Hydrodynamics and microphase ordering in block copolymers: are hydrodynamics required for ordered phases with periodicity in more than one dimension?

We use Brownian dynamics (BD), molecular dynamics, and dissipative particle dynamics to study the phase behavior of diblock copolymer melts and to determine if hydrodynamics is required in the formation of phases with greater than one-dimensional periodicity. We present a phase diagram for diblock copolymers predicted by BD and provide a relationship between the inverse dimensionless temperature epsilon/k(B)T and the Flory-Huggins chi parameter, allowing for a quantitative comparison between methods and to mean field predictions. Our results concerning phase behavior are in good qualitative agreement with the theoretical predictions of Matsen and Bates [M. W. Matsen and F. S. Bates, Macromolecules 29, 1091 (1996)]; however, fluctuation effects arising from finite polymer lengths substantially alter the phase boundaries. Our results pertaining to the hydrodynamics are in contrast to earlier work by Groot et al. [R. D. Groot, T. J. Madden, and D. J. Tildesley, J. Chem. Phys. 110, 9739 (1999); D. Frenkel and B. Smit, Understanding Molecular Simulation, 2nd ed. (Academic, New York, 2001)]. In particular, we obtain the hexagonal ordered cylinder phase with BD, a method that does not include hydrodynamics.     

Mass spectrometry and non-covalent protein-ligand complexes: confirmation of binding sites and changes in tertiary structure

An experimental approach is described for determining protein-small molecule non-covalent ligand binding sites and protein conformational changes induced by ligand binding. The methodology utilizes time resolved limited proteolysis and the high throughput analysis capability of MALDI TOF MS to determine the binding site in a tetanus toxin C-fragment (51 kDa)-doxorubicin (543 Da) non-covalent complex. Comparing relative ion abundances of peptides released from the time resolved limited proteolysis of tetanus toxin C-fragment (TetC) and the TetC-doxorubicin complex every 10 min from 10 to 120 min of digestion revealed that the binding of doxorubicin induced a significant change in surface topology of TetC. Four of the twenty-nine peptides observed by MALDI MS, including amino acids 351-360, 299-304, 305-311 and 312-316, had a lower abundance in the TetC-doxorubicin complex relative to TetC from 10 to 100 min of digestion. A decrease in ion abundance suggests doxorubicin obstructs the access of the protease to one or both termini of these peptides, identifying doxorubicin binding site(s). Conversely, five peptide ions, including amino acids 335-350, 364-375, 364-376, 281-298, and 316-328, all had a greater abundance in the digest of the complex, indicating an increase in accessibility to these sites. These five peptides flank regions of decreased ion abundance, suggesting that doxorubicin not only binds to the surface, but also induces a conformational change in TetC.     

Demethylation of 2,4-dimethoxyquinolines: the synthesis of atanine

The synthesis of the quinoline alkaloid atanine 6, by selective demethylation of the 2,4-dimethoxyquinoline 11 is presented. An alternative demethylation utilising a thiolate anion leads to the regioisomeric 4-hydroxyquinoline 13.     

Orthonormal wavelets and shift invariant generalized multiresolution analyses

All wavelets can be associated to a multiresolution-like structure, i.e. an increasing sequence of subspaces of . We consider the interaction of a wavelet and the shift operator in terms of which of the subspaces in this multiresolution-like structure are invariant under the shift operator. This action defines the notion of the shift invariance property of order . In this paper we show that wavelets of all levels of shift invariance exist, first for the classic case of dilation by 2, and then for arbitrary integral dilation factors.

     

The development of an integrated platform to identify breast cancer glycoproteome changes in human serum

Protein glycosylation represents one of the major post-translational modifications and can have significant effects on protein function. Moreover, changes in the carbohydrate structure are increasingly being recognized as an important modification associated with cancer etiology. In this report, we describe the development of a proteomics approach to identify breast cancer related changes in either concentration and/or the carbohydrate structures of glycoprotein(s) present in blood samples. Diseased and healthy serum samples were processed by an optimized sample preparation protocol using multiple lectin affinity chromatography (M-LAC) that partitions serum proteins based on glycan characteristics. Subsequently, three separate procedures, 1D SDS-PAGE, isoelectric focusing and an antibody microarray, were applied to identify potential candidate markers for future study. The combination of these three platforms is illustrated in this report with the analysis of control and cancer glycoproteomic fractions. Firstly, a molecular weight based separation of glycoproteins by 1D SDS-PAGE was performed, followed by protein, glycoprotein staining, lectin blotting and LC–MS analysis. To refine or confirm the list of interesting glycoproteins, isoelectric focusing (targeting sialic acid changes) and an antibody microarray (used to detect neutral glycan shifts) were selected as the orthogonal methods. As a result, several glycoproteins including alpha-1B-glycoprotein, complement C3, alpha-1-antitrypsin and transferrin were identified as potential candidates for further study.     

A homotopy theory for stacks

We give a homotopy theoretic characterization of stacks on a site C as the homotopy sheaves of groupoids on C. We use this characterization to construct a model category in which stacks are the fibrant objects. We compare different definitions of stacks and show that they lead to Quillen equivalent model categories. In addition, we show that these model structures are Quillen equivalent to the S ²-nullification of Jardine’s model structure on sheaves of simplicial sets on C.     

The Development of Mathematical Discussions: An Investigation in a Fifth-Grade Classroom

Promoting discussion and argumentation of mathematical ideas among students are aspects of the vision for communication in recent school mathematics reform efforts. Having rich mathematical discussions, however, can present a variety of classroom challenges. Many factors influence classroom discussions and need to be addressed in ways that will assist teachers in creating more inquiry-based mathematics classrooms. The study presented here examined the development of mathematical discussions in a fifth-grade classroom over the course of a school year. Various aspects of the participants' interactions, teacher's pedagogy, and the classroom microculture were investigated. One major result is the evolution of student participation from nonactive listening to active listening and use of others' ideas to develop new conjectures. These changes were paralleled by changes in the teacher's role in the classroom and the nature of her questions, in particular.