Publications

Publication List (in reverse chronological order)  Lab members highlighted in bold:

Workman RE, Myrka AM, Tseng E, Wong GW, Welch KC, Timp W.§ Single molecule, full-length transcript sequencing provides insight into the extreme metabolism of ruby-throated hummingbird Archilochus colubris. bioRxiv. 2017 Mar 15;117218.

Simpson JT§, Workman RE, Zuzarte PC, David M, Dursi LJ, Timp W§. Detecting DNA cytosine methylation using nanopore sequencing. Nat Meth. 2017 Apr;14(4):407–410. PMID: 28218898

Norris AL, Workman RE, Fan Y, Eshleman JR, Timp W.§. Nanopore sequencing detects structural variants in cancer. Cancer Biology & Therapy. 2016 Jan 19;0(0):1–8. PMID: 26787508

Timp W, Nice AM, Nelson EM, Kurz V, McKelvey K, Timp G. Think Small: Nanopores for Sensing and Synthesis. IEEE Access. 2014;2:1396–1408.

Timp W, Bravo HC, McDonald OG, Goggins M, Umbricht C, Zeiger M, Feinberg AP, Irizarry RA. Large hypomethylated blocks as a universal defining epigenetic alteration in human solid tumors. Genome Med. 2014;6(8):61. PMCID: PMC4154522

Timp W, Feinberg AP. Cancer as a dysregulated epigenome allowing cellular growth advantage at the expense of the host. Nat Rev Cancer. 2013 Jul;13(7):497–510.

Nelson, E.M., V. Kurz, J. Shim, W. Timp§, G. Timp§. 2012. Using a Nanopore for Single Molecule Detection and Single Cell Transfection. The Analyst 137: 3020–3027. doi:10.1039/C2AN35571J.

Timp, W.§, J. Comer, A. Aksimentiev. 2012. DNA Base-calling via nanopore sequencing using a Viterbi algorithm. Biophysical Journal102, L37-L39.

McDonald, O.G., H. Wu, W. Timp, A. Doi, and A. P. Feinberg. 2011. Genome-scale epigenetic reprogramming during epithelial-to-mesenchymal transition. Nature Structural and Molecular Biology. 10.1038/nsmb.2084. (PMID: 21725293)

Hansen, K.D.*, W. Timp*, H.C. Bravo*, S. Sabunciyan*, B. Langmead*, O.G. McDonald, B. Wen, H. Wu, D. Diep, E. Briem, K. Zhang, R.A. Irizarry, and A. P. Feinberg. 2011. Increased methylation variation in epigenetic domains across cancer types. Nature Genetics. doi: 10.1038/ng.865. (PMID: 21706001)

Timp, W., U. M. Mirsaidov, D. Wang, J. Comer, A. Aksimentiev, and G. Timp. 2010. Nanopore Sequencing: Electrical Measurements of the Code of Life. Nanotechnology, IEEE Transactions on 9 (3):281-294. (PMID: 21572978)

Mirsaidov, U., W. Timp, X. Zou, V. Dimitrov, K. Schulten, A. P. Feinberg, and G. Timp. 2009. Nanoelectromechanics of Methylated DNA in a Synthetic Nanopore. Biophysical Journal 96 (4):L32-L34. (PMID: 19217843)

Timp, W., A. Levchenko, and A. P. Feinberg. 2009. A New Link Between Epigenetic Progenitor Lesions in Cancer and the Dynamics of Signal Transduction. Cell Cycle 8 (3):383-390. (PMID: 19177016)

Timp, W., and P. Matsudaira. 2008. Electron Microscopy of Hydrated Samples. In Biophysical Tools for Biologists, Vol 2: In Vivo Techniques. San Diego: Elsevier Academic Press Inc. (PMID: 19118683)

Timp, W., U. Mirsaidov, P. Matsudaira, and G. Timp. 2009. Jamming prokaryotic cell-to-cell communications in a model biofilm. Lab on a Chip 9:925-934. (PMID: 19294303)

Mirsaidov, U., J. Scrimgeour, W. Timp, K. Beck, M. Mir, P. Matsudaira, and G. Timp. 2008. Live cell lithography: Using optical tweezers to create synthetic tissue. Lab on a Chip 8 (12):2174-2181. (PMID: 19023484)

Mirsaidov, U,* W. Timp*, K. Timp, M. Mir, P. Matsudaira, and G. Timp. 2008. Optimal optical trap for bacterial viability. Physical Review E 78 (2):7. (PMID: 18850868)

Kaneda, A., C. J. Wang, R. Cheong, W. Timp, P. Onyango, B. Wen, C. A. Lacobuzio-Donahuel, R. Ohlsson, R. Andraos, M. A. Pearson, A. A. Sharov, D. L. Longol, M. S. H. Ko, A. Levchenko, and A. P. Feinberg. 2007. Enhanced sensitivity to IGF-II signalling links loss of imprinting of IGF2 to increased cell proliferation and tumour risk. Proceedings of the National Academy of Sciences of the United States of America 104 (52):20926-20931. (PMID: 18087038)

Zeskind, B.J., C.D. Jordan, W. Timp, D.J. Ehrlich, and P. Matsudaira. 2007. Mapping Nucleic Acid and Protein Mass in Live Cells by Deep Ultraviolet Microscopy. Nature Methods 4: 567-569. (PMID: 17546037)

Akselrod, G. M., W. Timp, Q. Zhao, C. Li, U. Mirsaidov, R. Timp, K. Timp, P. Matsudaira, and G. Timp. 2006. Laser-Guided Assembly of Heterotypic 3D Living Cell Microarrays. Biophysical Journal 91 (9):3456-3464. (Cover Article) (PMID: 16891375)

Timp, W., N. Watson, A. Sabban, O. Zik, and P. Matsudaira. 2006. Wet Electron Microscopy with Quantum Dots. Biotechniques 41 (3):295-298. (PMID: 16989089)

Tennant, D. M., G. L. Timp, L. E. Ocola, M. Green, T. Sorsch, A. Kornblit, F. Klemens, R. Kleiman, Y. Kim, and W. Timp. 1999. Progress toward a 30 nm silicon metal-oxide-semiconductor gate technology. Journal of Vacuum Science & Technology B 17 (6):3158-3163. 

O’Malley, M. L., G. L. Timp, W. Timp, S. V. Moccio, J. P. Garno, and R. N. Kleiman. 1999. Electrical simulation of scanning capacitance microscopy imaging of the pn junction with semiconductor probe tips. Applied Physics Letters 74 (24):3672-3674.