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Alexander van Oudenaarden, Ph.D. - Publications

Affiliations: 
Physics Massachusetts Institute of Technology, Cambridge, MA, United States 
Area:
Biophysics
Website:
http://web.mit.edu/biophysics
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24 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2021 Sen M, Mooijman D, Chialastri A, Boisset JC, Popovic M, Heindryckx B, Chuva de Sousa Lopes SM, Dey SS, van Oudenaarden A. Strand-specific single-cell methylomics reveals distinct modes of DNA demethylation dynamics during early mammalian development. Nature Communications. 12: 1286. PMID 33627650 DOI: 10.1038/s41467-021-21532-6  0.693
2016 Mooijman D, Dey SS, Boisset JC, Crosetto N, van Oudenaarden A. Single-cell 5hmC sequencing reveals chromosome-wide cell-to-cell variability and enables lineage reconstruction. Nature Biotechnology. PMID 27347753 DOI: 10.1038/Nbt.3598  0.55
2015 Kind J, Pagie L, de Vries SS, Nahidiazar L, Dey SS, Bienko M, Zhan Y, Lajoie B, de Graaf CA, Amendola M, Fudenberg G, Imakaev M, Mirny LA, Jalink K, Dekker J, ... van Oudenaarden A, et al. Genome-wide Maps of Nuclear Lamina Interactions in Single Human Cells. Cell. 163: 134-47. PMID 26365489 DOI: 10.1016/J.Cell.2015.08.040  0.517
2015 Dey SS, Kester L, Spanjaard B, Bienko M, van Oudenaarden A. Integrated genome and transcriptome sequencing of the same cell. Nature Biotechnology. 33: 285-9. PMID 25599178 DOI: 10.1038/Nbt.3129  0.55
2011 Steine EJ, Ehrich M, Bell GW, Raj A, Reddy S, van Oudenaarden A, Jaenisch R, Linhart HG. Genes methylated by DNA methyltransferase 3b are similar in mouse intestine and human colon cancer. The Journal of Clinical Investigation. 121: 1748-52. PMID 21490393 DOI: 10.1172/Jci43169  0.477
2010 Youk H, Raj A, van Oudenaarden A. Imaging single mRNA molecules in yeast. Methods in Enzymology. 470: 429-46. PMID 20946820 DOI: 10.1016/S0076-6879(10)70017-3  0.522
2010 Acar M, Pando BF, Arnold FH, Elowitz MB, van Oudenaarden A. A general mechanism for network-dosage compensation in gene circuits. Science (New York, N.Y.). 329: 1656-60. PMID 20929850 DOI: 10.1126/Science.1190544  0.443
2010 Raj A, Rifkin SA, Andersen E, van Oudenaarden A. Variability in gene expression underlies incomplete penetrance. Nature. 463: 913-8. PMID 20164922 DOI: 10.1038/Nature08781  0.653
2009 Khalil AM, Guttman M, Huarte M, Garber M, Raj A, Rivea Morales D, Thomas K, Presser A, Bernstein BE, van Oudenaarden A, Regev A, Lander ES, Rinn JL. Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proceedings of the National Academy of Sciences of the United States of America. 106: 11667-72. PMID 19571010 DOI: 10.1073/Pnas.0904715106  0.515
2009 Raj A, van Oudenaarden A. Single-molecule approaches to stochastic gene expression. Annual Review of Biophysics. 38: 255-70. PMID 19416069 DOI: 10.1146/Annurev.Biophys.37.032807.125928  0.535
2009 Gore J, Youk H, van Oudenaarden A. Snowdrift game dynamics and facultative cheating in yeast. Nature. 459: 253-6. PMID 19349960 DOI: 10.1038/Nature07921  0.371
2009 Gore J, van Oudenaarden A. Synthetic biology: The yin and yang of nature. Nature. 457: 271-2. PMID 19148089 DOI: 10.1038/457271A  0.395
2008 Raj A, van Oudenaarden A. Nature, nurture, or chance: stochastic gene expression and its consequences. Cell. 135: 216-26. PMID 18957198 DOI: 10.1016/J.Cell.2008.09.050  0.526
2008 Raj A, van den Bogaard P, Rifkin SA, van Oudenaarden A, Tyagi S. Imaging individual mRNA molecules using multiple singly labeled probes. Nature Methods. 5: 877-9. PMID 18806792 DOI: 10.1038/nmeth.1253  0.666
2008 Acar M, Mettetal JT, van Oudenaarden A. Stochastic switching as a survival strategy in fluctuating environments. Nature Genetics. 40: 471-5. PMID 18362885 DOI: 10.1038/Ng.110  0.459
2005 Acar M, Becskei A, van Oudenaarden A. Enhancement of cellular memory by reducing stochastic transitions. Nature. 435: 228-32. PMID 15889097 DOI: 10.1038/Nature03524  0.466
1999 Bruder C, Glazman LI, Larkin AI, Mooij JE, Van Oudenaarden A. Phase transition in a chain of quantum vortices Physical Review B - Condensed Matter and Materials Physics. 59: 1383-1395.  0.44
1998 Van Oudenaarden A, Devoret MH, Nazarov YV, Mooij JE. Magneto-electric Aharonov-Bohm effect in metal rings Nature. 391: 768-770. DOI: 10.1038/35808  0.451
1998 Van Oudenaarden A, Van Leeuwen B, Robbens MPM, Mooij JE. One-dimensional Mott localization of quantum vortices in Josephson-junction arrays Physical Review B - Condensed Matter and Materials Physics. 57: 11684-11690.  0.589
1998 Van Oudenaarden A, Nazarov YV, Mooij JE. Giant higher harmonic generation in mesoscopic metal wires and rings interrupted by tunnel junctions Physical Review B - Condensed Matter and Materials Physics. 57: 8816-8818.  0.43
1997 Van Oudenaarden A, Devoret MH, Visscher EH, Nazarov YV, Mooij JE. Conductance fluctuations in a metallic wire interrupted by a tunnel junction Physical Review Letters. 78: 3539-3542. DOI: 10.1103/Physrevlett.78.3539  0.449
1996 van Oudenaarden A, Vády SJK, Mooij JE. Bloch vortices in One-dimensional josephson junction arrays Czechoslovak Journal of Physics. 46: 707-708. DOI: 10.1007/BF02583661  0.45
1996 Van Oudenaarden A, Várdy SJK, Mooij JE. One-dimensional localization of quantum vortices in disordered josephson junction arrays Physical Review Letters. 77: 4257-4260.  0.47
1996 Van Oudenaarden A, Mooij JE. One-dimensional Mott insulator formed by quantum vortices in Josephson junction arrays Physical Review Letters. 76: 4947-4950.  0.475
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