Virtual Journal of Biological Physics Research -- January 15, 2012

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QUANTUM MECHANICAL DYNAMICS

Experimental and theoretical investigation of the triple differential cross section for electron impact ionization of pyrimidine molecules
J. D. Builth-Williams, S. M. Bellm, D. B. Jones, Hari Chaluvadi, D. H. Madison, C. G. Ning, B. Lohmann, and M. J. Brunger
The Journal of Chemical Physics   136, 024304 (2012) (6 pages)   
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Vibrational dynamics of pyrrole via frequency-domain spectroscopy
Alexander Portnov, Michael Epshtein, Salman Rosenwaks, and Ilana Bar
The Journal of Chemical Physics   136, 024313 (2012) (6 pages)   
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The reaction mechanism of hydroxyethylphosphonate dioxygenase: a QM/MM study
Likai Du, Jun Gao, Yongjun Liu, Dongju Zhang, and Chengbu Liu
Organic and Biomolecular Chemistry   10, 1014-1024 (2012)   
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Energetics of short hydrogen bonds in photoactive yellow protein
Keisuke Saito and Hiroshi Ishikita
Proceedings of the National Academy of Sciences of the United States of America   109, 167-172 (2012)   
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Amino acid analogues bind to carbon nanotube via - interactions: Comparison of molecular mechanical and quantum mechanical calculations
Zaixing Yang, Zhigang Wang, Xingling Tian, Peng Xiu, and Ruhong Zhou
The Journal of Chemical Physics   136, 025103 (2012) (10 pages)   
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Large Molecules Reveal a Linear Length Scaling for Double Photoionization
T. Hartman, P. N. Juranić, K. Collins, B. Reilly, N. Appathurai, and R. Wehlitz
Physical Review Letters   108, 023001 (2012) (4 pages)   
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Hydrogen bonds in the nucleobase-gold complexes: Photoelectron spectroscopy and density functional calculations
Guo-Jin Cao, Hong-Guang Xu, Ren-Zhong Li, and Weijun Zheng
The Journal of Chemical Physics   136, 014305 (2012) (8 pages)   
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Phonon-mediated path-interference in electronic energy transfer
Hoda Hossein-Nejad, Alexandra Olaya-Castro, and Gregory D. Scholes
The Journal of Chemical Physics   136, 024112 (2012) (9 pages)   
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Photodissociation pathways and lifetimes of protonated peptides and their dimers
G. Aravind, B. Klærke, J. Rajput, Y. Toker, L. H. Andersen, A. V. Bochenkova, R. Antoine, J. Lemoine, A. Racaud, and P. Dugourd
The Journal of Chemical Physics   136, 014307 (2012) (14 pages)   
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PHYSICS OF WATER AND HYDROGEN-BONDED SOLVENTS

Molecular dynamics simulation study of the water-mediated interaction between zwitterionic and charged surfaces
Changsun Eun and Max L. Berkowitz
The Journal of Chemical Physics   136, 024501 (2012) (6 pages)   
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Molecular theory of solvation for supramolecules and soft matter structures: application to ligand binding, ion channels, and oligomeric polyelectrolyte gelators
Andriy Kovalenko, Alexander E. Kobryn, Sergey Gusarov, Olga Lyubimova, Xiangjun Liu, Nikolay Blinov, and Masaru Yoshida
Soft Matter   8, 1508-1520 (2012)   
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MEMBRANE BIOPHYSICS

Free energy profiles for penetration of methane and water molecules into spherical sodium dodecyl sulfate micelles obtained using the thermodynamic integration method combined with molecular dynamics calculations
K. Fujimoto, N. Yoshii, and S. Okazaki
The Journal of Chemical Physics   136, 014511 (2012) (9 pages)   
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Collapse and coacervation of a lamellar phase by inter-headgroup bridging
Antara Pal, P. Bharath, Sudipta G. Dastidar, and V. A. Raghunathan
Soft Matter   8, 927-930 (2012)   
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Interaction of lipid vesicle with silver nanoparticle-serum albumin protein corona
Ran Chen, Poonam Choudhary, Ryan N. Schurr, Priyanka Bhattacharya, Jared M. Brown, and Pu Chun Ke
Applied Physics Letters   100, 013703 (2012) (4 pages)   
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Structure and dynamics of nano-sized raft-like domains on the plasma membrane
Fernando E. Herrera and Sergio Pantano
The Journal of Chemical Physics   136, 015103 (2012) (11 pages)   
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Open structure of the Ca²⁺ gating ring in the high-conductance Ca²⁺-activated K⁺ channel
Peng Yuan, Manuel D. Leonetti, Yichun Hsiung, and Roderick MacKinnon
Nature   481, 94-97 (2011)   
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Development of the first sphingomyelin biomimetic stationary phase for immobilized artificial membrane (IAM) chromatography
Dieter Verzele, Frédéric Lynen, Mike De Vrieze, Adrian G. Wright, Melissa Hanna-Brown, and Pat Sandra
Chemical Communications   48, 1162-1164 (2012)   
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Biofilm detachment by self-collapsing air microbubbles: a potential chemical-free cleaning technology for membrane biofouling
Ashutosh Agarwal, Huijuan Xu, Wun Jern Ng, and Yu Liu
Journal of Materials Chemistry   22, 2203-2207 (2012)   
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Structural basis for gating charge movement in the voltage sensor of a sodium channel
Vladimir Yarov-Yarovoy, Paul G. DeCaen, Ruth E. Westenbroek, Chien-Yuan Pan, Todd Scheuer, David Baker, and William A. Catterall
Proceedings of the National Academy of Sciences of the United States of America   109, E93-E102 (2012)   
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Small polar molecules like glycerol and urea can preserve the fluidity of lipid bilayers under dry conditions
A. Nowacka, S. Douezan, L. Wadsö, D. Topgaard, and E. Sparr
Soft Matter   8, 1482-1491 (2012)   
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Surface-grafted zwitterionic polymers as platforms for functional supported phospholipid membranes
M. Gabriella Santonicola, Mine Memesa, Anna Meszyńska, Yujie Ma, and G. Julius Vancso
Soft Matter   8, 1556-1562 (2012)   
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Polysaccharide based covalently linked multi-membrane hydrogels
Anandhan Dhanasingh and Jürgen Groll
Soft Matter   8, 1643-1647 (2012)   
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Membrane labeling and immobilization via copper-free click chemistry
Heidi E. Bostic, Matthew D. Smith, Andrei A. Poloukhtine, Vladimir V. Popik, and Michael D. Best
Chemical Communications   48, 1431-1433 (2012)   
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Nature of curvature coupling of amphiphysin with membranes depends on its bound density
Benoît Sorre, Andrew Callan-Jones, John Manzi, Bruno Goud, Jacques Prost, Patricia Bassereau, and Aurélien Roux
Proceedings of the National Academy of Sciences of the United States of America   109, 173-178 (2012)   
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FUNDAMENTAL POLYMER STATICS/DYNAMICS

Isothermal crystallization of poly(3-hydroxybutyrate) studied by terahertz two-dimensional correlation spectroscopy
Hiromichi Hoshina, Shinya Ishii, Yusuke Morisawa, Harumi Sato, Isao Noda, Yukihiro Ozaki, and Chiko Otani
Applied Physics Letters   100, 011907 (2012) (3 pages)   
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Comparison of the kinetic friction of planar neutral and polyelectrolyte polymer brushes using molecular dynamics simulations
Yangpeng Ou, Jeffrey B. Sokoloff, and Mark J. Stevens
Physical Review E   85, 011801 (2012) (7 pages)   
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Phase diagram of two-dimensional systems of dipole-like colloids
Heiko Schmidle, Carol K. Hall, Orlin D. Velev, and Sabine H. L. Klapp
Soft Matter   8, 1521-1531 (2012)   
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Multi-scale modeling of diffusion-controlled reactions in polymers: Renormalisation of reactivity parameters
Ralf Everaers and Angelo Rosa
The Journal of Chemical Physics   136, 014902 (2012) (13 pages)   
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Weak-to-strong confinement transition of semi-flexible macromolecules in slit and in channel
Peter Cifra
The Journal of Chemical Physics   136, 024902 (2012) (7 pages)   
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Nuclear magnetic resonance investigation of dynamics in poly(ethylene oxide)-based lithium polyether-ester-sulfonate ionomers
David J. Roach, Shichen Dou, Ralph H. Colby, and Karl T. Mueller
The Journal of Chemical Physics   136, 014510 (2012) (9 pages)   
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PROTEIN CONFORMATIONAL DYNAMICS/FOLDING

Revealing conformational substates of lipidated N-Ras protein by pressure modulation
Shobhna Kapoor, Gemma Triola, Ingrid R. Vetter, Mirko Erlkamp, Herbert Waldmann, and Roland Winter
Proceedings of the National Academy of Sciences of the United States of America   109, 460-465 (2012)   
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Cooperative macromolecular device revealed by meta-analysis of static and time-resolved structures
Zhong Ren, Vukica Šrajer, James E. Knapp, and William E. Royer
Proceedings of the National Academy of Sciences of the United States of America   109, 107-112 (2012)   
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Exploring one-state downhill protein folding in single molecules
Jianwei Liu, Luis A. Campos, Michele Cerminara, Xiang Wang, Ravishankar Ramanathan, Douglas S. English, and Victor Muñoz
Proceedings of the National Academy of Sciences of the United States of America   109, 179-184 (2012)   
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Viscosity and diffusion: crowding and salt effects in protein solutions
Marco Heinen, Fabio Zanini, Felix Roosen-Runge, Diana Fedunová, Fajun Zhang, Marcus Hennig, Tilo Seydel, Ralf Schweins, Michael Sztucki, Marián Antalík, Frank Schreiber, and Gerhard Nägele
Soft Matter   8, 1404-1419 (2012)   
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Dynamic structure factor of vibrating fractals: Proteins as a case study
Shlomi Reuveni, Joseph Klafter, and Rony Granek
Physical Review E   85, 011906 (2012) (18 pages)   
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Dynamics of highly concentrated protein solutions around the denaturing transition
Marcus Hennig, Felix Roosen-Runge, Fajun Zhang, Stefan Zorn, Maximilian W. A. Skoda, Robert M. J. Jacobs, Tilo Seydel, and Frank Schreiber
Soft Matter   8, 1628-1633 (2012)   
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Effect of glycerol and dimethyl sulfoxide on the phase behavior of lysozyme: Theory and experiments
Christoph Gögelein, Dana Wagner, Frédéric Cardinaux, Gerhard Nägele, and Stefan U. Egelhaaf
The Journal of Chemical Physics   136, 015102 (2012) (12 pages)   
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The proteasomal subunit Rpn6 is a molecular clamp holding the core and regulatory subcomplexes together
Ganesh Ramnath Pathare, István Nagy, Stefan Bohn, Pia Unverdorben, Agnes Hubert, Roman Körner, Stephan Nickell, Keren Lasker, Andrej Sali, Tomohiro Tamura, Taiki Nishioka, Friedrich Förster, Wolfgang Baumeister, and Andreas Bracher
Proceedings of the National Academy of Sciences of the United States of America   109, 149-154 (2012)   
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Binary complex crystal structure of DNA polymerase reveals multiple conformations of the templating 8-oxoguanine lesion
Vinod K. Batra, David D. Shock, William A. Beard, Charles E. McKenna, and Samuel H. Wilson
Proceedings of the National Academy of Sciences of the United States of America   109, 113-118 (2012)   
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An unanticipated architecture of the 750-kDa _{6 6} holoenzyme of 3-methylcrotonyl-CoA carboxylase
Christine S. Huang, Peng Ge, Z. Hong Zhou, and Liang Tong
Nature   481, 219-223 (2011)   
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Nonplanar peptide bonds in proteins are common and conserved but not biased toward active sites
Donald S. Berkholz, Camden M. Driggers, Maxim V. Shapovalov, Roland L. Dunbrack, and P. Andrew Karplus
Proceedings of the National Academy of Sciences of the United States of America   109, 449-453 (2012)   
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Disordered form of the scaffold protein IscU is the substrate for iron-sulfur cluster assembly on cysteine desulfurase
Jin Hae Kim, Marco Tonelli, and John L. Markley
Proceedings of the National Academy of Sciences of the United States of America   109, 454-459 (2012)   
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Spectroscopic analysis of immobilised redox enzymes under direct electrochemical control
Philip A. Ash and Kylie A. Vincent
Chemical Communications   48, 1400-1409 (2012)   
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Structure of a methyl-coenzyme M reductase from Black Sea mats that oxidize methane anaerobically
Seigo Shima, Martin Krueger, Tobias Weinert, Ulrike Demmer, Jrg Kahnt, Rudolf K. Thauer, and Ulrich Ermler
Nature   481, 98-101 (2011)   
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Stabilized G protein binding site in the structure of constitutively active metarhodopsin-II
Xavier Deupi, Patricia Edwards, Ankita Singhal, Benjamin Nickle, Daniel Oprian, Gebhard Schertler, and Jörg Standfuss
Proceedings of the National Academy of Sciences of the United States of America   109, 119-124 (2012)   
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Conformational properties of cardiolipin-bound cytochrome c
Jonas Hanske, Jason R. Toffey, Anna M. Morenz, Amber J. Bonilla, Katherine H. Schiavoni, and Ekaterina V. Pletneva
Proceedings of the National Academy of Sciences of the United States of America   109, 125-130 (2012)   
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Heat shock protein 90's mechanochemical cycle is dominated by thermal fluctuations
Christoph Ratzke, Felix Berkemeier, and Thorsten Hugel
Proceedings of the National Academy of Sciences of the United States of America   109, 161-166 (2012)   
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DNA CONFORMATIONAL DYNAMICS

On binding of DNA-bending proteins to DNA minicircles
Shlomi Medalion and Yitzhak Rabin
The Journal of Chemical Physics   136, 025102 (2012) (9 pages)   
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Low-energy electron scattering with the purine bases of DNA/RNA using the R-matrix method
Amar Dora, Lilianna Bryjko, Tanja van Mourik, and Jonathan Tennyson
The Journal of Chemical Physics   136, 024324 (2012) (8 pages)   
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An immersed boundary method for Brownian dynamics simulation of polymers in complex geometries: Application to DNA flowing through a nanoslit with embedded nanopits
Yu Zhang, Juan J. de Pablo, and Michael D. Graham
The Journal of Chemical Physics   136, 014901 (2012) (14 pages)   
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Resolution limit for DNA barcodes in the Odijk regime
Yanwei Wang, Wes F. Reinhart, Douglas R. Tree, and Kevin D. Dorfman
Biomicrofluidics   6, 014101 (2012) (9 pages)   
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Regulation of oxidative DNA damage repair by DNA polymerase and MutYH by cross-talk of phosphorylation and ubiquitination
Enni Markkanen, Barbara van Loon, Elena Ferrari, Jason L. Parsons, Grigory L. Dianov, and Ulrich Hübscher
Proceedings of the National Academy of Sciences of the United States of America   109, 437-442 (2012)   
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Nucleobase recognition at alkaline pH and apparent pK_a of single DNA bases immobilised within a biological nanopore
Lorenzo Franceschini, Ellina Mikhailova, Hagan Bayley, and Giovanni Maglia
Chemical Communications   48, 1520-1522 (2012)   
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DNA duplexes and triplex-forming oligodeoxynucleotides incorporating modified nucleosides forming stable and selective triplexes
Takashi Kanamori, Yoshiaki Masaki, Masahiro Mizuta, Hirosuke Tsunoda, Akihiro Ohkubo, Mitsuo Sekine, and Kohji Seio
Organic and Biomolecular Chemistry   10, 1007-1013 (2012)   
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SINGLE MOLECULE DYNAMICS

Following aptamer–ricin specific binding by single molecule recognition and force spectroscopy measurements
Bin Wang, Cunlan Guo, Guojun Chen, Bosoon Park, and Bingqian Xu
Chemical Communications   48, 1644-1646 (2012)   
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Identification of the atomic scale structures of the gold-thiol interfaces of molecular nanowires by inelastic tunneling spectroscopy
Firuz Demir and George Kirczenow
The Journal of Chemical Physics   136, 014703 (2012) (12 pages)   
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Polymer-monovalent salt-induced DNA compaction studied via single-molecule microfluidic trapping
Weilin Xu and Susan J. Muller
Lab on a Chip   12, 647-651 (2012)   
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Direct characterization of protein oligomers and their quaternary structures by single-molecule FRET
Cheolhee Kim, Jae Yeol Kim, Seung Hyeon Kim, Byung Il Lee, and Nam Ki Lee
Chemical Communications   48, 1138-1140 (2012)   
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INTERMOLECULAR INTERACTIONS

2D amyloid aggregation of human islet amyloid polypeptide at the solid–liquid interface
Ye-Ping Yu, Shuai Zhang, Qian Liu, Yan-Mei Li, Chen Wang, Flemming Besenbacher, and Mingdong Dong
Soft Matter   8, 1616-1622 (2012)   
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Design, synthesis and protein-targeting properties of thioether-linked hydrogen bond surrogate helices
Andrew B. Mahon and Paramjit S. Arora
Chemical Communications   48, 1416-1418 (2012)   
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A triple helical structure supported solely by C–HO hydrogen bonding
Kwang-Ming Lee, Jack C. C. Chen, Hsing-Yin Chen, and Ivan J. B. Lin
Chemical Communications   48, 1242-1244 (2012)   
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Interactions between CD44 protein and hyaluronan: insights from the computational study
Wojciech Plazinski and Agnieszka Knys-Dzieciuch
Molecular BioSystems   8, 543-547 (2012)   
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Self-assembly of human amylin-derived peptides studied by atomic force microscopy and single molecule force spectroscopy
Juan José Valle-Delgado, Inta Liepina, Dmitrijs Lapidus, Raimon Sabaté, Salvador Ventura, Josep Samitier, and Xavier Fernàndez-Busquets
Soft Matter   8, 1234-1242 (2012)   
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Charge-controlled metastable liquid–liquid phase separation in protein solutions as a universal pathway towards crystallization
Fajun Zhang, Roland Roth, Marcell Wolf, Felix Roosen-Runge, Maximilian W. A. Skoda, Robert M. J. Jacobs, Michael Stzucki, and Frank Schreiber
Soft Matter   8, 1313-1316 (2012)   
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Protein-covered silica nano-particles adsorbing onto synthetic vesicles
Federica De Persiis, Camillo La Mesa, and Ramon Pons
Soft Matter   8, 1361-1368 (2012)   
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Structure-based design of conformation- and sequence-specific antibodies against amyloid
Joseph M. Perchiacca, Ali Reza A. Ladiwala, Moumita Bhattacharya, and Peter M. Tessier
Proceedings of the National Academy of Sciences of the United States of America   109, 84-89 (2012)   
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A single conformational transglutaminase 2 epitope contributed by three domains is critical for celiac antibody binding and effects
Zsófia Simon-Vecsei, Róbert Király, Péter Bagossi, Boglárka Tóth, Ingrid Dahlbom, Sergio Caja, Éva Csősz, Katri Lindfors, Daniele Sblattero, Éva Nemes, Markku Mäki, László Fésüs, and Ilma R. Korponay-Szabó
Proceedings of the National Academy of Sciences of the United States of America   109, 431-436 (2012)   
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PHYSICAL STUDIES OF CELL MECHANICS

Counterion-induced formation of regular actin bundle networks
Florian Huber, Dan Strehle, and Josef Käs
Soft Matter   8, 931-936 (2012)   
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Estimating the bending modulus of a FtsZ bacterial-division protein filament
Eric N. Cytrynbaum, Yongnan Devin Li, Jun F. Allard, and Hadi Mehrabian
Physical Review E   85, 011902 (2012) (9 pages)   
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Deformation of a single red blood cell in bounded Poiseuille flows
Lingling Shi, Tsorng-Whay Pan, and Roland Glowinski
Physical Review E   85, 016307 (2012) (15 pages)   
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The biosonar field around an Atlantic bottlenose dolphin (Tursiops truncatus)
Whitlow W. L. Au, Brian Branstetter, Patrick W. Moore, and James J. Finneran
The Journal of the Acoustical Society of America   131, 569-576 (2012)   
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Dual-medium quantitative measurement simulation on cells
Yawei Wang, Weifeng Jin, and Naifei Ren
Applied Optics   50, 6440-6445 (2011)   
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A thermodynamical model for stress-fiber organization in contractile cells
Louis Foucard and Franck J. Vernerey
Applied Physics Letters   100, 013702 (2012) (4 pages)   
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Forced wave motion with internal and boundary damping
Tobias Louw, Scott Whitney, Anu Subramanian, and Hendrik Viljoen
Journal of Applied Physics   111, 014702 (2012) (8 pages)   
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Biocompatible noisy nanotopographies with specific directionality for controlled anisotropic cell cultures
Sandro Meucci, Ilaria Tonazzini, Fabio Beltram, and Marco Cecchini
Soft Matter   8, 1109-1119 (2012)   
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Modeling of thermal effects in antivascular ultrasound therapy
Benjamin J. Levenback, Chandra M. Sehgal, and Andrew K. W. Wood
The Journal of the Acoustical Society of America   131, 540-549 (2012)   
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Hierarchical fiber bundle model to investigate the complex architectures of biological materials
Nicola M. Pugno, Federico Bosia, and Tamer Abdalrahman
Physical Review E   85, 011903 (2012) (8 pages)   
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Tail-assisted pitch control in lizards, robots and dinosaurs
Thomas Libby, Talia Y. Moore, Evan Chang-Siu, Deborah Li, Daniel J. Cohen, Ardian Jusufi, and Robert J. Full
Nature   481, 181-184 (2012)   
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Bubblegrams Reveal the Inner Body of Bacteriophage KZ
Weimin Wu, Julie A. Thomas, Naiqian Cheng, Lindsay W. Black, and Alasdair C. Steven
Science   335, 182 (2012)   
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A viscoelastic regime in dilute hydrophobin monolayers
Elodie Aumaitre, Simon Wongsuwarn, Damiano Rossetti, Nicholas D. Hedges, Andrew R. Cox, Dominic Vella, and Pietro Cicuta
Soft Matter   8, 1175-1183 (2012)   
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The transparent crab: preparation and nanostructural implications for bioinspired optically transparent nanocomposites
Md. Iftekhar Shams, Masaya Nogi, Lars A. Berglund, and Hiroyuki Yano
Soft Matter   8, 1369-1373 (2012)   
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Depth measurements of drilled holes in bone by laser triangulation for the field of oral implantology
D. Quest, C. Gayer, and P. Hering
Journal of Applied Physics   111, 013106 (2012) (5 pages)   
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INFORMATION TRANSFER IN BIOLOGICAL SYSTEMS

Cellular ability to sense spatial gradients in the presence of multiple competitive ligands
Shu-Hao Liou and Chia-Chu Chen
Physical Review E   85, 011904 (2012) (7 pages)   
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Properties of underwater acoustic communication channels in shallow water
T. C. Yang
The Journal of the Acoustical Society of America   131, 129-145 (2012)   
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Noise effects in nonlinear biochemical signaling
Neda Bostani, David A. Kessler, Nadav M. Shnerb, Wouter-Jan Rappel, and Herbert Levine
Physical Review E   85, 011901 (2012) (9 pages)   
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Plant extracellular ATP signalling: new insight from proteomics
Stephen Chivasa and Antoni R. Slabas
Molecular BioSystems   8, 445-452 (2012)   
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Secreted Wingless-interacting molecule (Swim) promotes long-range signaling by maintaining Wingless solubility
Kimberly A. Mulligan, Christophe Fuerer, Wendy Ching, Matt Fish, Karl Willert, and Roeland Nusse
Proceedings of the National Academy of Sciences of the United States of America   109, 370-377 (2012)   
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Evidence for formation of DNA repair centers and dose-response nonlinearity in human cells
Teresa Neumaier, Joel Swenson, Christopher Pham, Aris Polyzos, Alvin T. Lo, PoAn Yang, Jane Dyball, Aroumougame Asaithamby, David J. Chen, Mina J. Bissell, Stefan Thalhammer, and Sylvain V. Costes
Proceedings of the National Academy of Sciences of the United States of America   109, 443-448 (2012)   
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MULTICELLULAR PHENOMENA

Photonic polycrystal in the greenish-white scales of the African longhorn beetle Prosopocera lactator (Cerambycidae)
Jean-François Colomer, Priscilla Simonis, Annick Bay, Peter Cloetens, Heikki Suhonen, Marie Rassart, Cédric Vandenbem, and Jean Pol Vigneron
Physical Review E   85, 011907 (2012) (9 pages)   
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Laser-patterned stem-cell bridges in a cardiac muscle model for on-chip electrical conductivity analyses
Zhen Ma, Qiuying Liu, Honghai Liu, Huaxiao Yang, Julie X. Yun, Carol Eisenberg, Thomas K. Borg, Meifeng Xu, and Bruce Z. Gao
Lab on a Chip   12, 566-573 (2012)   
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Growth, metabolic partitioning, and the size of microorganisms
Christopher P. Kempes, Stephanie Dutkiewicz, and Michael J. Follows
Proceedings of the National Academy of Sciences of the United States of America   109, 495-500 (2012)   
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Patterns of synchronization in the hydrodynamic coupling of active colloids
Giovanni M. Cicuta, Enrico Onofri, Marco Cosentino Lagomarsino, and Pietro Cicuta
Physical Review E   85, 016203 (2012) (11 pages)   
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BIOLOGICAL NETWORKS

Reconciling molecular regulatory mechanisms with noise patterns of bacterial metabolic promoters in induced and repressed states
Matthew L. Ferguson, Dominique Le Coq, Matthieu Jules, Stéphane Aymerich, Ovidiu Radulescu, Nathalie Declerck, and Catherine A. Royer
Proceedings of the National Academy of Sciences of the United States of America   109, 155-160 (2012)   
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Epidemic threshold and control in a dynamic network
Michael Taylor, Timothy J. Taylor, and Istvan Z. Kiss
Physical Review E   85, 016103 (2012) (6 pages)   
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Propagation of spiking regularity and double coherence resonance in feedforward networks
Cong Men, Jiang Wang, Ying-Mei Qin, Bin Deng, Kai-Ming Tsang, and Wai-Lok Chan
Chaos   22, 013104 (2012) (7 pages)   
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The reconstruction and analysis of tissue specific human metabolic networks
Tong Hao, Hong-Wu Ma, Xue-Ming Zhao, and Igor Goryanin
Molecular BioSystems   8, 663-670 (2012)   
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Competition for Catalytic Resources Alters Biological Network Dynamics
Yannick Rondelez
Physical Review Letters   108, 018102 (2012) (5 pages)   
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Reconstruction of Arabidopsis metabolic network models accounting for subcellular compartmentalization and tissue-specificity
Shira Mintz-Oron, Sagit Meir, Sergey Malitsky, Eytan Ruppin, Asaph Aharoni, and Tomer Shlomi
Proceedings of the National Academy of Sciences of the United States of America   109, 339-344 (2012)   
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Metagenomic systems biology of the human gut microbiome reveals topological shifts associated with obesity and inflammatory bowel disease
Sharon Greenblum, Peter J. Turnbaugh, and Elhanan Borenstein
Proceedings of the National Academy of Sciences of the United States of America   109, 594-599 (2012)   
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Stochastic simulation of chemically reacting systems using multi-core processors
Colin S. Gillespie
The Journal of Chemical Physics   136, 014101 (2012) (8 pages)   
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Using pathway modules as targets for assay development in xenobiotic screening
Richard S. Judson, Holly M. Mortensen, Imran Shah, Thomas B. Knudsen, and Fathi Elloumi
Molecular BioSystems   8, 531-542 (2012)   
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QUANTITATIVE GENOMICS

Gene order and chromosome dynamics coordinate spatiotemporal gene expression during the bacterial growth cycle
Patrick Sobetzko, Andrew Travers, and Georgi Muskhelishvili
Proceedings of the National Academy of Sciences of the United States of America   109, E42-E50 (2012)   
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Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes
Xun Xu, Xin Liu, Song Ge, Jeffrey D Jensen, Fengyi Hu, Xin Li, Yang Dong, Ryan N Gutenkunst, Lin Fang, Lei Huang, Jingxiang Li, Weiming He, Guojie Zhang, Xiaoming Zheng, Fumin Zhang, Yingrui Li, Chang Yu, Karsten Kristiansen, Xiuqing Zhang, Jian Wang, Mark Wright, Susan McCouch, Rasmus Nielsen, Jun Wang, and Wen Wang
Nature Biotechnology   30, 105-111 (2011)   
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Building stem-cell genomics in California and beyond
Natalie D DeWitt, Michael P Yaffe, and Alan Trounson
Nature Biotechnology   30, 20-25 (2012)   
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Optimized filtering reduces the error rate in detecting genomic variants by short-read sequencing
Joke Reumers, Peter De Rijk, Hui Zhao, Anthony Liekens, Dominiek Smeets, John Cleary, Peter Van Loo, Maarten Van Den Bossche, Kirsten Catthoor, Bernard Sabbe, Evelyn Despierre, Ignace Vergote, Brian Hilbush, Diether Lambrechts, and Jurgen Del-Favero
Nature Biotechnology   30, 61-68 (2011)   
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Draft genome sequence of pigeonpea (Cajanus cajan), an orphan legume crop of resource-poor farmers
Rajeev K Varshney, Wenbin Chen, Yupeng Li, Arvind K Bharti, Rachit K Saxena, Jessica A Schlueter, Mark T A Donoghue, Sarwar Azam, Guangyi Fan, Adam M Whaley, Andrew D Farmer, Jaime Sheridan, Aiko Iwata, Reetu Tuteja, R Varma Penmetsa, Wei Wu, Hari D Upadhyaya, Shiaw-Pyng Yang, Trushar Shah, K B Saxena, Todd Michael, W Richard McCombie, Bicheng Yang, Gengyun Zhang, Huanming Yang, Jun Wang, Charles Spillane, Douglas R Cook, Gregory D May, Xun Xu, and Scott A Jackson
Nature Biotechnology   30, 83-89 (2011)   
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A sensing array of radically coupled genetic biopixels
Arthur Prindle, Phillip Samayoa, Ivan Razinkov, Tal Danino, Lev S. Tsimring, and Jeff Hasty
Nature   481, 39-44 (2011)   
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Extensive genetic diversity and substructuring among zebrafish strains revealed through copy number variant analysis
Kim H. Brown, Kimberly P. Dobrinski, Arthur S. Lee, Omer Gokcumen, Ryan E. Mills, Xinghua Shi, Wilson W. S. Chong, Jin Yun Helen Chen, Paulo Yoo, Sthuthi David, Samuel M. Peterson, Towfique Raj, Kwong Wai Choy, Barbara E. Stranger, Robin E. Williamson, Leonard I. Zon, Jennifer L. Freeman, and Charles Lee
Proceedings of the National Academy of Sciences of the United States of America   109, 529-534 (2012)   
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Performance comparison of whole-genome sequencing platforms
Hugo Y K Lam, Michael J Clark, Rui Chen, Rong Chen, Georges Natsoulis, Maeve O'Huallachain, Frederick E Dewey, Lukas Habegger, Euan A Ashley, Mark B Gerstein, Atul J Butte, Hanlee P Ji, and Michael Snyder
Nature Biotechnology   30, 78-82 (2011)   
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Targeted RNA sequencing reveals the deep complexity of the human transcriptome
Tim R Mercer, Daniel J Gerhardt, Marcel E Dinger, Joanna Crawford, Cole Trapnell, Jeffrey A Jeddeloh, John S Mattick, and John L Rinn
Nature Biotechnology   30, 99-104 (2011)   
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CANCER PHYSICS

The genetic basis of early T-cell precursor acute lymphoblastic leukaemia
Jinghui Zhang, Li Ding, Linda Holmfeldt, Gang Wu, Sue L. Heatley, Debbie Payne-Turner, John Easton, Xiang Chen, Jianmin Wang, Michael Rusch, Charles Lu, Shann-Ching Chen, Lei Wei, J. Racquel Collins-Underwood, Jing Ma, Kathryn G. Roberts, Stanley B. Pounds, Anatoly Ulyanov, Jared Becksfort, Pankaj Gupta, Robert Huether, Richard W. Kriwacki, Matthew Parker, Daniel J. McGoldrick, David Zhao, Daniel Alford, Stephen Espy, Kiran Chand Bobba, Guangchun Song, Deqing Pei, Cheng Cheng, Stefan Roberts, Michael I. Barbato, Dario Campana, Elaine Coustan-Smith, Sheila A. Shurtleff, Susana C. Raimondi, Maria Kleppe, Jan Cools, Kristin A. Shimano, Michelle L. Hermiston, Sergei Doulatov, Kolja Eppert, Elisa Laurenti, Faiyaz Notta, John E. Dick, Giuseppe Basso, Stephen P. Hunger, Mignon L. Loh, Meenakshi Devidas, Brent Wood, Stuart Winter, Kimberley P. Dunsmore, Robert S. Fulton, Lucinda L. Fulton, Xin Hong, Christopher C. Harris, David J. Dooling, Kerri Ochoa, Kimberly J. Johnson, John C. Obenauer, William E. Evans, Ching-Hon Pui, Clayton W. Naeve, Timothy J. Ley, Elaine R. Mardis, Richard K. Wilson, James R. Downing, and Charles G. Mullighan
Nature   481, 157-163 (2012)   
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Single-cell proteomic chip for profiling intracellular signaling pathways in single tumor cells
Qihui Shi, Lidong Qin, Wei Wei, Feng Geng, Rong Fan, Young Shik Shin, Deliang Guo, Leroy Hood, Paul S. Mischel, and James R. Heath
Proceedings of the National Academy of Sciences of the United States of America   109, 419-424 (2012)   
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A microRNA regulon that mediates endothelial recruitment and metastasis by cancer cells
Kim J. Png, Nils Halberg, Mitsukuni Yoshida, and Sohail F. Tavazoie
Nature   481, 190-194 (2011)   
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Statistical mechanics model of angiogenic tumor growth
António Luis Ferreira, Dorota Lipowska, and Adam Lipowski
Physical Review E   85, 010901 (2012) (4 pages)   
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An impaired mitochondrial electron transport chain increases retention of the hypoxia imaging agent diacetylbis(4-methylthiosemicarbazonato)copper^II
Paul S. Donnelly, Jeffrey R. Liddell, SinChun Lim, Brett M. Paterson, Michael A. Cater, Maria S. Savva, Alexandra I. Mot, Janine L. James, Ian A. Trounce, Anthony R. White, and Peter J. Crouch
Proceedings of the National Academy of Sciences of the United States of America   109, 47-52 (2012)   
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Analyzing the metabolic stress response of recombinant Escherichia coli cultures expressing human interferon-beta in high cell density fed batch cultures using time course transcriptomic data
Anuradha B. Singh, Ashish K. Sharma, and Krishna J. Mukherjee
Molecular BioSystems   8, 615-628 (2012)   
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Label-free multiphoton imaging and photoablation of preinvasive cancer cells
Shuangmu Zhuo, Jianxin Chen, Guizhu Wu, Xiaoqin Zhu, Xingshan Jiang, and Shusen Xie
Applied Physics Letters   100, 023703 (2012) (4 pages)   
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Genome architectures revealed by tethered chromosome conformation capture and population-based modeling
Reza Kalhor, Harianto Tjong, Nimanthi Jayathilaka, Frank Alber, and Lin Chen
Nature Biotechnology   30, 90-98 (2011)   
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Targeting protein-trafficking pathways alters melanoma treatment sensitivity
Zhi-ming Huang, Milka Chinen, Philip J. Chang, Tong Xie, Lily Zhong, Stephanie Demetriou, Mira P. Patel, Rebecca Scherzer, Elena V. Sviderskaya, Dorothy C. Bennett, Glenn L. Millhauser, Dennis H. Oh, James E. Cleaver, and Maria L. Wei
Proceedings of the National Academy of Sciences of the United States of America   109, 553-558 (2012)   
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Wip1 promotes RUNX2-dependent apoptosis in p53-negative tumors and protects normal tissues during treatment with anticancer agents
Anastasia R. Goloudina, Kan Tanoue, Arlette Hammann, Eric Fourmaux, Xavier Le Guezennec, Dmitry V. Bulavin, Sharlyn J. Mazur, Ettore Appella, Carmen Garrido, and Oleg N. Demidov
Proceedings of the National Academy of Sciences of the United States of America   109, E68-E75 (2012)   
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Langerhans Cells Facilitate Epithelial DNA Damage and Squamous Cell Carcinoma
Badri G. Modi, Jason Neustadter, Elisa Binda, Julia Lewis, Renata B. Filler, Scott J. Roberts, Bernice Y. Kwong, Swapna Reddy, John D. Overton, Anjela Galan, Robert Tigelaar, Lining Cai, Peter Fu, Mark Shlomchik, Daniel H. Kaplan, Adrian Hayday, and Michael Girardi
Science   335, 104-108 (2012)   
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EVOLUTION PHYSICS

Fitness Trade-Offs and Environmentally Induced Mutation Buffering in Isogenic C. elegans
M. Olivia Casanueva, Alejandro Burga, and Ben Lehner
Science   335, 82-85 (2012)   
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Supercooperation in evolutionary games on correlated weighted networks
Pierre Buesser and Marco Tomassini
Physical Review E   85, 016107 (2012) (11 pages)   
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Plant Species Richness and Ecosystem Multifunctionality in Global Drylands
Fernando T. Maestre, Jos L. Quero, Nicholas J. Gotelli, Adrin Escudero, Victoria Ochoa, Manuel Delgado-Baquerizo, Miguel Garca-Gmez, Matthew A. Bowker, Santiago Soliveres, Cristina Escolar, Pablo Garca-Palacios, Miguel Berdugo, Enrique Valencia, Beatriz Gozalo, Antonio Gallardo, Lorgio Aguilera, Tulio Arredondo, Julio Blones, Bertrand Boeken, Donaldo Bran, Abel A. Conceio, Omar Cabrera, Mohamed Chaieb, Mchich Derak, David J. Eldridge, Carlos I. Espinosa, Adriana Florentino, Juan Gaitn, M. Gabriel Gatica, Wahida Ghiloufi, Susana Gmez-Gonzlez, Julio R. Gutirrez, Rosa M. Hernndez, Xuewen Huang, Elisabeth Huber-Sannwald, Mohammad Jankju, Maria Miriti, Jorge Monerris, Rebecca L. Mau, Ernesto Morici, Kamal Naseri, Abelardo Ospina, Vicente Polo, Anbal Prina, Eduardo Pucheta, David A. Ramrez-Collantes, Roberto Romo, Matthew Tighe, Cristian Torres-Daz, James Val, Jos P. Veiga, Deli Wang, and Eli Zaady
Science   335, 214-218 (2012)   
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Cultural diversification promotes rapid phenotypic evolution in Xavánte Indians
Tábita Hünemeier, Jorge Gómez-Valdés, Mónica Ballesteros-Romero, Soledad de Azevedo, Neus Martínez-Abadías, Mireia Esparza, Torstein Sjøvold, Sandro L. Bonatto, Francisco Mauro Salzano, Maria Cátira Bortolini, and Rolando González-José
Proceedings of the National Academy of Sciences of the United States of America   109, 73-77 (2012)   
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Optimality and thermodynamics determine the evolution of transcriptional regulatory networks
Marco Avila-Elchiver, Deepak Nagrath, and Martin L. Yarmush
Molecular BioSystems   8, 511-530 (2012)   
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STATISTICAL AND NONLINEAR PHYSICS

Brownian needle in dire straits: Stochastic motion of a rod in very confined narrow domains
D. Holcman and Z. Schuss
Physical Review E   85, 010103 (2012) (4 pages)   
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Exploring the dynamics of dimer crossing over a Kramers type potential
Mesfin Asfaw and Yohannes Shiferaw
The Journal of Chemical Physics   136, 025101 (2012) (9 pages)   
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Optimal Intermittence in Search Strategies under Speed-Selective Target Detection
Daniel Campos, Vicenç Méndez, and Frederic Bartumeus
Physical Review Letters   108, 028102 (2012) (4 pages)   
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Optimized reduction of uncertainty in bursty human dynamics
Hang-Hyun Jo, Eunyoung Moon, and Kimmo Kaski
Physical Review E   85, 016102 (2012) (4 pages)   
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Synaptic Bistability Due to Nucleation and Evaporation of Receptor Clusters
V. M. Burlakov, N. Emptage, A. Goriely, and P. C. Bressloff
Physical Review Letters   108, 028101 (2012) (5 pages)   
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INSTRUMENTATION DEVELOPMENT

Efficient optical trapping using small arrays of plasmonic nanoblock pairs
Yoshito Tanaka and Keiji Sasaki
Applied Physics Letters   100, 021102 (2012) (3 pages)   
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Incorporating microorganisms into polymer layers provides bioinspired functional living materials
Lukas C. Gerber, Fabian M. Koehler, Robert N. Grass, and Wendelin J. Stark
Proceedings of the National Academy of Sciences of the United States of America   109, 90-94 (2012)   
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Magnetoacoustic imaging of magnetic iron oxide nanoparticles embedded in biological tissues with microsecond magnetic stimulation
Gang Hu and Bin He
Applied Physics Letters   100, 013704 (2012) (3 pages)   
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Controlled hydrogel photopolymerization inside live systems by X-ray irradiation
S.-Ja Tseng, Chia-Chi Chien, Zi-Xian Liao, Hsiang-Hisn Chen, Yi-Da Kang, Cheng-Liang Wang, Y. Hwu, and G. Margaritondo
Soft Matter   8, 1420-1427 (2012)   
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Engineered (hep/pARG)₂ polyelectrolyte capsules for sustained release of bioactive TGF-1
Liesbeth J. De Cock, Olivier De Wever, Sandra Van Vlierberghe, Els Vanderleyden, Peter Dubruel, Filip De Vos, Chris Vervaet, Jean Paul Remon, and Bruno G. De Geest
Soft Matter   8, 1146-1154 (2012)   
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The effect of protein shells on the antioxidant activity of protein-encapsulated platinum nanoparticles
Boi Hoa San, Sang Hyun Moh, and Kyeong Kyu Kim
Journal of Materials Chemistry   22, 1774-1780 (2012)   
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Exonuclease-assisted cascaded recycling amplification for label-free detection of DNA
Sai Bi, Li Li, and Yangyang Cui
Chemical Communications   48, 1018-1020 (2012)   
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Exploring low-positively charged thermosensitive copolymers as gene delivery vectors
Zheyu Shen, Bingyang Shi, Hu Zhang, Jingxiu Bi, and Sheng Dai
Soft Matter   8, 1385-1394 (2012)   
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Surfactant ion-selective electrodes: A promising approach to the study of the aggregation of ionic surfactants in solution
Guobao Li, Hongmin Ma, and Jingcheng Hao
Soft Matter   8, 896-909 (2012)   
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Label-free detection of DNA using high- Lu₂Ti₂O₇ electrolyte-insulator-semiconductors
Tung-Ming Pan, Kung-Yuan Chang, Chao-Wen Lin, Shiao-Wen Tsai, and Min-Hsien Wu
Journal of Materials Chemistry   22, 1358-1363 (2012)   
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Biomolecule detection based on Si single-electron transistors for highly sensitive integrated sensors on a single chip
Takashi Kudo and Anri Nakajima
Applied Physics Letters   100, 023704 (2012) (3 pages)   
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A nanoporous optofluidic microsystem for highly sensitive and repeatable surface enhanced Raman spectroscopy detection
Soroush H. Yazdi and Ian M. White
Biomicrofluidics   6, 014105 (2012) (9 pages)   
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Microfluidic carbon-blackened polydimethylsiloxane device with reduced ultra violet background fluorescence for simultaneous two-color ultra violet/visible-laser induced fluorescence detection in single cell analysis
Lukas Galla, Dominik Greif, Jan Regtmeier, and Dario Anselmetti
Biomicrofluidics   6, 014104 (2012) (10 pages)   
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Double-functionalized nanopore-embedded gold electrodes for rapid DNA sequencing
Biswarup Pathak, Henrik Löfås, Jariyanee Prasongkit, Anton Grigoriev, Rajeev Ahuja, and Ralph H. Scheicher
Applied Physics Letters   100, 023701 (2012) (3 pages)   
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Quantification of glistenings in intraocular lenses using a ballistic-photon removing integrating-sphere method
Do-Hyun Kim, Robert H. James, Robert J. Landry, Don Calogero, James Anderson, and Ilko K. Ilev
Applied Optics   50, 6461-6467 (2011)   
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A physical approach to the automated classification of clinical percussion sounds
M. A. Pantea, R. Gr. Maev, E. V. Malyarenko, and A. E. Baylor
The Journal of the Acoustical Society of America   131, 608-619 (2012)   
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Optical-resolution photoacoustic microscopy based on two-dimensional scanning galvanometer
Yi Yuan, Sihua Yang, and Da Xing
Applied Physics Letters   100, 023702 (2012) (3 pages)   
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Electrotaxis of lung cancer cells in ordered three-dimensional scaffolds
Yung-Shin Sun, Shih-Wei Peng, Keng-Hui Lin, and Ji-Yen Cheng
Biomicrofluidics   6, 014102 (2012) (14 pages)   
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Resistive pulse sensing of magnetic beads and supraparticle structures using tunable pores
Geoff R. Willmott, Mark Platt, and Gil U. Lee
Biomicrofluidics   6, 014103 (2012) (15 pages)   
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Human elbow joint angle estimation using electromyogram signal processing
H.-J. Yu, A.Y. Lee, and Y. Choi
IET Signal Processing   5, 767-775 (2011)   
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Some basic relations for ultrasonic fields from circular transducers with a central hole
K. Beissner
The Journal of the Acoustical Society of America   131, 620-627 (2012)   
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Do trumpet players tune resonances of the vocal tract?
Jer-Ming Chen, John Smith, and Joe Wolfe
The Journal of the Acoustical Society of America   131, 722-727 (2012)   
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Acoustical properties of wood in string instruments soundboards and tuned idiophones: Biological and cultural diversity
Iris Brémaud
The Journal of the Acoustical Society of America   131, 807-818 (2012)   
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Optically Trapped Gold Nanoparticle Enables Listening at the Microscale
Alexander Ohlinger, Andras Deak, Andrey A. Lutich, and Jochen Feldmann
Physical Review Letters   108, 018101 (2012) (5 pages)   
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Partially coherent lensfree tomographic microscopy [Invited]
Serhan O. Isikman, Waheb Bishara, and Aydogan Ozcan
Applied Optics   50, H253-H264 (2011)   
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Highly-integrated lab-on-chip system for point-of-care multiparameter analysis
Soeren Schumacher, Jörg Nestler, Thomas Otto, Michael Wegener, Eva Ehrentreich-Förster, Dirk Michel, Kai Wunderlich, Silke Palzer, Kai Sohn, Achim Weber, Matthias Burgard, Andrzej Grzesiak, Andreas Teichert, Albrecht Brandenburg, Birgit Koger, Jörg Albers, Eric Nebling, and Frank F. Bier
Lab on a Chip   12, 464-473 (2012)   
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Magnetic nanomanipulations inside living cells compared with passive tracking of nanoprobes to get consensus for intracellular mechanics
Damien Robert, Kelly Aubertin, Jean-Claude Bacri, and Claire Wilhelm
Physical Review E   85, 011905 (2012) (9 pages)   
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Fast on-wafer electrical, mechanical, and electromechanical characterization of piezoresistive cantilever force sensors
G. Tosolini, L. G. Villanueva, F. Perez-Murano, and J. Bausells
Review of Scientific Instruments   83, 015002 (2012) (7 pages)   
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A new borehole wire extensometer with high accuracy and stability for observation of local geodynamic processes
Gy. Mentes
Review of Scientific Instruments   83, 015109 (2012) (6 pages)   
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Note: An adhesion measurement setup for bioinspired fibrillar surfaces using flat probes
E. Kroner, J. Blau, and E. Arzt
Review of Scientific Instruments   83, 016101 (2012) (3 pages)   
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Synthesis and functionalization of poly(ethylene glycol) microparticles as soft colloidal probes for adhesion energy measurements
Daniel Pussak, Muriel Behra, Stephan Schmidt, and Laura Hartmann
Soft Matter   8, 1664-1672 (2012)   
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Förster resonance energy transfer imaging in vivo with approximated radiative transfer equation
Vadim Y. Soloviev, James McGinty, Daniel W. Stuckey, Romain Laine, Marzena Wylezinska-Arridge, Dominic J. Wells, Alessandro Sardini, Joseph V. Hajnal, Paul M. W. French, and Simon R. Arridge
Applied Optics   50, 6583-6590 (2011)   
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Compatible immuno-NASBA LOC device for quantitative detection of waterborne pathogens: design and validation
Xinyan Zhao, Tao Dong, Zhaochu Yang, Nuno Pires, and Nils Høivik
Lab on a Chip   12, 602-612 (2012)   
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Spintronic platforms for biomedical applications
P. P. Freitas, F. A. Cardoso, V. C. Martins, S. A. M. Martins, J. Loureiro, J. Amaral, R. C. Chaves, S. Cardoso, L. P. Fonseca, A. M. Sebastião, M. Pannetier-Lecoeur, and C. Fermon
Lab on a Chip   12, 546-557 (2012)   
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Core–shell microgels as “smart” carriers for enzymes
Nicole Welsch, Alisa L. Becker, Joachim Dzubiella, and Matthias Ballauff
Soft Matter   8, 1428-1436 (2012)   
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A bienzymatic amperometric immunosensor exploiting supramolecular construction for ultrasensitive protein detection
Mayreli Ortiz, Ewelina Maria Wajs, Alex Fragoso, and Ciara K. O'Sullivan
Chemical Communications   48, 1045-1047 (2012)   
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Chemiluminescence biosensors for DNA detection using graphene oxide and a horseradish peroxidase-mimicking DNAzyme
Ming Luo, Xi Chen, Guohua Zhou, Xia Xiang, Lu Chen, Xinghu Ji, and Zhike He
Chemical Communications   48, 1126-1128 (2012)   
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From highly ramified, large scale dendrite patterns of drying “alginate/Au NPs” solutions to capillary fabrication of lab-scale composite hydrogel microfibers
Samer Darwich, Karine Mougin, and Hamidou Haidara
Soft Matter   8, 1155-1162 (2012)   
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Measuring rapid kinetics by a potentiometric method in droplet-based microfluidic devices
Zuoyan Han, Yuen Yan Chang, Shannon Wing Ngor Au, and Bo Zheng
Chemical Communications   48, 1601-1603 (2012)   
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Silica encapsulated SERS nanoprobe conjugated to the bacteriophage tailspike protein for targeted detection of Salmonella
Li-Lin Tay, Ping-Ji Huang, Jamshid Tanha, Shannon Ryan, Xiaohua Wu, John Hulse, and Lai-Kwan Chau
Chemical Communications   48, 1024-1026 (2012)   
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Fabrication of photosensitive multilayered films via layer-by-layer assembly with well controlled porous structure
Cao Li, Kang Wang, Yu-Hui Gong, Ze-Yong Li, Jing Zhang, Guo-Feng Luo, Ren-Xi Zhuo, and Xian-Zheng Zhang
Journal of Materials Chemistry   22, 2045-2050 (2012)   
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High-resolution dose–response screening using droplet-based microfluidics
Oliver J. Miller, Abdeslam El Harrak, Thomas Mangeat, Jean-Christophe Baret, Lucas Frenz, Bachir El Debs, Estelle Mayot, Michael L. Samuels, Eamonn K. Rooney, Pierre Dieu, Martin Galvan, Darren R. Link, and Andrew D. Griffiths
Proceedings of the National Academy of Sciences of the United States of America   109, 378-383 (2012)   
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Silver nanosheet-coated inverse opal film as a highly active and uniform SERS substrate
Lifang He, Jianan Huang, Tingting Xu, Limiao Chen, Kui Zhang, Suting Han, Yao He, and Shuit Tong Lee
Journal of Materials Chemistry   22, 1370-1374 (2012)   
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Roughness optimization of electron-beam exposed hydrogen silsesquioxane for immobilization of DNA origami
Faisal A. Shah, Kyoung Nan Kim, Marya Lieberman, and Gary H. Bernstein
Journal of Vacuum Science & Technology B   30, 011806 (2012) (6 pages)   
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Label-free real-time imaging in microchip free-flow electrophoresis applying high speed deep UV fluorescence scanning
Stefan Köhler, Stefan Nagl, Stefanie Fritzsche, and Detlev Belder
Lab on a Chip   12, 458-463 (2012)   
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Microfluidic wound-healing assay to assess the regenerative effect of HGF on wounded alveolar epithelium
Marcel Felder, Pauline Sallin, Laurent Barbe, Beat Haenni, Amiq Gazdhar, Thomas Geiser, and Olivier Guenat
Lab on a Chip   12, 640-646 (2012)   
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MISCELLANEOUS

More effective antimicrobial mastoparan derivatives, generated by 3D-QSAR-Almond and computational mutagenesis
Speranta Avram, Catalin Buiu, Florin Borcan, and Adina-Luminita Milac
Molecular BioSystems   8, 587-594 (2012)   
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Lamination and mixing in laminar flows driven by Lorentz body forces
L. Rossi, D. Doorly, and D. Kustrin
Europhysics Letters   97, 14006- (2012)   
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Nanomechanical actuation driven by light-induced DNA fuel
Kilho Eom, Huihun Jung, Gyudo Lee, Jinsung Park, Kihwan Nam, Sang Woo Lee, Dae Sung Yoon, Jaemoon Yang, and Taeyun Kwon
Chemical Communications   48, 955-957 (2012)   
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Analytical Results for Size-Topology Correlations in 2D Disk and Cellular Packings
Matthew P. Miklius and Sascha Hilgenfeldt
Physical Review Letters   108, 015502 (2012) (5 pages)   
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