Keith Weninger

Ghaffari, A., Kashani, S., Do, K., Weninger, K., & Riehn, R. (2023). A nanophotonic interferometer. NANOTECHNOLOGY, 34(18). https://doi.org/10.1088/1361-6528/acb443

Himebaugh, N. E., Robertson, J. B., Weninger, K., Gilger, B. C., Ekesten, B., & Oh, A. (2023). Ex vivo analysis of ultraviolet radiation transmission through ocular media and retina in select species. EXPERIMENTAL EYE RESEARCH, 233. https://doi.org/10.1016/j.exer.2023.109550

Xu, P., Zhang, J., Pan, F., Mahn, C., Roland, C., Sagui, C., & Weninger, K. (2023). Frustration Between Preferred States of Complementary Trinucleotide Repeat DNA Hairpins Anticorrelates with Expansion Disease Propensity. JOURNAL OF MOLECULAR BIOLOGY, 435(10). https://doi.org/10.1016/j.jmb.2023.168086

Evans, R., Ramisetty, S., Kulkarni, P., & Weninger, K. (2023). [Review of Illuminating Intrinsically Disordered Proteins with Integrative Structural Biology]. BIOMOLECULES, 13(1). https://doi.org/10.3390/biom13010124

Ghaffari, A., Do, K., Kashani, S., Weninger, K., & Riehn, R. (2022). A Nanophotonic Interferometer for small particle detection. INTERFEROMETRY XXI, Vol. 12223. https://doi.org/10.1117/12.2634318

Goetz, M., Barth, A., Bohr, S. S.-R., Boerner, R., Chen, J., Cordes, T., … Schmid, S. (2022). A blind benchmark of analysis tools to infer kinetic rate constants from single-molecule FRET trajectories. NATURE COMMUNICATIONS, 13(1). https://doi.org/10.1038/s41467-022-33023-3

Li, J., Xie, J. F., Godec, A., Weninger, K. R., Liu, C., Smith, J. C., & Hong, L. (2022, August 4). Non-ergodicity of a globular protein extending beyond its functional timescale. CHEMICAL SCIENCE, Vol. 8. https://doi.org/10.1039/d2sc03069a

Saikia, N., Yanez-Orozco, I. S., Qiu, R., Hao, P., Milikisiyants, S., Ou, E., … Ding, F. (2021). Integrative structural dynamics probing of the conformational heterogeneity in synaptosomal-associated protein 25. CELL REPORTS PHYSICAL SCIENCE, 2(11). https://doi.org/10.1016/j.xcrp.2021.100616

Pan, F., Zhang, Y., Xu, P., Man, V. H., Roland, C., Weninger, K., & Sagui, C. (2021). [Review of Molecular conformations and dynamics of nucleotide repeats associated with neurodegenerative diseases: double helices and CAG hairpin loops]. COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL, 19, 2819–2832. https://doi.org/10.1016/j.csbj.2021.04.037

Pan, H., Kaur, P., Barnes, R., Detwiler, A. C., Sanford, S. L., Liu, M., … Wang, H. (2021). Structure, dynamics, and regulation of TRF1-TIN2-mediated trans- and cis-interactions on telomeric DNA. JOURNAL OF BIOLOGICAL CHEMISTRY, 297(3). https://doi.org/10.1016/j.jbc.2021.101080

Bradford, K. C., Wilkins, H., Hao, P., Li, Z. M., Wang, B., Burke, D., … Erie, D. A. (2020). Dynamic human MutS alpha-MutL alpha complexes compact mismatched DNA. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 117(28), 16302–16312. https://doi.org/10.1073/pnas.1918519117

Xu, P., Pan, F., Roland, C., Sagui, C., & Weninger, K. (2020). Dynamics of strand slippage in DNA hairpins formed by CAG repeats: roles of sequence parity and trinucleotide interrupts. Nucleic Acids Research, 1. https://doi.org/10.1093/nar/gkaa036

Larsen, J. B., Rosholm, K. R., Kennard, C., Pedersen, S. L., Munch, H. K., Tkach, V., … Stamou, D. (2020). How Membrane Geometry Regulates Protein Sorting Independently of Mean Curvature. ACS CENTRAL SCIENCE, 6(7), 1159–1168. https://doi.org/10.1021/acscentsci.0c00419

Hao, P., LeBlanc, S. J., Case, B. C., Elston, T. C., Hingorani, M. M., Erie, D. A., & Weninger, K. R. (2020). Recurrent mismatch binding by MutS mobile clamps on DNA localizes repair complexes nearby. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 117(30), 17775–17784. https://doi.org/10.1073/pnas.1918517117

LeBlanc, S. J., Hao, P., Hinds, M. A., Morgan, A. N., Gbozah, K., Weninger, K. R., & Erie, D. A. (2019). Investigating the Function of Mutl Conformational Changes in Mismatch Repair using smFRET. Biophysical Journal, 116(3), 49a–50a. https://doi.org/10.1016/J.BPJ.2018.11.311

Choi, U. B., Sanabria, H., Smirnova, T., Bowen, M. E., & Weninger, K. R. (2019). [Review of Spontaneous Switching among Conformational Ensembles in Intrinsically Disordered Proteins]. BIOMOLECULES, 9(3). https://doi.org/10.3390/biom9030114

Lin, X., Kulkarni, P., Bocci, F., Schafer, N., Roy, S., Tsai, M.-Y., … Jolly, M. (2019). Structural and Dynamical Order of a Disordered Protein: Molecular Insights into Conformational Switching of PAGE4 at the Systems Level. Biomolecules, 9(2), 77. https://doi.org/10.3390/biom9020077

Pan, H., Dangi, S., Kaur, P., Hao, P., Weninger, K., Riehn, R., … Wang, H. (2019). TIN2 is an Architectural Protein Stabilizing TRF1 at Telomere. Biophysical Journal, 116(3), 211a–212a. https://doi.org/10.1016/J.BPJ.2018.11.1168

Xu, P., Hensley, A., Chan, E., & Weninger, K. R. (2019). Toward Single Molecule FRET Studies of DNA Mismatch Repair in Live Bacteria. Biophysical Journal, 116(3), 139a. https://doi.org/10.1016/J.BPJ.2018.11.772

Hao, P., LeBlanc, S., Erie, D. A., & Weninger, K. R. (2019). Untangling DNA Mismatch Repair Complexes with smFRET and Tethered Particle Motion Analysis. Biophysical Journal, 116(3), 77a. https://doi.org/10.1016/J.BPJ.2018.11.457

LeBlanc, S. J., Gauer, J. W., Hao, P., Case, B. C., Hingorani, M. M., Weninger, K. R., & Erie, D. A. (2018). Coordinated protein and DNA conformational changes govern mismatch repair initiation by MutS. NUCLEIC ACIDS RESEARCH, 46(20), 10782–10795. https://doi.org/10.1093/nar/gky865

Roushan, M., Azad, Z., Movahed, S., Ray, P. D., Livshits, G. I., Lim, S. F., … Riehn, R. (2018). Motor-like DNA motion due to an ATP-hydrolyzing protein under nanoconfinement. Scientific Reports, 8(1). https://doi.org/10.1038/S41598-018-28278-0

Lin, X., Roy, S., Jolly, M. K., Bocci, F., Schafer, N. P., Tsai, M.-Y., … Onuchic, J. N. (2018). PAGE4 and Conformational Switching: Insights from Molecular Dynamics Simulations and Implications for Prostate Cancer. Journal of Molecular Biology, 430(16), 2422–2438. https://doi.org/10.1016/J.JMB.2018.05.011

Jolly, M. K., Kulkarni, P., Weninger, K., Orban, J., & Levine, H. (2018). [Review of Phenotypic Plasticity, Bet-Hedging, and Androgen Independence in Prostate Cancer: Role of Non-Genetic Heterogeneity]. FRONTIERS IN ONCOLOGY, 8. https://doi.org/10.3389/fonc.2018.00050

Hellenkamp, B., Schmid, S., Doroshenko, O., Opanasyuk, O., Kuehnemuth, R., Adariani, S. R., … Hugel, T. (2018). Precision and accuracy of single-molecule FRET measurements-a multi-laboratory benchmark study. NATURE METHODS, 15(9), 669-+. https://doi.org/10.1038/s41592-018-0085-0

Salgia, R., Jolly, M. K., Dorff, T., Lau, C., Weninger, K., Orban, J., & Kulkarni, P. (2018). [Review of Prostate-Associated Gene 4 (PAGE4): Leveraging the Conformational Dynamics of a Dancing Protein Cloud as a Therapeutic Target]. JOURNAL OF CLINICAL MEDICINE, 7(6). https://doi.org/10.3390/jcm7060156

Hellenkamp, B., Schmid, S., Doroshenko, O., Opanasyuk, O., Kühnemuth, R., Adariani, S. R., … Hugel, T. (2018). Publisher Correction: Precision and accuracy of single-molecule
FRET measurements—a multi-laboratory benchmark study. Nature Methods, 15(11), 984–984. https://doi.org/10.1038/S41592-018-0193-X

Hao, P., LeBlanc, S., Erie, D., & Weninger, K. (2018). Single Molecule Experiments Reveal Molecular Level Details of MutS-MutL Interactions in DNA Mismatch Activated Sliding Clamp. Biophysical Journal, 114(3), 85a. https://doi.org/10.1016/J.BPJ.2017.11.508

Xu, P., & Weninger, K. (2018). Single Molecule FRET Observations of Folding for DNA Hairpins Containing Trinucleotide Repeats. Biophysical Journal, 114(3), 599a. https://doi.org/10.1016/J.BPJ.2017.11.3275

LeBlanc, S. J., Kulkarni, P., & Weninger, K. R. (2018). [Review of Single Molecule FRET: A Powerful Tool to Study Intrinsically Disordered Proteins]. BIOMOLECULES, 8(4). https://doi.org/10.3390/biom8040140

LeBlanc, S., Gauer, J., Hao, P., Walser, T. Y., Weninger, K., & Erie, D. (2017). Dynamic Studies of MutS-MutL-DNA Complexes in Mismatch Repair. Biophysical Journal, 112(3), 516a–517a. https://doi.org/10.1016/J.BPJ.2016.11.2793

Hao, P., Qiu, R., Erie, D., & Weninger, K. (2017). Mismatch Repair on the Go: Extending the Mechanical Model of DNA Mismatch Repair through Single Molecule Study. Biophysical Journal, 112(3), 514a–515a. https://doi.org/10.1016/J.BPJ.2016.11.2782

Kulkarni, P., Jolly, M. K., Jia, D., Mooney, S. M., Bhargava, A., Kagohara, L. T., … Orban, J. (2017). Phosphorylation-induced conformational dynamics in an intrinsically disordered protein and potential role in phenotypic heterogeneity. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 114(13), E2644–E2653. https://doi.org/10.1073/pnas.1700082114

Erie, D., Bradford, K., Wilkins, H., Bower, J., Wang, Z., Gauer, J., … Wang, H. (2017). Single Molecule Fluorescence and Atomic Force Microscopy Studies of DNA Repair. Biophysical Journal, 112(3), 7a. https://doi.org/10.1016/J.BPJ.2016.11.061

Kulkarni, P., Dunker, A. K., Weninger, K., & Orban, J. (2016). [Review of Prostate-associated gene 4 (PAGE4), an intrinsically disordered cancer/testis antigen, is a novel therapeutic target for prostate cancer]. ASIAN JOURNAL OF ANDROLOGY, 18(5), 695–703. https://doi.org/10.4103/1008-682x.181818

Gauer, J. W., LeBlanc, S., Hao, P., Qiu, R., Case, B. C., Sakato, M., … Weninger, K. R. (2016). Single-molecule FRET to measure conformational dynamics of DNA mismatch repair proteins. Single-Molecule Enzymology: Fluorescence-Based and High-Throughput Methods, 581, 285–315.

Fletcher, P. L., Jr., Fletcher, M. D., Weninger, K. R., & Martin, B. M. (2016). Venoms from Centruroides sp. Scorpions Cleave SNARE Proteins. Toxicon, 117, 109. https://doi.org/10.1016/J.TOXICON.2016.04.025

Weninger, K., Qiu, R., Ou, E., Milikisiyants, S., Sanabria, H., & Smirnova, T. I. (2016). smFRET and DEER Distance Measurements as Applied to Disordered and Structured Proteins. Biophysical Journal, 110(3), 559a. https://doi.org/10.1016/J.BPJ.2015.11.2987

Breuer, A., Larsen, J., Røskva Rosholm, K., Pedersenb, S. L., Munch, H. K., Tkach, V., … Stamou, D. (2016). tN-Ras, Synaptotagmin1 C2Ab, Annexinb12 and Amphiphysin NBAR can Discriminate Spherical from Cylindrical Membrane Curvature. Biophysical Journal, 110(3), 357a. https://doi.org/10.1016/J.BPJ.2015.11.1924

Fletcher, P. L., Jr., Fletcher, M. D., & Weninger, K. R. (2016). “Metalloproteases in new world scorpion venoms cleave intracellular membrane fusion SNARE proteins VAMP2 and VAMP8.” Toxicon, 117, 104. https://doi.org/10.1016/J.TOXICON.2016.04.008

Qiu, R., Sakato, M., Sacho, E. J., Wilkins, H., Zhang, X., Modrichd, P., … Weninger, K. R. (2015). MutL traps MutS at a DNA mismatch. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 112(35), 10914–10919. https://doi.org/10.1073/pnas.1505655112

He, Y. N., Chen, Y. H., Mooney, S. M., Rajagopalan, K., Bhargava, A., Sacho, E., … al. (2015). Phosphorylation-induced Conformational Ensemble Switching in an Intrinsically Disordered Cancer/Testis Antigen. JOURNAL OF BIOLOGICAL CHEMISTRY, 290(41), 25090–25102. https://doi.org/10.1074/jbc.m115.658583

weninger, keith, Hao, P., Yang, Y., Sacho, E. J., & Qiu, R. (2015). Toward Adding Complexity in Single Molecule FRET Studies of DNA Mismatch Repair. Biophysical Journal, 108(2), 69a–70a. https://doi.org/10.1016/J.BPJ.2014.11.414

Mooney, S. M., Qiu, R., Kim, J. J., Sacho, E. J., Rajagopalan, K., Johng, D., … Weninger, K. R. (2014). Cancer/Testis Antigen PAGE4, a Regulator of c-Jun Transactivation, Is Phosphorylated by Homeodomain-Interacting Protein Kinase 1, a Component of the Stress-Response Pathway. BIOCHEMISTRY, 53(10), 1670–1679. https://doi.org/10.1021/bi500013w

DeRocco, V. C., Sass, L. E., Qiu, R., Weninger, K. R., & Erie, D. A. (2014). Dynamics of MutS-Mismatched DNA Complexes Are Predictive of Their Repair Phenotypes. BIOCHEMISTRY, 53(12), 2043–2052. https://doi.org/10.1021/bi401429b

Wessels, L., & Weninger, K. (2014). Investigation of Calcein for Reporting Content Mixing During Viral Membrane Fusion Experiments. Biophysical Journal, 106(2), 707a. https://doi.org/10.1016/J.BPJ.2013.11.3922

Erie, D. A., & Weninger, K. R. (2014). Single molecule studies of DNA mismatch repair. DNA REPAIR, 20, 71–81. https://doi.org/10.1016/j.dnarep.2014.03.007

Rajagopalan, K., Qiu, R. Y., Mooney, S. M., Rao, S., Shiraishi, T., Sacho, E., … al. (2014). The Stress-response protein prostate-associated gene 4, interacts with c-Jun and potentiates its transactivation. BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE, 1842(2), 154–163. https://doi.org/10.1016/j.bbadis.2013.11.014

Qiu, R., & Weninger, K. (2013). Dynamics of DNA Mismatch Repair Initiation Complex Revealed by Single Molecule Fluorescence. Biophysical Journal, 104(2), 368a. https://doi.org/10.1016/j.bpj.2012.11.2043

Qiu, R., & Weninger, K. (2012). Conformational Changes in MutS during Mismtach Repair Signaling Determined with Single Molecule FRET. Biophysical Journal, 102(3), 283a. https://doi.org/10.1016/j.bpj.2011.11.1564

Stamou, D., Christensen, S. M., Ehrlich, N., Tkach, V., Sakon, J. J., Choi, U. B., & Weninger, K. R. (2012). Cooperative All-Or-None Recruitment of Synaptotagmin C2AB on Single Vesicles Explains Why Ca2+ Regulates the Amplitude of SNARE Mediated Vesicle Fusion. Biophysical Journal, 102(3), 318a–319a. https://doi.org/10.1016/j.bpj.2011.11.1750

Weninger, K. (2012). Dynamics of DNA Mismatch Repair Revealed by Single Molecule FRET. Biophysical Journal, 102(3), 235a. https://doi.org/10.1016/j.bpj.2011.11.1291

Qiu, R., DeRocco, V. C., Harris, C., Sharma, A., Hingorani, M. M., Erie, D. A., & Weninger, K. R. (2012). Large conformational changes in MutS during DNA scanning, mismatch recognition and repair signalling. EMBO JOURNAL, 31(11), 2528–2540. https://doi.org/10.1038/emboj.2012.95

Brunger, A. T., Strop, P., Vrljic, M., Bowen, M., Chu, S., & Weninger, K. R. (2012). Macromolecular Models by Single Molecule FRET. In NATO Science for Peace and Security Series B: Physics and Biophysics (pp. 1–19). https://doi.org/10.1007/978-94-007-4923-8_1

Khalid, S., Kappus, B., Weninger, K., & Putterman, S. (2012). Opacity and Transport Measurements Reveal That Dilute Plasma Models of Sonoluminescence Are Not Valid. PHYSICAL REVIEW LETTERS, 108(10). https://doi.org/10.1103/physrevlett.108.104302

Sacho, E. J., & Weninger, K. R. (2012). Single Molecule FRET Studies of the DNA Mismatch Repair Protein MutSα using Specific Labeling with Unnatural Amino Acids. Biophysical Journal, 102(3), 282a. https://doi.org/10.1016/j.bpj.2011.11.1560

Choi, U. B., McCann, J. J., Weninger, K. R., & Bowen, M. E. (2011). Beyond the Random Coil: Stochastic Conformational Switching in Intrinsically Disordered Proteins. STRUCTURE, 19(4), 566–576. https://doi.org/10.1016/j.str.2011.01.011

Weninger, K. R. (2011, August). Complexin arrests a neighbor. NATURE STRUCTURAL & MOLECULAR BIOLOGY, Vol. 18, pp. 861–863. https://doi.org/10.1038/nsmb.2118

Qiu, R., & Weninger, K. (2011). Single Molecule FRET Study of Nucleotide Binding Effects on Muts Proteins. Biophysical Journal, 100(3), 223a. https://doi.org/10.1016/j.bpj.2010.12.1431

Brunger, A. T., Strop, P., Vrljic, M., Chu, S., & Weninger, K. R. (2011). Three-dimensional molecular modeling with single molecule FRET. JOURNAL OF STRUCTURAL BIOLOGY, 173(3), 497–505. https://doi.org/10.1016/j.jsb.2010.09.004

Sakon, J. J., & Weninger, K. R. (2010). Detecting the conformation of individual proteins in live cells. NATURE METHODS, 7(3), 203–U56. https://doi.org/10.1038/nmeth.1421

DeRocco, V. C., Anderson, T., Piehler, J., Erie, D. A., & Weninger, K. (2010). Four-color single-molecule fluorescence with noncovalent dye labeling to monitor dynamic multimolecular complexes. BIOTECHNIQUES, 49(5), 807-+. https://doi.org/10.2144/000113551

McCann, J. J., Choi, U. B., Zheng, L., Weninger, K., & Bowen, M. E. (2010). Optimizing Methods to Recover Absolute FRET Efficiency from Immobilized Single Molecules. BIOPHYSICAL JOURNAL, 99(3), 961–970. https://doi.org/10.1016/j.bpj.2010.04.063

McCann, J. J., Choi, U. B., Zheng, L., Weninger, K., & Bowen, M. E. (2010). Recovering Absolute Fret Efficiency from Single Molecules: Comparing Methods of Gamma Correction. Biophysical Journal, 98(3), 186a–187a. https://doi.org/10.1016/j.bpj.2009.12.998

Sass, L. E., Lanyi, C., Weninger, K., & Erie, D. A. (2010). Single-Molecule FRET TACKLE Reveals Highly Dynamic Mismatched DNA-MutS Complexes. BIOCHEMISTRY, 49(14), 3174–3190. https://doi.org/10.1021/bi901871u

Choi, U. B., Strop, P., Vrljic, M., Chu, S., Brunger, A. T., & Weninger, K. R. (2010). Single-molecule FRET-derived model of the synaptotagmin 1-SNARE fusion complex. NATURE STRUCTURAL & MOLECULAR BIOLOGY, 17(3), 318–U84. https://doi.org/10.1038/nsmb.1763

Fletcher, P. L., Jr., Fletcher, M. D., Weninger, K., Anderson, T. E., & Martin, B. M. (2010). Vesicle-associated Membrane Protein (VAMP) Cleavage by a New Metalloprotease from the Brazilian Scorpion Tityus serrulatus. JOURNAL OF BIOLOGICAL CHEMISTRY, 285(10), 7405–7416. https://doi.org/10.1074/jbc.m109.028365

Sakon, J. J., Ribeill, G. J., Garguilo, J. M., Perkins, J., Weninger, K. R., & Nemanich, R. J. (2009). Fluorescence quenching effects of nanocrystalline diamond surfaces. DIAMOND AND RELATED MATERIALS, 18(1), 82–87. https://doi.org/10.1016/j.diamond.2008.10.028

Weninger, K. (2009, August 12). How Do Adhesion Proteins Stick? STRUCTURE, Vol. 17, pp. 1035–1036. https://doi.org/10.1016/j.str.2009.07.003

Thongthai, W., & Weninger, K. (2009). Photoinactivation of Sindbis Virus Infectivity Without Inhibition of Membrane Fusion. PHOTOCHEMISTRY AND PHOTOBIOLOGY, 85(3), 801–806. https://doi.org/10.1111/j.1751-1097.2008.00475.x

Wessels, L., & Weninger, K. (2009). [Review of Physical Aspects of Viral Membrane Fusion]. THESCIENTIFICWORLDJOURNAL, 9, 764–780. https://doi.org/10.1100/tsw.2009.76

Brunger, A. T., Weninger, K., Bowen, M., & Chu, S. (2009). Single-Molecule Studies of the Neuronal SNARE Fusion Machinery. ANNUAL REVIEW OF BIOCHEMISTRY, Vol. 78, pp. 903–928. https://doi.org/10.1146/annurev.biochem.77.070306.103621

Weninger, K., Bowen, M. E., Choi, U. B., Chu, S., & Brunger, A. T. (2008). Accessory proteins stabilize the acceptor complex for synaptobrevin, the 1 : 1 syntaxin/SNAP-25 complex. STRUCTURE, 16(2), 308–320. https://doi.org/10.1016/j.str.2007.12.010

Wang, G. B., Hernandez, R., keith, & Brown, D. T. (2007). Infection of cells by Sindbis virus at low temperature. Virology, 362(2), 461–467. https://doi.org/10.1016/j.virol.2006.12.036

Li, Y., Augustine, G. J., & Weninger, K. (2007). Kinetics of complexin binding to the SNARE complex: Correcting single molecule FRET measurements for hidden events. BIOPHYSICAL JOURNAL, 93(6), 2178–2187. https://doi.org/10.1529/biophysj.106.101220

Wessels, L., Elting, M. W., Scimeca, D., & Weninger, K. (2007). Rapid membrane fusion of individual virus particles with supported lipid bilayers. BIOPHYSICAL JOURNAL, 93(2), 526–538. https://doi.org/10.1529/biophysj.106.097485