Summer Webinars on Digital Preservation, Web Archiving, Data Curation

The UC3 Summer Webinar Series is a forum for the discussion of timely topics of interest to the UC community such as digital preservation, web archiving and data curation.  The purpose of this series is to raise awareness of these issues, and the resources and services available to the UC community.  The webinars will feature librarians, scientists, and technologists.

Webinars are scheduled twice a month on the 2nd and 4th Thursdays from 2-3 pm PT, but check the schedule for exceptions and additions.  ReadyTalk will be used to provide both desktop and audio access.  Please feel free to drop in to whichever portion of the session that you can use.  After each seminar, the slides, audiorecording, and notes from the session will be added to this web page.

(h/t: BML Blog)

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Chemistry & Biochemistry, New UCSD Articles

Recent articles from faculty from the UC San Diego Department of Chemistry and Biochemistry, from Web of Science:

Canzi, G.; Mrse, A. A.; Kubiak, C. P., Diffusion-Ordered NMR Spectroscopy as a Reliable Alternative to TEM for Determining the Size of Gold Nanoparticles in Organic Solutions. Journal of Physical Chemistry C 2011, 115 (16), 7972-7978.

Dibrov, S. M.; McLean, J.; Parsons, J.; Hermann, T., Self-assembling RNA square. Proceedings of the National Academy of Sciences of the United States of America 2011, 108 (16), 6405-6408.

Dominguez, G.; Wilkins, G.; Thiemens, M. H., The Soret effect and isotopic fractionation in high-temperature silicate melts. Nature 2011, 473 (7345), 70-U134.

Emerich, B. M.; Moore, C. E.; Fox, B. J.; Rheingold, A. L.; Figueroa, J. S., Protecting-Group-Free Access to a Three-Coordinate Nickel(0) Tris-isocyanide. Organometallics 2011, 30 (9), 2598-2608.

Ling, T. T.; Xu, J.; Smith, R.; Ali, A.; Cantrell, C. L.; Theodorakis, E. A., Synthesis of (-)-callicarpenal, a potent arthropod repellent. Tetrahedron 2011, 67 (17), 3023-3029.

Masterson, L. R.; Shi, L.; Metcalfe, E.; Gao, J. L.; Taylor, S. S.; Veglia, G., Dynamically committed, uncommitted, and quenched states encoded in protein kinase A revealed by NMR spectroscopy. Proceedings of the National Academy of Sciences of the United States of America 2011, 108 (17), 6969-6974.

Nicolaou, K. C.; Simmons, N. L.; Chen, J. S.; Haste, N. M.; Nizet, V., Total synthesis and biological evaluation of marinopyrrole A and analogs. Tetrahedron Letters 2011, 52 (17), 2041-2043.

Radford, R. J.; Brodin, J. D.; Salgado, E. N.; Tezcan, F. A., Expanding the utility of proteins as platforms for coordination chemistry. Coordination Chemistry Reviews 2011, 255 (7-8), 790-803.

Sanchez, K. M.; Kang, G. P.; Wu, B. J.; Kim, J. E., Tryptophan-Lipid Interactions in Membrane Protein Folding Probed by Ultraviolet Resonance Raman and Fluorescence Spectroscopy. Biophysical Journal 2011, 100 (9), 2121-2130.

Shu, X. K.; Lev-Ram, V.; Deerinck, T. J.; Qi, Y. C.; Ramko, E. B.; Davidson, M. W.; Jin, Y. S.; Ellisman, M. H.; Tsien, R. Y., A Genetically Encoded Tag for Correlated Light and Electron Microscopy of Intact Cells, Tissues, and Organisms. PLoS Biology 2011, 9 (4).

Stevenson, J. D.; Wolynes, P. G., The Ultimate Fate of Supercooled Liquids. Journal of Physical Chemistry A 2011, 115 (16), 3713-3719.

Wu, E. C.; Andrew, J. S.; Buyanin, A.; Kinsella, J. M.; Sailor, M. J., Suitability of porous silicon microparticles for the long-term delivery of redox-active therapeutics. Chemical Communications 2011, 47 (20), 5699-5701.

Read more…

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3 New Nat’l Academy of Sciences Members from UC San Diego

The National Academy of Sciences today elected three professors from the University of California, San Diego to membership in the National Academy of Sciences, one of the highest honors bestowed on U.S. scientists and engineers.

Herbert Levine, J. Andrew McCammon and David T. Sandwell were among the 72 new members and 18 foreign associates elected to the academy today “in recognition of their distinguished and continuing achievements in original research.”
They join 89 current members of the UC San Diego faculty who previously had been named to membership in the academy, which was established by Congress in 1863 to serve as an official adviser to the federal government on matters of science and technology.

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Mechanical & Aerospace Engineering – New UCSD Articles

Recent publications from faculty in the UCSD Department of Mechanical & Aerospace Engineering:

Aragues R, Cortes J, Sagues C. 2011. Distributed consensus algorithms for merging feature-based maps with limited communication. Robotics and Autonomous Systems 59(3-4):163-180.

Cheong S, Bitmead RR. 2011. Instability detection of ARMA systems based on AR system identification. Systems & Control Letters 60(3):185-191.

Childress S, Spagnolie SE, Tokieda T. 2011. A bug on a raft: recoil locomotion in a viscous fluid. Journal of Fluid Mechanics 669:527-556.

Krstic M. 2011. Dead-Time Compensation for Wave/String PDEs. Journal of Dynamic Systems Measurement and Control-Transactions of the Asme 133(3).

Lahiri I, Lahiri D, Jin SH, Agarwal A, Choi W. 2011. Carbon Nanotubes: How Strong Is Their Bond with the Substrate? ACS Nano 5(2):780-787.

Lal R, Ramachandran S, Arnsdorf MF. 2010. Multidimensional Atomic Force Microscopy: A Versatile Novel Technology for Nanopharmacology Research. AAPS Journal 12(4):716-728.

Lauga E. 2011. Life around the scallop theorem. Soft Matter 7(7):3060-3065.

Lave M, Kleissl J. 2011. Optimum fixed orientations and benefits of tracking for capturing solar radiation in the continental United States. Renewable Energy 36(3):1145-1152.

Nemat-Nasser S, Willis JR, Srivastava A, Amirkhizi AV. 2011. Homogenization of periodic elastic composites and locally resonant sonic materials. Physical Review B 83(10).

Urzay J, Nayagam V, Williams FA. 2011. Theory of the propagation dynamics of spiral edges of diffusion flames in von Karman swirling flows. Combustion and Flame 158(2):255-272.

Wang P, Tartakovsky DM. 2011. Reduced complexity models for probabilistic forecasting of infiltration rates. Advances in Water Resources 34(3):375-382.

Zhu MH, Martinez S. 2011. On the Convergence Time of Asynchronous Distributed Quantized Averaging Algorithms. IEEE Transactions on Automatic Control 56(2):386-390.

Read more…

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New UCSD Articles in Mathematics

Recent articles by faculty and graduate students in the UCSD Department of Mathematics:

BALOGH, J. & BUTTERFIELD, J. 2010. Online Ramsey games for triangles in random graphs. Discrete Mathematics, 310, 3653-3657.

BALOGH, J., CSABA, B. & SAMOTIJ, W. 2011. Local Resilience of Almost Spanning Trees in Random Graphs. Random Structures & Algorithms, 38, 121-139.

BUSS, S. R. & JOHNSON, A. S. 2010. The quantifier complexity of polynomial-size iterated definitions in first-order logic. Mathematical Logic Quarterly, 56, 573-590.

CHENG, L. T. & HU, K. 2011. On Solutions to Euler-Lagrange Equations Governing Isotropic, Homogeneous, Naturally Curved Kirchhoff’s Elastic Rods. Journal of Elasticity, 102, 1-14.

CHENG, Y. H., YU, Z. Y., HOSHIJIMA, M., HOLST, M. J., MCCULLOCH, A. D., MCCAMMON, J. A. & MICHAILOVA, A. P. 2010b. Numerical Analysis of Ca2+ Signaling in Rat Ventricular Myocytes with Realistic Transverse-Axial Tubular Geometry and Inhibited Sarcoplasmic Reticulum. PlOS Computational Biology, 6.

GOUR, G. & WALLACH, N. R. 2010. All maximally entangled four-qubit states. Journal of Mathematical Physics, 51, 112201.

GURALNICK, R. M., SMALL, L. W. & ZELMANOV, E. 2010. Nil subrings of endomorphism rings of finitely generated modules over affine PI-rings. Journal of Algebra, 324, 3044-3047.

KLALES, A., CIANCI, D., NEEDELL, Z., MEYER, D. A. & LOVE, P. J. 2010. Lattice gas simulations of dynamical geometry in two dimensions. Physical Review E, 82, 046705.

MONTANER, F., STOLIN, A. & ZELMANOV, E. 2010. Classification of Lie bialgebras over current algebras. Selecta Mathematica-New Series, 16, 935-962.

ROGALSKI, D. 2011. Blowup subalgebras of the Sklyanin algebra. Advances in Mathematics, 226, 1433-1473.

Read more…

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“REvolution of Computing” (CSE Faculty Lecture)

The Science & Engineering Library is pleased to invite you to a lecture by Professor Ryan Kastner entitled, “REvolution of Computing.”

Thursday, January 27, 2011
3:00 – 4:00 pm
Science & Engineering Library

In the past century, the number and impact of computers has grown from just a few in the entire world
to the point today where they far outnumber humans, and permeate every aspect of our lives. The unprecedented growth in computation has ushered in an age of cheap, yet extremely powerful processors. This talk will present a brief history of computation, highlighting the various computing revolutions which have occurred. Also included will be an overview of research projects on embedded computing systems being developed at UCSD, covering topics like biomedical imaging, robotics, ecological monitoring, and the technology behind the National Geographic Engineers for Exploration program.

Ryan Kastner is Associate Professor in the Department of Computer Science and Engineering and Co-Director of the National Geographic Engineers for Exploration. Prior to joining UCSD in 2007, he was Associate Professor of Electrical and Computer Engineering at UC Santa Barbara. He received his PhD in computer science at UCLA, a masters degree in engineering and BS in both electrical engineering and computer engineering at Northwestern University.

The lecture is free and open to students, faculty, staff, and the public. Please register online at

Light refreshments will be served. More information.

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8 UCSD Faculty Named New AAAS Fellows

Eight UC San Diego professors have been named new Fellows of the American Association for the Advancement of Science (AAAS), the world’s largest general scientific society.

Philip E. Bourne, Xiang-Dong Fu, Kun-Liang Guan, Yishi Jin, Peter J. Novick, Bernhard Palsson and Kang Zhang were among 503 AAAS members selected by colleagues in their disciplines to be honored this year for “efforts toward advancing science applications that are deemed scientifically or socially distinguished.”
UCSD press release

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Chancellor Fox Receives National Medal of Science

From the White House, the video of the National Medal of Science and National Medal of Technology and Innovation Awards Ceremony.  UCSD Chancellor and chemistry professor Marye Anne Fox was among the National Medial of Science recipients.

Also, Obama awards science medal to UCSD’s Fox (San Diego Union Tribune)

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White House Chat: Fox, Sasson and Washington

From the White House Blog:

Yesterday, three National Medal recipients joined us for Tuesday Talks – including Steven Sasson, the inventor of the digital camera; Marye Anne Fox, a pioneer in organic photochemistry and electrochemistry; and Warren Washington, a leader in climate change research. They answered your questions on a range of topics – from the evolution of digital photography to careers for women in Science, Technology, Engineering, and Mathematics (STEM) — in a live video chat on and Facebook.

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UCSD NanoEngineering Articles

Recent articles from the UC San Diego Department of NanoEngineering (via Web of Science)

Adharapurapu, R. R., Jiang, F. C., Bingert, J. F. and Vecchio, K. S. (2010) ‘Influence of cold work and texture on the high-strain-rate response of Nitinol‘, Materials Science and Engineering a-Structural Materials Properties Microstructure and Processing, 527(20), 5255-5267.

Aryal, S., Hu, C. M. J. and Zhang, L. F. (2010) ‘Combinatorial Drug Conjugation Enables Nanoparticle Dual-Drug Delivery‘, Small, 6(13), 1442-1448.

Chan, M. K. Y., Reed, J., Donadio, D., Mueller, T., Meng, Y. S., Galli, G. and Ceder, G. (2010) ‘Cluster expansion and optimization of thermal conductivity in SiGe nanowires‘, Physical Review B, 81(17).

Clawson, C., Huang, C. T., Futalan, D., Seible, D. M., Saenz, R., Larsson, M., Ma, W. X., Minev, B., Zhang, F., Ozkan, M., Ozkan, C., Esener, S. and Messmer, D. (2010) ‘Delivery of a peptide via poly(D,L-lactic-co-glycolic) acid nanoparticles enhances its dendritic cell-stimulatory capacity‘, Nanomedicine-Nanotechnology Biology and Medicine, 6(5), 651-661.

Fomina, N., McFearin, C., Sermsakdi, M., Edigin, O. and Almutairi, A. (2010) ‘UV and Near-IR Triggered Release from Polymeric Nanoparticles‘, Journal of the American Chemical Society, 132(28), 9540-9542.

Lefkowitz, R. B., Schmid-Schonbein, G. W. and Heller, M. J. (2010) ‘Whole blood assay for trypsin activity using polyanionic focusing gel electrophoresis‘, Electrophoresis, 31(14), 2442-2451.

Meluzzi, D., Smith, D. E. and Arya, G. (2010) ‘Biophysics of Knotting‘, Annual Review of Biophysics, Vol 39, 349-366.

Noh, H., Choi, C., Hung, A. M., Jin, S. H. and Cha, J. N. (2010) ‘Site-Specific Patterning of Highly Ordered Nanocrystal Super lattices through Biomolecular Surface Confinement‘, ACS Nano, 4(9), 5076-5080.

Svancara, I., Prior, C., Hocevar, S. B. and Wang, J. (2010) ‘A Decade with Bismuth-Based Electrodes in Electroanalysis‘, Electroanalysis, 22(13), 1405-1420.

Tao, A. R., Niesz, K. and Morse, D. E. (2010) ‘Bio-inspired nanofabrication of barium titanate‘, Journal of Materials Chemistry, 20(37), 7916-7923.

Wang, J. and Katz, E. (2010) ‘Digital biosensors with built-in logic for biomedical applications-biosensors based on a biocomputing concept‘, Analytical and Bioanalytical Chemistry, 398(4), 1591-1603.

Read more…

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