gebhart/patrepeval huggingface dataset:
Visual Correspondence Hallucination: Towards Geometric Reasoning (2021)

Given a pair of partially overlapping source and target images and a keypoint in the source image, the keypoint's correspondent in the target image can be either visible, occluded or outside the field of view. Local feature matching methods are only able to identify the correspondent's location when it is visible, while humans can also hallucinate its location when it is occluded or outside the field of view through geometric reasoning. In this paper, we bridge this gap by training a network to output a peaked probability distribution over the correspondent's location, regardless of this correspondent being visible, occluded, or outside the field of view. We experimentally demonstrate that this network is indeed able to hallucinate correspondences on unseen pairs of images. We also apply this network to a camera pose estimation problem and find it is significantly more robust than state-of-the-art local feature matching-based competitors.
Position estimation of an epicardial crawling robot on the beating heart by modeling of physiological motion (2011)

HeartLander, a small mobile robot designed to provide treatments to the surface of the beating heart, overcomes a major difficulty of minimally invasive cardiac surgery, providing a stable operating platform. This is achieved inherently in the way the robot adheres to and crawls over the surface of the heart. This mode of operation does not require physiological motion compensation to provide this stable environment; however, modeling of physiological motion is advantageous in providing more accurate position estimation as well as synchronization of motion to the physiological cycles. The work presented uses an Extended Kalman Filter framework to estimate parameters of non-stationary Fourier series models of the motion of the heart due to the respiratory and cardiac cycles as well as the position of the robot as it moves over the surface of the heart. The proposed method is demonstrated in the laboratory with HeartLander operating on a physiological motion simulator. Improved performance is demonstrated in comparison to the filtering methods previously used with HeartLander. The use of detected physiological cycle phases to synchronize locomotion of HeartLander is also described.
A Chemical Probe for the Methyl Transferase PRMT5 with a Novel Binding Mode (2020)

Protein arginine methyltransferase 5 (PRMT5) is an enzyme that can symmetrically dimethylate arginine residues in histones and nonhistone proteins by using <i>S</i>-adenosyl methionine (SAM) as the methyl donating cofactor. We have designed a library of SAM analogues and discovered potent, cell-active, and selective spiro diamines as inhibitors of the enzymatic function of PRMT5. Crystallographic studies confirmed a very interesting binding mode, involving protein flexibility, where both the cofactor pocket and part of substrate binding site are occupied by these inhibitors.
Data aggregation in capillary networks for machine-to-machine communications (2015)

As machine-to-machine applications using cellular systems become pervasive, it is an important concern that their deployment does not jeopardize the performance of the cellular systems. Support for a massive number of machines brings technical challenges affecting the performance of the random access channel and efficiency of radio resource allocation. Capillary networks are considered as an extensions to the cellular systems for providing large-scale connectivity. This paper proposes an aggregation scheme for capillary networks connected to the LTE network to improve their communication efficiency. A gateway, an intermediate unit between machines and the base station, aggregates packets from the machines during a predefined time, and then delivers them to the LTE network. In addition, this paper analyzes the trade-offs between random access interaction, resource allocation, and communication latency. Results reveals that accepting the extra latency for accumulating packets can significantly reduce the random access requests and the required resources for the data transmissions.
Numerically stable coded matrix computations via circulant and rotation matrix embeddings (2021)

Polynomial based methods have recently been used in several works for mitigating the effect of stragglers in distributed matrix computations. However, they suffer from serious numerical issues owing to the condition number of the corresponding real Vandermonde-structured recovery matrices. For a system with <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">$n$</tex> worker nodes where <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">$s$</tex> can be stragglers the condition number grows exponentially in n. We present a novel coded computation approach that leverages the properties of circulant permutation and rotation matrices. Our scheme has an optimal recovery threshold and an upper bound on the worst case condition number of our recovery matrices which grows as ≈ <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">$O$</tex> (n <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">s</sup> + <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">6</sup> ); in the practical scenario where <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">$s$</tex> is a constant, this grows polynomially in n. Our schemes leverage the well-behaved conditioning of complex Vandermonde matrices with parameters on the complex unit circle, while still working with computation over the reals. Exhaustive experimental results demonstrate that our proposed method has condition numbers that are orders of magnitude lower than prior work.
Anti-HIV and Cytotoxic Alkaloids from Buchenavia capitata (1992)

The anti-HIV activity in the organic solvent extract of leaves of Buchenavia capitata was traced to a series of known flavonoid alkaloids, which represent a new chemotype for anti-HIV activity. The 13C-nmr assignments for this series of compounds have been revised. O-Demethylbuchenavianine [1] was the most active compound of the series but produced only moderate cytoprotective effects against HIV in cultured human lymphoblastoid (CEM-SS) cells. Compound 1 was cytotoxic also in the NCI human disease-oriented in vitro tumor screening panel and produced a pattern of modest differential cellular sensitivity.
Cu(OTf)2 catalyzed Biginelli type condensation of aldehydes, β-keto esters and carbamates : Synthesis of 3,4-dihydro[1,3]oxazin-2-ones (2008)

Cu(OTf) 2 catalyzes effectively a new multicomponent reaction comprising aldehydes, βketoester and methyl carbamate in acetonitrile to afford substituted 3,4-dihydro[1,3]oxazin-2-ones in 60-82% yields. These compounds have been found to show inhibition activity against HL-60 cancer cell.
Fractal Clustering for Microarray Data Analysis (2006)

DNA microarray experiments generate a substantial amount of information about global gene expression. Gene expression profiles can be represented as points in multi-dimensional space. It is essential to identify relevant groups of genes in biomedical research. Clustering is helpful in pattern recognition in gene expression profiles. Some clustering techniques have been introduced. However, these traditional methods mainly utilize shape-based assumption or distance metric to cluster the points in multi-dimension linear Euclidean space. Poor consistence with the functional annotation of genes is shown in their validation study. A fractal clustering method to cluster genes using intrinsic (fractal) dimension from modern geometry is proposed. Fractal dimension is used to characterize the degree of self similarity among the points in the clusters. The main idea of fractal clustering is to group points in a cluster in such a way that none of the points in the cluster changes the cluster's intrinsic dimension radically. Hausdorff fractal dimension is computed through the means of the box-counting plot algorithm, since it is the fastest and also robust enough. This method is assessed using validation assessment using public microarray dataset. It shows that this method is superior in identifying functional related gene groups than other traditional methods.
cis-Dichloro Sulfoxide Ligated Ruthenium Metathesis Precatalysts (2019)

Novel sulfoxide-ligated ruthenium complexes were prepared by reacting second-generation metathesis precatalysts with p-toluenesulfonyl chloride in the presence of a small excess of sulfoxide. (SIMes)Ru(S-DMSO)(Ind)Cl2 (M54) and (SIMes)Ru(S-DMSO)(CHPh)Cl2 (M54a) were characterized crystallographically and, in agreement with NMR spectroscopy, were found to adopt an unusual cis-dichloro configuration. Despite having traditionally latent geometry, the new complexes were found to be highly reactive precatalysts for routine metathesis transformations. Additionally, the robustness, scalability, and industrial utility of M54 as a ruthenium synthon are demonstrated.
Study of Carrier Transport in Bifacial Silicon Heterojunction Solar Cells Under High Air Mass Illumination (2020)

The absorption of rear-side irradiance in bifacial solar cells affects carrier generation rates, recombination rates, and series resistance, increasing the complexity of quantifying bifacial cell performance. In this work, recombination rates and the electronic structure of textured bifacial silicon heterojunction solar cells are modelled in Synopsys TCAD Sentaurus. Front and rear illumination conditions vary in air mass from 1.5 to 10.0, while the effect of shifting spectrum and intensity due to snow and dry-grass albedo are applied to rear-side light. Recombination rates in the depletion region remain constant for different illumination scenarios, while throughout the bulk they are ~1 order of magnitude larger for rear illumination compared to front illumination, resulting in a simulated bifaciality within 0.1% of experiment (97.4%). With increasing air mass, the average c-Si recombination probability varies by <; 0.2%. Cell parasitic absorption, on the other hand, drops significantly with air mass, resulting in efficiency enhancements for higher air masses. From AM1.5 to AM5.0, current loss due to parasitic absorption drops from 7.9% to 5.1% and from 7.1% to 4.8% for front and rear illumination, respectively. Likewise, efficiency increases from 21.9% to 22.3% and 21.4% to 21.7%. For rear side AM1.5G illumination, the effect of albedo has an important influence on rear cell performance, with snowy albedo increasing rear-side maximum power by 2× and efficiency by 10% (relative) compared to dry-grass. Thus, the effect of spectral shifts caused by air mass and albedo can play a significant role in bifacial heterojunction energy yield calculations, particularly as collection efficiencies vary with illumination conditions.
Biomimetic fabrication of materials: the minimalist approach (1996)

The interfacial chemistry between inorganic ceramics and defined organic surfaces is the focus of intense investigation. Partially compressed Langmuir-Blodgett monolayers of anionic porphyrins have been used as modified nucleation sites for calcium carbonate. The porphyrin monolayer has an ordered array of carboxylates, and hence the system serves as a minimalist template for the modeling of complex biogenic acidic glycoproteins for biomineralization. The initial results suggest the formation of calcite with morphologically distinct calcitic rhombs with truncated, 3-edged corners and intricately articulated facial cavities. Stearic acid monolayers yield distinctly different calcite crystals, indicative that the geometrically defined carboxylate array is probably important. Phosphatidylcholine vesicles have been used as a tool for the formation of membrane encapsulated iron-oxides. Gramicindin A ion channels have been embedded in vesicles to kinetically alter the formation and growth of iron oxides, starting with intravesicular ferrous chloride. The results indicate that the presence of ion channels lead to the formation of magnetite vis-a-vis maghemite formation in vesicles lacking the ion channels. The use of ion channels has important implications in probable signal transduction processes during biomineralization pathways.
Hand-Assisted Laparoscopic Nephrectomy: The Transfer of Experience to a New Academic Center (2004)

The HALN techniques can be transferred quickly and efficiently between [corrected]one center and [corrected] another under the guidance of an experienced surgeon. Operative times are acceptable, with complication rates comparable to [corrected] previously reported series. Our data show that exposure during residency markedly increases the likelihood that surgeons will carry the techniques into their practices [corrected]
Bovine and Ovine Blood Mononuclear Leukocytes Differ Markedly in Innate Immune Responses Induced by Class A and Class B CpG-Oligodeoxynucleotide (2003)

Cytosine-phosphate-guanosine (CpG)-DNA can induce an impressive array of innate immune responses that may directly or indirectly contribute to the clearance of infectious agents. Assays, such as lymphocyte proliferative responses, have been used to demonstrate that the immunostimulatory activity of CpG-DNA is conserved among a broad range of vertebrate species, but no studies have been completed to determine if qualitative differences exist among species for CpG-oligodeoxynucleotide (ODN)-induced innate immune responses. In this study, we assessed the capacity of a Class A (ODN 2216) and a Class B (ODN 2007) CpG-ODN to induce innate immune responses in two closely related species, ovine (n = 28) and bovine (n = 29). The secretion of interferon (IFN)-alpha and IFN-gamma and non-major histocompatability complex (MHC)-restricted cytotoxic activity were assayed with CpG-ODN-stimulated peripheral blood mononuclear cells (PBMC). These investigations revealed significant interspecies and intraspecies variation in the responses. As expected, ODN 2216 was a potent inducer of IFN-alpha secretion by both bovine and ovine PBMC, but ODN 2007 also induced dose-dependent, CpG-specific IFN-alpha secretion by ovine PBMC. In contrast, a significant dose-dependent, CpG-specific IFN-gamma secretion response was only observed following ODN 2216 stimulation of bovine PBMC. Furthermore, both ODN 2216 and ODN 2007 induced CpG-specific non-MHC-restricted cytotoxicity with ovine but not bovine PBMC. Finally, there was not a single assay in which PBMC from all sheep or cattle responded at a detectable level. A striking aspect of these results is that such marked differences in CpG-ODN induced innate responses existed both between and within two closely related species.
Regulation of transferrin-induced endocytosis by wild-type and C282Y-mutant HFE in transfected HeLa cells (2002)

The hereditary hemochromatosis protein HFE is known to complex with the transferrin receptor; however, its function regarding endocytosis of transferrin is unclear. We performed patch-clamp capacitance measurements in transfected HeLa cells carrying wild-type or C282Y-mutant HFE cDNA under the control of a tetracycline-sensitive promoter. Whole cell experiments in cells with suppressed expression of wild-type HFE revealed a decrease in membrane capacitance, reflecting predominance of endocytosis in the presence of transferrin. Cells overexpressing C282Y-mutant HFE displayed less intense capacitance decreases, whereas no significant decrease was observed in cells overexpressing wild-type HFE. The formation of single endocytic vesicles in cells with suppressed expression of wild-type HFE was greatly increased in the presence of transferrin as revealed by cell-attached recordings. According to their calculated diameters, many of these vesicles corresponded to clathrin-coated vesicles. These results suggest that wild-type HFE negatively modulates the endocytic uptake of transferrin. This inhibitory effect is attenuated in cells expressing C282Y-mutant HFE. Time-resolved measurements of cell membrane capacitance provide a powerful tool to study transferrin-induced endocytosis in single cells.
The pulmonary inflammatory response to multiwalled carbon nanotubes is influenced by gender and glutathione synthesis (2016)

Inhalation of multiwalled carbon nanotubes (MWCNTs) during their manufacture or incorporation into various commercial products may cause lung inflammation, fibrosis, and oxidative stress in exposed workers. Some workers may be more susceptible to these effects because of differences in their ability to synthesize the major antioxidant and immune system modulator glutathione (GSH). Accordingly, in this study we examined the influence of GSH synthesis and gender on MWCNT-induced lung inflammation in C57BL/6 mice. GSH synthesis was impaired through genetic manipulation of Gclm, the modifier subunit of glutamate cysteine ligase, the rate-limiting enzyme in GSH synthesis. Twenty-four hours after aspirating 25µg of MWCNTs, all male mice developed neutrophilia in their lungs, regardless of Gclm genotype. However, female mice with moderate (Gclm heterozygous) and severe (Gclm null) GSH deficiencies developed significantly less neutrophilia. We found no indications of MWCNT-induced oxidative stress as reflected in the GSH content of lung tissue and epithelial lining fluid, 3-nitrotyrosine formation, or altered mRNA or protein expression of several redox-responsive enzymes. Our results indicate that GSH-deficient female mice are rendered uniquely susceptible to an attenuated neutrophil response. If the same effects occur in humans, GSH-deficient women manufacturing MWCNTs may be at greater risk for impaired neutrophil-dependent clearance of MWCNTs from the lung. In contrast, men may have effective neutrophil-dependent clearance, but may be at risk for lung neutrophilia regardless of their GSH levels.
Statistical modeling and analysis of audio-visual association in speech (2004)

Thesis (S.M.)--Massachusetts Institute of Technology, Dept. of Electrical Engineering and Computer Science, February 2005.
On the expected size of recursive Datalog queries (1991)

We present asymptotically exact expressions for the expected sizes of relations defined by two well-studied
Hierarchical Optimization of Speed and Gearshift Control for Battery Electric Vehicles Using Preview Information (2020)

This paper addresses the hierarchical optimization of speed and gearshift control for battery electric vehicles using short-range traffic information. To achieve greater electric motor efficiency, a multi-speed transmission is employed, whose control involves discrete-valued gearshift signals. To overcome the computational difficulties in solving the integrated speed-and-gearshift optimal control problem that involves both continuous and discrete-valued optimization variables, we propose a hierarchical procedure to decompose the integrated hybrid problem into purely continuous and discrete sub-problems, each of which can be efficiently solved. We show, by simulations in various driving scenarios, that the hierarchical optimization of speed and gearshift control can achieve greater energy efficiency than other typical approaches.
Theoretical analysis of classic algorithms on highly-threaded many-core GPUs (2014)

The Threaded many-core memory (TMM) model provides a framework to analyze the performance of algorithms on GPUs. Here, we investigate the effectiveness of the TMM model by analyzing algorithms for 3 classic problems -- suffix tree/array for string matching, fast Fourier transform, and merge sort -- under this model. Our findings indicate that the TMM model can explain and predict previously unexplained trends and artifacts in experimental data.
Analyzing the Stability Properties of Kaleidocycles (2016)

Kaleidocycles are continuously rotating n-jointed linkages. We consider a certain class of six-jointed kaleidocycles which have a spring at each joint. For this class of kaleidocycles, stored energy varies throughout the rotation process in a nonconstant, cyclic pattern. The purpose of this paper is to model and provide an analysis of the stored energy of a kaleidocycle throughout its motion. In particular, we will solve analytically for the number of stable equilibrium states for any kaleidocycle in this class.
Polar Isotactic and Syndiotactic Polypropylenes by Organozirconium‐Catalyzed Masking‐Reagent‐Free Propylene and Amino–Olefin Copolymerization (2020)

Abstract Polar functionalized isotactic and syndiotactic polypropylenes (PPs) are synthesized by direct, masking‐reagent‐free propylene and amino–olefin (AO, CH 2 =CH(CH 2 ) x N n Pr 2 , x= 2, 3, 6) copolymerizations using the activated precatalysts rac ‐[Me 2 Si(indenyl) 2 ]ZrMe 2 and [Me 2 C(Cp)(fluorenyl)]ZrMe 2 , respectively. Polymerization activities at 25 °C are as high as 4208 and 535 kg/(mol h atm) with AO incorporation up to 4.0 mol % and 1.6 mol %, respectively. Remarkably, introducing the amino‐olefin comonomers significantly enhances stereoselection for both isotactic ( mmmm : 59.5 %→91.0 %) and syndiotactic ( rrrr : 66.3 %→81.3 %) products.
Transparent Plastic Microplasma Flexible Light Sources (2006)

We report on the first microplasma devices with cavities that are fabricated on both rigid and flexible transparent substrates by a polymer-based replica molding process. The process enables accurate and inexpensive production of plasma pixels with dimensions an order of magnitude smaller than conventional plasma television pixels, large uniform pixel arrays, and channels of arbitrary shape. The replica molding process may be performed over large surface areas for applications including video display, heads-up displays, medical phototherapy, photopolymerization, and photonic circuit light sources