Echinocyte Shapes: Bending, Stretching and Shear Determine Spicule Shape and Spacing

We study the shapes of human red blood cells using continuum mechanics. In particular, we model the crenated, echinocytic shapes and show how they may arise from a competition between the bending energy of the plasma membrane and the stretching/shear elastic energies of the membrane skeleton. In contrast to earlier work, we calculate spicule shapes exactly by solving the equations of continuum mechanics subject to appropriate boundary conditions. A simple scaling analysis of this competition reveals an elastic length which sets the length scale for the spicules and is, thus, related to the number of spicules experimentally observed on the fully developed echinocyte.Comment: Revtex, 27 pages, 8 figures; some minor change

Photoluminescence modification by high-order photonic band with abnormal dispersion in ZnO inverse opal

We measured the angle- and polarization-resolved reflection and photoluminescence spectra of ZnO inverse opals. Significant enhancement of spontaneous emission is observed. The enhanced emission not only has good directionality but also can be linearly polarized. A detailed theoretical analysis and numerical simulation reveal that such enhancement is caused by the abnormal dispersion of a high-order photonic band. The frozen mode at a stationary inflection point of a dispersion curve can strongly modify the intensity, directionality and polarization of spontaneous emission.Comment: 22 pages, 11 figures, figures modified, references added, more explanation adde

Sparse tree search optimality guarantees in POMDPs with continuous observation spaces

Partially observable Markov decision processes (POMDPs) with continuous state and observation spaces have powerful flexibility for representing real-world decision and control problems but are notoriously difficult to solve. Recent online sampling-based algorithms that use observation likelihood weighting have shown unprecedented effectiveness in domains with continuous observation spaces. However there has been no formal theoretical justification for this technique. This work offers such a justification, proving that a simplified algorithm, partially observable weighted sparse sampling (POWSS), will estimate Q-values accurately with high probability and can be made to perform arbitrarily near the optimal solution by increasing computational power

Development of X-ray lithography and nanofabrication techniques for III-V optical devices

Thesis (Sc. D.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, 2002.Includes bibliographical references (p. [117]-122).This electronic version was submitted by the student author. The certified thesis is available in the Institute Archives and Special Collections.This dissertation covers the development of fabrication techniques for Bragg-grating-based integrated optical devices in III-V materials. Work on this rich family of devices has largely been limited to numerical analysis because of the difficulties of their fabrication. The challenges of fabrication are addressed by dividing the problem along two lines: (1) development of an advanced x-ray mask system that addresses future nanolithography needs, and (2) development of fabrication techniques that addresses problems specific to Bragg-grating-based filters. A new x-ray mask configuration is described that improves many aspects of the x-ray mask. A novel means of measuring nondestructively x-ray mask distortion on a global scale was developed, called holographic phase-shifting interferometry (HPSI). This system, in conjunction with appropriate thermal input can potentially provide active correction of x-ray mask distortion. Current microphotonic fabrication issues are presented along with a detailed description of the dual-layer hardmask process (DLHP). The development of the DLHP was specifically geared towards the special requirements of Bragg-grating based microphotonics. Taken as a whole the author hopes that this dissertation serves to facilitate the building of advanced future integrated-optical devices.by Michael Lim.Sc.D

Simple biophysics underpins collective conformations of the intrinsically disordered proteins of the Nuclear Pore Complex

Nuclear Pore Complexes (NPCs) are key cellular transporter that control nucleocytoplasmic transport in eukaryotic cells, but its transport mechanism is still not understood. The centerpiece of NPC transport is the assembly of intrinsically disordered polypeptides, known as FG nucleoporins, lining its passageway. Their conformations and collective dynamics during transport are difficult to assess in vivo. In vitro investigations provide partially conflicting results, lending support to different models of transport, which invoke various conformational transitions of the FG nucleoporins induced by the cargo-carrying transport proteins. We show that the spatial organization of FG nucleoporin assemblies with the transport proteins can be understood within a first principles biophysical model with a minimal number of key physical variables, such as the average protein interaction strengths and spatial densities. These results address some of the outstanding controversies and suggest how molecularly divergent NPCs in different species can perform essentially the same function

Phylogenetic Relationship of the Complete Rauscher Murine Leukemia Virus Genome with Other Murine Leukemia Virus Genomes

AbstractWe report the complete nucleotide sequence of the genome of Rauscher murine leukemia virus (R-MuLV), the replication-competent helper virus present in the Rauscher virus complex, and its phylogenetic relationship with other murine leukemia virus genomes. An overall sequence identity of 97.6% was found between R-MuLV and the Friend helper virus (F-MuLV), and the two viruses were closely related on the phylogenetic trees constructed from eithergag, pol,orenvsequences. Moloney murine leukemia virus (Mo-MuLV) was the next closest relative to R-MuLV and F-MuLV on all trees, followed by Akv and radiation leukemia virus (RadLV). The most distantly related helper virus was Hortulanus murine leukemia virus (Ho-MuLV). Interestingly, Cas-Br-E branched with Mo-MuLV on thegagandpoltrees, whereas on theenvtree, it revealed the highest degree of relatedness to Ho-MuLV, possibly due to an ancient recombination with an Ho-MuLV ancestor. In summary, a phylogenetic analysis involving various MuLVs has been performed, in which the postulated close relationship between R-MuLV and F-MuLV has been confirmed, consistent with the pathobiology of the two viruses

Optimality Guarantees for Particle Belief Approximation of POMDPs

Partially observable Markov decision processes (POMDPs) provide a flexible representation for real-world decision and control problems. However, POMDPs are notoriously difficult to solve, especially when the state and observation spaces are continuous or hybrid, which is often the case for physical systems. While recent online sampling-based POMDP algorithms that plan with observation likelihood weighting have shown practical effectiveness, a general theory characterizing the approximation error of the particle filtering techniques that these algorithms use has not previously been proposed. Our main contribution is bounding the error between any POMDP and its corresponding finite sample particle belief MDP (PB-MDP) approximation. This fundamental bridge between PB-MDPs and POMDPs allows us to adapt any sampling-based MDP algorithm to a POMDP by solving the corresponding particle belief MDP, thereby extending the convergence guarantees of the MDP algorithm to the POMDP. Practically, this is implemented by using the particle filter belief transition model as the generative model for the MDP solver. While this requires access to the observation density model from the POMDP, it only increases the transition sampling complexity of the MDP solver by a factor of $\mathcal{O}(C)$, where $C$ is the number of particles. Thus, when combined with sparse sampling MDP algorithms, this approach can yield algorithms for POMDPs that have no direct theoretical dependence on the size of the state and observation spaces. In addition to our theoretical contribution, we perform five numerical experiments on benchmark POMDPs to demonstrate that a simple MDP algorithm adapted using PB-MDP approximation, Sparse-PFT, achieves performance competitive with other leading continuous observation POMDP solvers

Partitioning the variance between space and time

Here we decompose the space-time variance of near-surface air temperature using monthly observations for the global land surface (excluding Antarctica) from 1901-2000. To do that, we developed a new method for partitioning the total space-time variance, here called the grand variance, into separate spatial and temporal components. The temporal component is, in turn, further partitioned into the variance relating to different time periods and we use monthly data to decompose intra- and inter-annual components of the variance. The results show that the spatial and temporal components of the variance of near-surface air temperature have both, on average, decreased over time primarily because of reductions in the equator-to-pole (northern) temperature gradient, and because in cold regions, winter is generally warming faster than summer. We also found that in most regions, the inter-annual variance in near-surface air temperature has increased

Long-term ice-rich permafrost coast sensitivity to air temperatures and storm influence: lessons from Pullen Island, Northwest Territories, Canada

Response of erosive mechanisms to climate change is of mounting concern on Beaufort Sea coasts, which experience some of the highest erosion rates in the Arctic. Collapse of intact permafrost blocks and slumping within sprawling retrogressive thaw complexes are two predominant mechanisms that manifest as cliff retreat in this region. Using aerial imagery and ground survey data from Pullen Island, Northwest Territories., Canada, from 13 time points between 1947 and 2018, we observe increasing mean retreat rates from 0 ± 4.8 m a−1 in 1947 to 12 ± 0.3 m a−1 in 2018. Mean summer air temperature was positively correlated with cliff retreat over each time step via block failure (r2 = 0.08; p = 0.5) and slumping (r2 = 0.41; p = 0.05), as was mean storm duration with cliff retreat via block failure (r2 = 0.84; p = 0.0002) and slumping (r2 = 0.34; p = 0.08). These data indicate that air temperature has a greater impact in slump-dominated areas, whereas storm duration has greater control in areas of block failure. Increasingly, heterogeneous cliff retreat rates are likely resulting from different magnitudes of response to climate trends depending on mechanism, and on geomorphological variations that prescribe occurrences of retrogressive thaw slumps