A multi-parametric flow cytometric assay to analyze DNA–protein interactions by Arbab, Mandana, Mahony, Shaun, Cho, Hyunjii, Chick, Joel M., Rolfe, Philip Alexander, Van Hoff, John Peter, Morris, Viveca W. S., Gygi, Steven P., Maas, Richard L., Gifford, David K., Sherwood, Richard I.

“…In MagPIE, synthesized DNA is bound to magnetic beads, which are then incubated with nuclear lysate, permitting sequence-specific binding by TFs, histones and methylation by native lysate factors that can be optionally inhibited with small molecules. Lysate protein–DNA binding is monitored by flow cytometric immunofluorescence, which allows for accurate comparative measurement of TF-DNA affinity. …”
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Specific Trans-Synaptic Interaction with Inhibitory Interneuronal Neurexin Underlies Differential Ability of Neuroligins to Induce Functional Inhibitory Synapses by Futai, Kensuke, Doty, Christopher D., Baek, Brian, Ryu, Jubin, Sheng, Morgan Hwa-Tze

“…Neuroligin (NL) and Neurexin (Nrxn) proteins are trans-synaptic adhesion molecules that are important in validation and maturation of specific synapses. …”
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Application of FRET probes in the analysis of neuronal plasticity by Ueda, Yoshibumi, Hayashi, Yasunori, Kwok, Show Ming

“…Then the evolution of color variants of GFP opened the door to the application of Förster resonance energy transfer (FRET), which is now widely recognized as a powerful tool to study complicated signal transduction events and interactions between molecules. Employment of fluorescent lifetime imaging microscopy (FLIM) allows the precise detection of FRET in small subcellular structures such as dendritic spines. …”
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Transcriptional profiling of stroma from inflamed and resting lymph nodes defines immunological hallmarks by Regev, Aviv, Immunological Genome Project Consortium

“…LNSCs from inflamed lymph nodes upregulated expression of genes encoding chemokines and molecules involved in the acute-phase response and the antigen-processing and antigen-presentation machinery. …”
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Ferroelectric surface chemistry: First-principles study of the PbTiO[subscript 3] surface by Garrity, Kevin, Kakekhani, Arvin, Ismail-Beigi, Sohrab, Kolpak, Alexie M.

“…In addition, we consider the addition of several different catalytic monolayers to the PbTiO[subscript 3] surface, and we find that additional surface layers can be used to modify the binding of molecules to the surface while still responding to the polarization of the substrate.…”
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Age- and diabetes-related nonenzymatic crosslinks in collagen fibrils: Candidate amino acids involved in Advanced Glycation End-products by Gautieri, Alfonso, Redaelli, Alberto, Vesentini, Simone, Buehler, Markus J

“…We find that several residues involved in AGE crosslinks are within key collagen domains, such as binding sites for integrins, proteoglycans and collagenase, hence providing molecular-level explanations of previous experimental results showing decreased collagen affinity for key molecules. Altogether, these findings reveal the molecular mechanism by which glycation affects the biological properties of collagen tissues, which in turn contribute to age- and diabetes-related pathological states.…”
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Simulated Surface-Induced Thrombin Generation in a Flow Field by Jordan, S.W., Chaikof, Elliot L.

“…The size of this zone is dependent on the concentrations of all reactive species, the dimensions of TF expression, the densities of surface molecules, and the characteristics of the flow field. …”
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Monofunctional and Higher-Valent Platinum Anticancer Agents by Wilson, Justin J., Lippard, Stephen J., Johnstone, Timothy

“…Here we describe recent developments from our laboratory involving monofunctional platinum(II) complexes together with a historical account of the manner by which we came to investigate these compounds and their relationship to previously studied molecules. We also discuss work carried out using platinum(IV) prodrugs and the development of nanoconstructs designed to deliver them in vivo.…”
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Systematic Identification of Culture Conditions for Induction and Maintenance of Naive Human Pluripotency by Theunissen, Thorold W., Powell, Benjamin E., Wang, Haoyi, Mitalipova, Maya, Faddah, Dina A., Reddy, Jessica, Fan, Zi Peng, Maetzel, Dorothea, Ganz, Kibibi, Shi, Linyu, Lungjangwa, Tenzin, Imsoonthornruksa, Sumeth, Stelzer, Yonatan, Rangarajan, Sudharshan, D’Alessio, Ana C., Zhang, Jianming, Gao, Qing, Dawlaty, Meelad M., Young, Richard A., Gray, Nathanael S., Jaenisch, Rudolf, Young, Richard A.

“…Here we took a systematic approach to identify small molecules that support self-renewal of naive human ESCs based on maintenance of endogenous OCT4 distal enhancer activity, a molecular signature of ground state pluripotency. …”
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Transport and equilibrium uptake of a peptide inhibitor of PACE4 into articular cartilage is dominated by electrostatic interactions by Byun, Sangwon, Tortorella, Micky D., Malfait, Anne-Marie, Fok, Kam, Grodzinsky, Alan J., Frank, Eliot

“…The availability of therapeutic molecules to targets within cartilage depends on transport through the avascular matrix. …”
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Colorimetric detection of mercury ions based on plasmonic nanoparticles by Du, Jianjun, Jiang, Lin, Shao, Qi, Liu, Xiaogang, Marks, Robert S., Ma, Jan, Chen, Xiaodong

“…In this review, recent progress in the development of gold nanoparticle-based colorimetric assays for Hg2+ is summarized, with a particular emphasis on examples of functionalized gold nanoparticle systems with oligonucleotides, oligopeptides, and functional molecules. Besides highlighting the current design principle for plasmonic nanoparticle-based colorimetric probes, the discussions on challenges and the prospect of next-generation probes for in-the-field applications are also presented.…”
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Magnetic Field Triggered Multicycle Damage Sensing and Self Healing by Ahmed, Anansa S., Ramanujan, Raju Vijayaraghavan

“…We incorporated reversible sensing using mechanochromic molecules in a shape memory thermoplastic matrix. Exposure to an alternating magnetic field (AMF) triggers shape recovery and facilitates damage repair. …”
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Novel hole transporting materials based on triptycene core for high efficiency mesoscopic perovskite solar cells by Mhaisalkar, Subodh Gautam, Sabba, Dharani, Li, Hairong, Yin, Jun, Boix, Pablo P., Krishna, Anurag, Soci, Cesare, Grimsdale, Andrew C.

“…Three novel hole-conducting molecules (T101, T102 and T103) based on a triptycene core have been synthesized using short routes with high yields. …”
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Synthesis and assessment of new cyclopenta-2,4-dienone derivatives for energy storage applications by Lim, Zheng Bang, Tan, Kim Seng, Lunchev, Andrey V., Li, Hairong, Cho, Sung Ju, Grimsdale, Andrew Clive, Yazami, Rachid

“…Parallel studies also indicated that our big π-systems were thermodynamically more favorably to solvate the electrons than small and simple aromatic or polar aprotic solvent molecules such as benzene, toluene, xylene, tetrahydrofuran, solvate acetone, etc.…”
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Alignment of rod-shaped single-photon emitters driven by line defects in liquid crystals by Pelliser, Laurent, Manceau, Mathieu, Lethiec, Clotilde, Coursault, Delphine, Vezzoli, Stefano, Leménager, Godefroy, Coolen, Laurent, DeVittorio, Massimo, Pisanello, Ferruccio, Carbone, Luigi, Maitre, Agnes, Bramati, Alberto, Lacaze, Emmanuelle

“…It is demonstrated that the electric dipoles associated with the dot-in-rods, tilted with respect to the rods, remain oriented in the plane including the smectic linear defects and perpendicular to the substrate, most likely due to dipole/dipole interactions between the dipoles of the liquid crystal molecules and those of the dot-in-rods. Using smectic dislocations, nanorods can consequently be oriented along a unique direction for a given substrate, independently of the ligands' nature, without any induced aggregation, leading as well to a fixed azimuthal orientation for the dot-in-rods' dipoles. …”
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AppA : a web server for analysis, comparison, and visualization of contact residues and interfacial waters of antibody–antigen structures and models by Nguyen, Minh N., Verma, Chandra Shekhar, Zhong, Pingyu

“…To the best of our knowledge, this is the first web server for antibody–antigen structures equipped with the capability for dissecting the contributions of interfacial water molecules, hydrogen bonds, hydrophobic interactions, van der Waals interactions and ionic interactions at the antibody–antigen interface, and for comparing the structures and conformations of contact residues. …”
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Polar curved polycyclic aromatic hydrocarbons in soot formation by Menon, Angiras, Martin, Jacob W., Bowal, Kimberly, Slavchov, Radomir I., Akroyd, Jethro, Mosbach, Sebastian, Kraft, Markus

“…Homogeneous nucleation of cPAH at flame temperatures then appears unlikely, however, significant interactions are expected between chemi-ions and polar cPAH molecules suggesting heterogeneous nucleation should be explored.…”
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Lipopolysaccharides detection on a grating-coupled surface plasmon resonance smartphone biosensor by Zhang, Jinling, Khan, Imran, Zhang, Qingwen, Liu, Xiaohu, Dostalek, Jakub, Liedberg, Bo, Wang, Yi

“…Upon incubation of various small and macro-molecules with the synthetic peptide modified sensor chips, we concluded the good selectivity of the sensor for LPS detection. …”
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Targeting pro-tumorigenic signaling pathways in hematolymphoid malignancies by Kizhakeyil Atish

“…We optimized the “GapmeR” technology and developed a novel gene silencer “epAON” that were effective in knocking down STAT3 in cells of hematolymphoid malignancies and successful in inducing apoptosis in these cells. epAON molecules can be exploited for therapeutic applications. …”
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Nucleic acid structure and conjugation for drug design by Tan, Derrick Jing Yang

“…However, the conflicting synthetic methods of the two types of oligomers often limit the generation of such chimeric molecules. A novel method has been developed for regioselective generation of peptide/protein-oligonucleotide conjugates.…”
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