: 10.1002/chem.201705500

Prusty D.K., Adam V., Zadegan R.M., Irsen S, Famulok M. (2018) "Supramolecular aptamer nano-constructs for receptor-mediated targeting and light triggered release of chemotherapeutics into cancer cells" Nat. Commun. 9, 535. doi: 10.1038/s41467-018-02929-2

Yin, D.M., Hammler, D., Peter, M.F., Marx, A., Schmitz, A. & Hagelueken, G. (2018) “Inhibitor-directed spin labelling - a high precision and minimally invasive technique to study the conformation of proteins in solution.” Chem. Eur. J. , [Epub ahead of print]

2017

Yin, D.M., Hannam, J.S., Schmitz, A., Schiemann, O., Hagelueken, G. & Famulok, M. (2017) “Studying the Conformation of a Receptor Tyrosine Kinase in Solution by Inhibitor-Based Spin Labeling” Angew. Chem. Int. Ed. Engl. 56, 8417–8421


Domenyuk, V., Zhong, Z., Stark, A., Xiao, N., O'Neill, H.A., Wei, X., Wang, J., Tinder, T.T., Tonapi, S., Duncan, J., Hornung, T., Hunter, A., Miglarese, M.R., Schorr, J., Halbert, D.D., Quackenbusch, J., Poste, G., Berry, D.A., Mayer, G., Famulok, M. & Spetzler, D. (2017) "Plasma exosome profiling of cancer patients by a next generation systems biology approach" Sci. Rep. 7, 42741


2016

Kerzhner, M., Abdullin, D., Wiecek, J., Matsuoka, H., Hagelueken, G., Schiermann, O. & Famulok, M. (2016) "Post-synthetic Spin-Labeling of RNA through Click Chemistry for PELDOR Measurements" Eur. J. Chem. 22, 12113 - 12121


Valero, J., Lohmann, F., Keppner, D. & Famulok, M. (2016) "Single-Stranded Tile Stoppers for Interlocked DNA Architectures" ChemBioChem 17, 1146-1149

Weigandt, J., Chung, C.-L., Jester, S. S. & Famulok, M. (2016) "Daisy Chain Rotaxanes Made from Interlocked DNA Nanostructures" Angew. Chem. Int. Ed. Engl. 55, 5512-5516

Lentz, C.S., Sattler, J.M., Fendler, M., Gottwalt, S., Halls, V.S., Strassel, S., Arriens, S., Hannam, J.S., Specht, S., Famulok, M., Mueller, A.-K., Hoerauf, A. & Pfarr, K. (2015) "In vitro activity of wALADin benzimidazoles against different life cycle stages of plasmodium parasites" Antimicrob. Agents Chemother.59, 654 - 658



2015

Lu, C.-H., Cecconello, A., Oi, X.-J., Wu, N., Jester, S.-S., Famulok, M., Matthies, M., Schmidt, T.-L. & Willner, I. (2015) "Switchable Reconfiguration of a seven-ring interlocked DNA catenane nanostructure" Nano Lett. 15, 7133 – 7137

Zhai, J., Zhang, L., Mojsilovic-Petrovic, J., Jian, X., Thomas, J., Homma, K., Schmitz, A., Famulok, M., Ichijo, H., Randazzo, P. A. & Kalb, R.G. (2015) "Inhibition of cytohesins protects against genetic models of motor neuron disease" J. Neurosci. 35, 9088 - 9105



2014

Famulok, M. & Mayer, G. (2014) "Aptamers and SELEX in Chemistry & Biology" Chem. Biol. 21, 1055 - 1058

Jester, S.S. & Famulok, M. (2014) "Mechanically interlocked DNA nanostructures for functional devices" Acc. Chem. Res. 47, 1700 - 1709

Lentz, C.S., Halls, V.S., Hannam, J.S., Strassel, S., Lawrence, S.H., Jaffe, E.K., Famulok, M., Hoerauf, A. & Pfarr, K.M. (2014) "wALADin benzimidazoles differentially modulate the function of porphobilinogen synthase orthologs" J. Med. Chem. 57, 2498 – 2510

Li, T., Lohmann, F. & Famulok, M. (2014) "Interlocked DNA nanostructures controlled by a reversible logic circuit" Nat. Commun. 5, 4940

Lohmann, F., Valero, J. & Famulok, M. (2014) "A novel family of structurally stable double stranded DNA catenanes" Chem. Commun. (Camb.) 50, 6091 - 6093

Lohmann, F., Weigandt, J., Valero, J. & Famulok, M. (2014) "Logic Gating by Macrocycle Displacement Using a Double-Stranded DNA 3 Rotaxane Shuttle" Angew. Chem. Int. Ed. Engl. 53, 10372 - 10376

Lu, C.H., Qi, X.J., Cecconello, A., Jester, S.S., Famulok, M. & Willner, I. (2014) "Switchable reconfiguration of an interlocked DNA olympiadane nanostructure" Angew. Chem. Int. Ed. Engl. 53, 7499 - 7503

Ackermann, D. & Famulok, M. (2013) "Pseudo-complementary PNA actuators as reversible switches in dynamic DNA nanotechnology" Nucleic Acids Res. 41, 4729 - 4739


2013

Hussein, M., Bettio, M., Schmitz, A., Hannam, J.S., Theis, J., Mayer, G., Dosa, S., Gütschow, M. & Famulok, M. (2013) "Cyplecksins are covalent inhibitors of the pleckstrin homology domain of cytohesin" Angew. Chem. Int. Ed. Engl. 52, 9529 - 9533 Lentz, C.S., Halls, V., Hannam, J.S., Niebel, B., Strübing, U., Mayer, G., Hoerauf, A., Famulok, M. & Pfarr, K.M. (2013) "A selective inhibitor of heme biosynthesis in endosymbiotic bacteria elicits antifilarial activity in vitro" Chem. Biol. 20, 177 - 187

Lentz, C.S., Stumpfe, D., Bajorath, J., Famulok, M., Hoerauf, A. & Pfarr, K. M (2015) "New chemotypes for wALADin1-like inhibitors of delta-aminolevulinic acid dehydratase from Wolbachia endobacteria" Bioorg. Med. Chem. Lett. 23, 5558 - 5562

Li, T. & Famulok, M. (2013) "I-motif-programmed functionalization of DNA nanocircles" J. Am. Chem. Soc. 135, 1593 - 1599

Niebel, B., Wosnitza, C.I. & Famulok, M. (2013) "RNA-aptamers that modulate the RhoGEF activity of Tiam1" Bioorg. Med. Chem. 21, 6239 - 6246


2012

Ackermann, D., Jester, S.S. & Famulok, M. (2012) "Design strategy for DNA rotaxanes with a mechanically reinforced PX100 axle" Angew. Chem. In.t Ed. Engl. 51, 6771 - 6775

Albertoni, B., Hannam, J.S., Ackermann, D., Schmitz, A. & Famulok, M. (2012) "A trifluoromethylphenyl diazirine-based SecinH3 photoaffinity probe" Chem. Commun. (Camb.) 48, 1272 - 1274

Bill, A., Schmitz, A., König, K., Heukamp, L.C., Hannam, J. S. & Famulok, M. (2012) "Anti-proliferative effect of cytohesin inhibition in gefitinib-resistant lung cancer cells" Plos One 7, e41179

Hons, M., Niebel, B., Karnowski, N., Weiche, B. & Famulok, M. (2012) "Pan-selective aptamers for the family of small GTPases" Chembiochem 13, 1433 - 1437

Li, J., Malaby, A.W., Famulok, M., Sabe, H., Lambright, D.G. & Hsu, V.W. (2012) "Grp1 plays a key role in linking insulin signaling to glut4 recycling" Dev. Cell 22, 1286 - 1298

Li, T., Ackermann, D., Hall, A.M. & Famulok, M. (2012) "Input-dependent induction of oligonucleotide structural motifs for performing molecular logic" J. Am. Chem. Soc. 134, 3508 - 3516

Lohmann, F., Ackermann, D. & Famulok, M. (2012) "Reversible light switch for macrocycle mobility in a DNA rotaxane" J. Am. Chem. Soc. 134, 11884 - 11887

Miao, B., Skidan, I., Yang, J., You, Z., Fu, X., Famulok, M., Schaffhausen, B., Torchilin, V., Yuan, J. & Degterev, A. (2012) "Inhibition of cell migration by PITENINs: the role of ARF6" Oncogene 31, 4317 - 4332

Rohrbach, F., Karadeniz, H., Erdem, A., Famulok, M. & Mayer, G. (2012) "Label-free impedimetric aptasensor for lysozyme detection based on carbon nanotube-modified screen-printed electrodes" Analytical biochemistry 421, 454 - 459

Vinkenborg, J.L., Mayer, G. & Famulok, M. (2012) "Aptamer-based affinity labeling of proteins" Angew. Chem. In.t Ed. Engl. 51, 9176 - 9180

Beyer, M., Thabet, Y., Müller, R.U., Sadlon, T., Classen, S., Lahl, K., Basu, S., Zhou, X., Bailey-Bucktrout, S.L., Krebs, W., Schönfeld, E.A., Böttcher, J., Golovina, T., Mayer, C.T., Hofmann, A., Sommer, D., Debey-Pascher, S., Endl, E., Limmer, A., Hippen, K.L., Blazar, B.R., Balderas, R., Quast, T., Waha, A., Mayer, G., Famulok, M., Knolle, P.A., Wickenhauser, C., Kolanus, W., Schermer, B., Bluestone, J.A., Barry, S.C., Sparwasser, T., Riley, J.L. & Schultze, J.L. (2011) "Repression of the genome organizer SATB1 in regulatory T cells is required for suppressive function and inhibition of effector differentiation" Nat. Immunol. 12, 898 - 907


2011

Bill, A., Blockus, H., Stumpfe, D., Bajorath, J., Schmitz, A. & Famulok, M. (2011) "A homogeneous fluorescence resonance energy transfer system for monitoring the activation of a protein switch in real time" J. Am. Chem. Soc. 133, 8372 - 8379

Famulok, M. & Mayer, G. (2011) "Aptamer modules as sensors and detectors" Acc. Chem. Res. 44, 1349 - 1358

Niebel, B., Weiche, B., Mueller, A.L., Li, D.Y., Karnowski, N. & Famulok, M. (2011) "A luminescent oxygen channeling biosensor that measures small GTPase activation" Chem. Commun. 47, 7521 - 7523

Vinkenborg, J.L., Karnowski, N. & Famulok, M. (2011) "Aptamers for allosteric regulation" Nat. Chem. Biol. 7, 519 - 527


2010

Ackermann, D., Rasched, G., Verma, S., Schmidt, T.L., Heckel, A. & Famulok, M. (2010) "Assembly of dsDNA nanocircles into dimeric and oligomeric aggregates" Chem. Commun. (Camb.) 46, 4154 - 4156

Ackermann, D., Schmidt, T.L., Hannam, J.S., Purohit, C.S., Heckel, A. & Famulok, M. (2010) "A double-stranded DNA rotaxane" Nat. Nanotechn. 5, 436 - 442

Lünse, C.E., Michlewski, G., Hopp, C.S., Rentmeister, A., Caceres, J.F., Famulok, M. & Mayer, G. (2010) "An aptamer targeting the apical-loop domain modulates pri-miRNA processing" Angew. Chem. Int. Ed. Engl. 49, 4674 - 4677

Mayer, G., Ahmed, M.S., Dolf, A., Endl, E., Knolle, P.A. & Famulok, M. (2010) "Fluorescence-activated cell sorting for aptamer SELEX with cell mixtures" Nat. Protoc. 5, 1993 - 2004

Niebel, B., Lentz, C., Pofahl, M., Mayer, G., Hoerauf, A., Pfarr, K.M. & Famulok, M. (2010) "ADLOC: an aptamer-displacement assay based on luminescent oxygen channeling" Chemistry 16, 11100 - 11107

Stumpfe, D., Bill, A., Novak, N., Loch, G., Blockus, H., Geppert, H., Becker, T., Schmitz, A., Hoch, M., Kolanus, W., Famulok, M. & Bajorath, J. (2010) "Targeting multifunctional proteins by virtual screening: structurally diverse cytohesin inhibitors with differentiated biological functions" ACS Chem. Biol. 5, 839 - 849


2009

Klotz, L., Burgdorf, S., Dani, I., Saijo, K., Flossdorf, J., Hucke, S., Alferink, J., Nowak, N., Beyer, M., Mayer, G., Langhans, B., Klockgether, T., Waisman, A., Eberl, G., Schultze, J., Famulok, M., Kolanus, W., Glass, C., Kurts, C. & Knolle, P.A. (2009) "The nuclear receptor PPAR gamma selectively inhibits Th17 differentiation in a T cell-intrinsic fashion and suppresses CNS autoimmunity" J. Exp. Med. 206, 2079-2089

Jones, C.A., Nishiya, N., London, N.R., Zhu, W., Sorensen, L.K., Chan, A., Lim, C.J., Chen, H., Zhang, Q., Schultz, P.G., Hayallah, A.M., Thomas, R.K., Famulok, M., Zhang, K., Ginsberg, H.H. & Li, D.Y. (2009) "Slit2-Robo4 signaling promotes vascular stability by blocking Arf6 activity" Nat. Cell Biol. 11, 1325-1331

Gronewold, T.M., Baumgartner, A., Hierer, J., Sierra, S., Blind, M., Schäfer, F., Blümer, J., Tillmann, T., Kiwitz, A., Kaiser, R., Zabe-Kühn, M., Quandt, E. & Famulok, M. (2009) "Kinetic binding analysis of aptamers targeting HIV-1 proteins by a combination of a microbalance array and mass spectrometry (MAMS)" J. Proteome Res. 8, 3568-3577

Beyer, M., Karbach, J., Mallmann, M.R., Zander, T., Eggle, D., Classen, S., Debey-Pascher, S., Famulok, M., Jäger, E. & Schultze, J.L. (2009) "Cancer vaccine enhanced, non-tumor-reactive CD8(+) T cells exhibit a distinct molecular program associated with "division arrest anergy" Cancer Res. 69, 4346-4354

Erdem, A., Karadeniz, H., Mayer, G., Famulok, M. & Caliskan, A. (2009) "Electrochemical sensing of aptamer-protein interactions using magnetic particle assay and single-use sensor technology" Electroanalysis 21, 1278-1284

Famulok, M. (2009) "Exploring chemical space with aptamers" J. Med. Chem. 52, 6951-6957


2008

Bi, X., Schmitz, A., Hayallah, A.M., Song, J.N. & Famulok, M. (2008) "Affinity-based labeling of cytohesins with a bifunctional SecinH3 photoaffinity probe" Angew. Chem. Int. Ed. 47, 9565-9568

Fusz, S., Srivatsan, S.G., Ackermann, D. & Famulok, M. (2008) "Photocleavable initiator nucleotide substrates for an aldolase ribozyme" J. Org. chem. 73, 5069-5077

Hafner, M., Vianini, E., Albertoni, B., Marchetti, L., Grüne, I., Gloeckner, C. & Famulok, M. (2008) "Displacement of protein-bound aptamers with small molecules screened by fluorescence polarization" Nat. Prot. 3, 579-587

Heckel, A. & Famulok, M. (2008) "Building objects from nucleic acids for a nanometer world" Biochimie 90, 1096-1107

Mayer, G., Ackermann, D., Kuhn, N. & Famulok, M. (2008) "Construction of DNA architectures with RNA hairpins" Angew. Chem. Int. Ed. 47, 971-973

Raddatz, M.S., Dolf, A., Endl, E., Knolle, P., Famulok, M. & Mayer, G. (2008) "Enrichment of cell-targeting and population-specific aptamers by fluorescence-activated cell sorting" Angew. Chem. Int. Ed. 47, 5190-5193

Rasched, G., Ackermann, D., Schmidt, T.L., Broekmann, P., Heckel, A. & Famulok, M. (2008) "DNA minicircles with gaps for versatile functionalization" Angew. Chem. Int. Ed. 47, 967-970

Rentmeister, A., Mayer, G., Kuhn, N. & Famulok, M. (2008) "Secondary structures and functional requirements for thiM riboswitches from Desulfovibrio vulgaris, Erwinia carotovora and Rhodobacter spheroides" Biol. Chem. 389, 127-134