gebhart/patrepeval huggingface dataset:
Pose Estimation of a Mobile Robot Based on Fusion of IMU Data and Vision Data Using an Extended Kalman Filter (2017)

Using a single sensor to determine the pose estimation of a device cannot give accurate results. This paper presents a fusion of an inertial sensor of six degrees of freedom (6-DoF) which comprises the 3-axis of an accelerometer and the 3-axis of a gyroscope, and a vision to determine a low-cost and accurate position for an autonomous mobile robot. For vision, a monocular vision-based object detection algorithm speeded-up robust feature (SURF) and random sample consensus (RANSAC) algorithms were integrated and used to recognize a sample object in several images taken. As against the conventional method that depend on point-tracking, RANSAC uses an iterative method to estimate the parameters of a mathematical model from a set of captured data which contains outliers. With SURF and RANSAC, improved accuracy is certain; this is because of their ability to find interest points (features) under different viewing conditions using a Hessain matrix. This approach is proposed because of its simple implementation, low cost, and improved accuracy. With an extended Kalman filter (EKF), data from inertial sensors and a camera were fused to estimate the position and orientation of the mobile robot. All these sensors were mounted on the mobile robot to obtain an accurate localization. An indoor experiment was carried out to validate and evaluate the performance. Experimental results show that the proposed method is fast in computation, reliable and robust, and can be considered for practical applications. The performance of the experiments was verified by the ground truth data and root mean square errors (RMSEs).
Using an ER query and update interface for rapid prototyping of hypertext systems (2002)

The author discusses a method for rapid prototyping of hypertext systems using an entity-relationship (ER) query and update interface. Prototyping of a hypertext system for literate programming is shown as an example. The approach is based on utilizing a relational database management system as a major component of the prototyped system. An ER query and update interface is described. Such an interface allows an interactive manipulation of ER database schemas. Sample interactions between a user and the system are given. During the process of manipulation of ER diagrams the information needed to generate an equivalent SQL query is accumulated. A hypertext system for literature programming is described, and the architecture of a prototype system is presented.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
A combination of three distinct trafficking signals mediates axonal targeting and presynaptic clustering of GAD65 (2002)

The signals involved in axonal trafficking and presynaptic clustering are poorly defined. Here we show that targeting of the gamma-aminobutyric acid-synthesizing enzyme glutamate decarboxylase 65 (GAD65) to presynaptic clusters is mediated by its palmitoylated 60-aa NH(2)-terminal domain and that this region can target other soluble proteins and their associated partners to presynaptic termini. A Golgi localization signal in aa 1-23 followed by a membrane anchoring signal upstream of the palmitoylation motif are required for this process and mediate targeting of GAD65 to the cytosolic leaflet of Golgi membranes, an obligatory first step in axonal sorting. Palmitoylation of a third trafficking signal downstream of the membrane anchoring signal is not required for Golgi targeting. However, palmitoylation of cysteines 30 and 45 is critical for post-Golgi trafficking of GAD65 to presynaptic sites and for its relative dendritic exclusion. Reduction of cellular cholesterol levels resulted in the inhibition of presynaptic clustering of palmitoylated GAD65, suggesting that the selective targeting of the protein to presynaptic termini is dependent on sorting to cholesterol-rich membrane microdomains. The palmitoylated NH(2)-terminal region of GAD65 is the first identified protein region that can target other proteins to presynaptic clusters.
Thin-film piezoelectric-on-substrate resonators with Q enhancement and TCF reduction (2010)

In this paper we report on lateral mode thin-film piezoelectric-on-substrate (TPoS) resonators with techniques to enhance the quality factor (Q) and reduce the temperature coefficient of frequency (TCF). Such techniques utilize a highly or degenerately doped Si substrate layer as the ground electrode, and reduce the thickness and volume ratio between the AlN piezoelectric layer and the Si substrate. By patterning the AlN and eliminating the bottom metal electrode, a record quality factor of over 30,000 is observed in air at 27 MHz (>66,000 in vacuum). The highly-doped Si brings the resonator average TCF to around -12 ppm/°C.
Fungal cell biology (2000)

Fungi have their own unique cell biology and life cycle, but also play critical roles in wider biological systems. This textbook provides a comprehensive view of fungal biology, ranging in scope from the evolutionary origins of fungi and other eukaryotes more than a billion years ago, to the impact fungi have on everyday life. Bringing mycology teaching right up to date, this unique systems biology approach emphasises the interactions between fungi and other organisms to illustrate the critical roles that fungi play in every ecosystem and food web. With more than 60 colour figures, examples of computational modelling and resource boxes directing students to areas of interest online, this book gives students an appreciation of fungi both at the organism level and in the context of wider biology. A companion CD accompanying the print book features a hyperlinked version of the book and the fully integrated World of Cyberfungi website.
Compensation of Raman-induced crosstalk using a lumped germanosilicate fiber Raman amplifier in the 1.571-1.591-μm region (2001)

A new method to equalize power imbalance caused by Raman-induced crosstalk among optical channels is proposed using a lumped germanosilicate fiber Raman amplifier. Evolution of optical channels through the Raman amplifier was simulated using Raman frequency modeling, which theoretically predicted simultaneous amplification and power equalization. Experimentally, a gain band with negative slope in the range of 1.571-1.591 μm was achieved in a lumped Raman amplifier pumped by a broad-band laser diode centered at 1.467 μm. We demonstrated compensation of the Raman-induced crosstalk of 5 dB accumulated along 330 km of conventional single-mode fiber.
Therapeutic Targeting of the Hedgehog-GLI Pathway in Prostate Cancer (2005)

The Hedgehog-GLI signaling pathway is important in animal development and tumorigenesis. Recent findings indicate that the growth and survival of human prostate cancer cells rely upon sustained signaling from the Hedgehog-GLI pathway. These findings have prompted a novel rational strategy for therapeutic treatment of prostate tumors, including metastatic tumors.
Nephrin is specifically located at the slit diaphragm of glomerular podocytes (1999)

We describe here the size and location of nephrin, the first protein to be identified at the glomerular podocyte slit diaphragm. In Western blots, nephrin antibodies generated against the two terminal extracellular Ig domains of recombinant human nephrin recognized a 180-kDa protein in lysates of human glomeruli and a 150-kDa protein in transfected COS-7 cell lysates. In immunofluorescence, antibodies to this transmembrane protein revealed reactivity in the glomerular basement membrane region, whereas the podocyte cell bodies remained negative. In immunogold-stained thin sections, nephrin label was found at the slit between podocyte foot processes. The congenital nephrotic syndrome of the Finnish type (NPHS1), a disease in which the nephrin gene is mutated, is characterized by massive proteinuria already in utero and lack of slit diaphragm and foot processes. These features, together with the now demonstrated localization of nephrin to the slit diaphragm area, suggests an essential role for this protein in the normal glomerular filtration barrier. A zipper-like model for nephrin assembly in the slit diaphragm is discussed, based on the present and previous data.
Brain–gut connections in functional GI disorders: anatomic and physiologic relationships (2005)

Understanding the neural regulation of gut function and sensation makes it easier to understand the interrelatedness of emotionality, symptom-attentive behavior or hypervigilance, gut function and pain. The gut and the brain are highly integrated and communicate in a bidirectional fashion largely through the ANS and HPA axis. Within the CNS, the locus of gut control is chiefly within the limbic system, a region of the mammalian brain responsible for both the internal and external homeostasis of the organism. The limbic system also plays a central role in emotionality, which is a nonverbal system that facilitates survival and threat avoidance, social interaction and learning. The generation of emotion and associated physiologic changes are the work of the limbic system and, from a neuroanatomic perspective, the 'mind-body interaction' may largely arise in this region. Finally, the limbic system is also involved in the 'top down' modulation of visceral pain transmission as well as visceral perception. A better understanding of the interactions of the CNS, ENS and enteric immune system will significantly improve our understanding of 'functional' disorders and allow for a more pathophysiologic definition of categories of patients currently lumped under the broad umbrella of FGID.
Caprine beta-mannosidosis. Inherited deficiency of beta-D-mannosidase. (1981)

A rapidly fatal neurovisceral storage disease was discovered in both male and female offspring of clinically normal Nubian goats. Microscopic examination of fixed tissues revealed extensive demyelination and ubiquitous distribution of lysosomal storage vacuoles containing dispersed floccular material and membranous fragments. Urine was found to contain elevated levels of both mannose and N-acetylglucosamine, suggestive of an oligosaccharide storage disease. Brain was found to contain 2.2 mumol/g of a trisaccharide Man(beta 1-4)GlcNAc(beta 1-4)GlcNAc; (Jones, M. Z., and Laine, R. A. (1980) Fed. Proc. 39, 2521 and Jones, M. Z., and Laine, R. A. (1981) J. Biol. Chem. 256, 5181-5184). A profound deficiency of beta-D-mannosidase activity was found in a number of tissues from affected goats; obligate heterozygotes showed a partial enzyme deficiency. Other lysosomal hydrolase activities were normal or elevated over normal, including alpha-D-mannosidase, confirming that this was a hitherto undescribed inborn error of glycoprotein catabolism.
Trickle‐bed root culture bioreactor design and scale‐up: Growth, fluid‐dynamics, and oxygen mass transfer (2004)

Trickle-bed root culture reactors are shown to achieve tissue concentrations as high as 36 g DW/L (752 g FW/L) at a scale of 14 L. Root growth rate in a 1.6-L reactor configuration with improved operational conditions is shown to be indistinguishable from the laboratory-scale benchmark, the shaker flask (mu=0.33 day(-1)). These results demonstrate that trickle-bed reactor systems can sustain tissue concentrations, growth rates and volumetric biomass productivities substantially higher than other reported bioreactor configurations. Mass transfer and fluid dynamics are characterized in trickle-bed root reactors to identify appropriate operating conditions and scale-up criteria. Root tissue respiration goes through a minimum with increasing liquid flow, which is qualitatively consistent with traditional trickle-bed performance. However, liquid hold-up is much higher than traditional trickle-beds and alternative correlations based on liquid hold-up per unit tissue mass are required to account for large changes in biomass volume fraction. Bioreactor characterization is sufficient to carry out preliminary design calculations that indicate scale-up feasibility to at least 10,000 liters.
Two adjacent promoter elements mediate nerve growth factor activation of the c-fos gene and bind distinct nuclear complexes. (1988)

Protooncogene fos is rapidly and transiently induced by nerve growth factor (NGF) in rat pheochromocytoma PC12 cells. Two adjacent promoter elements have been identified to mediate the NGF response. One element colocalizes with the serum response element (SRE) centered at position -308, previously shown to confer inducibility by serum, phorbol 12-myristate 13-acetate, and epidermal growth factor, whereas the other element, termed SRE-2, maps approximately 20 base pairs downstream of the SRE and contains several sequence repeats. This element also confers serum responsiveness. Gel mobility shift assays have demonstrated that there are specific nucleoprotein complexes associated with each element and that these exist in the cell prior to NGF induction. The NGF response is independent of the cAMP-regulatory element(s) and does not require cAMP-dependent protein kinase II, as induction by NGF is retained in the mutant PC12 cell line A126-1B2. Finally, the human heat shock HSP70 promoter is also transcriptionally activated by NGF and appears to bind the same nuclear complex as the SRE-2 element of the c-fos promoter.
KIT kinase mutants show unique mechanisms of drug resistance to imatinib and sunitinib in gastrointestinal stromal tumor patients (2009)

Most gastrointestinal stromal tumors (GISTs) exhibit aberrant activation of the receptor tyrosine kinase (RTK) KIT. The efficacy of the inhibitors imatinib mesylate and sunitinib malate in GIST patients has been linked to their inhibition of these mutant KIT proteins. However, patients on imatinib can acquire secondary KIT mutations that render the protein insensitive to the inhibitor. Sunitinib has shown efficacy against certain imatinib-resistant mutants, although a subset that resides in the activation loop, including D816H/V, remains resistant. Biochemical and structural studies were undertaken to determine the molecular basis of sunitinib resistance. Our results show that sunitinib targets the autoinhibited conformation of WT KIT and that the D816H mutant undergoes a shift in conformational equilibrium toward the active state. These findings provide a structural and enzymologic explanation for the resistance profile observed with the KIT inhibitors. Prospectively, they have implications for understanding oncogenic kinase mutants and for circumventing drug resistance.
Simultaneous Estimation of Segmentation and Shape (2005)

The main focus of this work is the integration of feature grouping and model based segmentation into one consistent framework. The algorithm is based on partitioning a given set of image features using a likelihood function that is parameterized on the shape and location of potential individuals in the scene. Using a variant of the EM formulation, maximum likelihood estimates of both the model parameters and the grouping are obtained simultaneously. The resulting algorithm performs global optimization and generates accurate results even when decisions can not be made using local context alone. An important feature of the algorithm is that the number of people in the scene is not modeled explicitly. As a result no prior knowledge or assumed distributions are required. The approach is shown to be robust with respect to partial occlusion, shadows, clutter, and can operate over a large range of challenging view angles including those that are parallel to the ground plane. Comparisons with existing crowd segmentation systems are made and the utility of coupling crowd segmentation with a temporal tracking system is demonstrated.
Circulating levels of periostin may help identify patients with more aggressive colorectal cancer (2009)

Elevated levels of periostin have been implicated as playing important roles in tumor invasion and metastasis in various tissues. Thus, we determined whether serum periostin levels were associated with progression and poor prognosis in colorectal cancer (CRC) patients. We measured serum periostin levels by ELISA in 67 CRC patients and 120 controls. We also evaluated periostin expression in human CRC specimens (n=15) using immunohistochemistry, and measured expression of periostin mRNA in 7 CRC tissue samples, matched normal tissues and in 4 colon cancer cell lines by RT-PCR. We analyzed the relationship between serum levels of periostin and other clinicopathologic characteristics in patients with CRC. The serum levels of periostin in CRC patients (40.9+/-15.4 ng/ml) were significantly elevated compared to that in healthy volunteers (21.0+/-7.3 ng/ml, P<0.0001) and benign colorectal polyps or adenomas (22.4+/-8.5 ng/ml, P<0.0001). Higher preoperative serum levels of periostin in CRC were found to correlate with distant metastasis (P=0.003), advanced-stage disease (stage III/IV, P<0.0001) and poor prognosis. Preoperative serum periostin levels of 15 cases were significantly higher than matched postoperative levels (47.2+/-13.5 ng/ml vs. 31.3+/-11.0 ng/ml, P=0.008). Twelve of 15 patients (80%) had positive immunohistochemical periostin staining in CRC samples. Interestingly, periostin mRNA was highly upregulated in CRCs in comparison with matched normal tissues, and no expression of periostin mRNA was detected in 4 colon cancer cell lines. Serum levels of periostin detected by ELISA may be of clinical value in identifying patients who may be at high risk for aggression and metastasis of CRC. Periostin may be produced by the stromal cells surrounding the tumor, but not by the CRC cells themselves.
Carbon Monoxide Promotes Fas/CD95-induced Apoptosis in Jurkat Cells (2004)

A properly functioning immune system is dependent on programmed cell death/apoptosis at virtually every stage of lymphocyte development and activity. Carbon monoxide (CO), an enzymatic product of heme oxyenase-1, has been shown to possess anti-apoptotic effects in a number of different model systems. The purpose of the present study was to expand on this knowledge to determine the role of CO in the well established model of Fas/CD95-induced apoptosis in Jurkat cells, and to determine the mechanism by which CO can modulate T-cell apoptosis. Exposure of Jurkat cells to CO resulted in augmentation in Fas/CD95-induced apoptosis, which correlated with CO-induced up-regulation of the pro-apoptotic protein FADD as well as activation of caspase-8, -9, and -3 while simultaneously down-regulating the anti-apoptotic protein BCL-2. These effects of CO were lost with overexpression of the small interfering RNA of FADD. CO, as demonstrated previously in endothelial cells, was also anti-apoptotic in Jurkat cells against tumor necrosis factor and etoposide. We further demonstrate that this pro-apoptotic effect of CO was independent of reactive oxygen species production and involved inhibition in Fas/CD95-induced activation of the pro-survival ERK MAPK. We conclude that in contrast to other studies showing the anti-apoptotic effects of CO, Fas/CD95-induced cell death in Jurkat cells is augmented by exposure to CO and that this occurs in part via inhibition in the activation of ERK MAPK. These data begin to elucidate specific differences with regard to the effects of CO and cell death pathways and provide important and valuable insight into potential mechanisms of action.
Modeling of nonideal volume Bragg reflection gratings in photosensitive glass using a perturbed transmission matrix approach (2004)

Reflection spectra of volume Bragg gratings written in bulk photosensitive silicate glass for wavelength division multiplexing applications are modeled using a transmission matrix approach. This allows for the examination of the effects of spatial perturbations along the grating due to chirp, apodization, compositional inhomogeneities, and index contrast saturation leading to reflection spectra that are asymmetric about the Bragg peak. Effects of the nonlinear relationship between index contrast in the glass and exposure flux on the reflection spectrum is also studied. Volume Bragg gratings are fabricated in UV exposure-sensitive silicate glasses containing alkali-halide nano-crystalline domains, and their reflection spectra are compared with calculation. The magnitude and uniformity of the index changes observed in our glass gratings make them useful in a wide range of wavelength multiplexing applications.
High-level transgene expression in human hematopoietic progenitors and differentiated blood lineages after transduction with improved lentiviral vectors (2000)

Recent experiments point to the great value of lentiviral vectors for the transduction of human hematopoietic stem cells (hHSCs). Vectors used so far, however, have been poorly satisfying in terms of either biosafety or efficiency of transgene expression. Herein is described the results obtained with human immunodeficiency virus-based vectors optimized in both of these aspects. It is thus shown that vectors containing the EF1alpha and, to a lesser extent, the phosphoglycerate kinase (PGK) promoter, govern high-level gene expression in human hematopoietic progenitors as well as derived hematopoietic lineages of therapeutic relevance, such as erythrocytes, granulocytes, monocytes, dendritic cells, and megakaryocytes. EF1alpha promoter-containing lentiviral vectors can also induce strong transgene expression in primary T lymphocytes isolated from peripheral blood. A self-inactivating design did not affect the performance of EF1alpha promoter-based vectors but significantly reduced expression from the PGK promoter. This negative effect could nevertheless be largely rescued by inserting the post-transcriptional regulatory element of woodchuck hepatitis virus upstream of the vector 3' long terminal repeat. These results have important practical implications for the genetic treatment of lymphohematologic disorders as well as for the study of hematopoiesis via the lentivector-mediated modification of hHSCs.
Citrate anticoagulation using ACD solution A during long‐term haemodialysis (2010)

Routine use of citrate anticoagulation in the setting of a long-term haemodialysis unit is safe and efficient. Point-of-care measurements of ionized calcium levels are critical to safely and successfully perform citrate anticoagulation.
Fill for shallow trench isolation CMP (2006)

Shallow trench isolation (STI) is the mainstream CMOS isolation technology. It uses chemical mechanical polishing (CMP) to remove excess of deposited oxide and attain a planar surface for successive process steps. Despite advances in STI CMP technology, pattern dependencies cause large post-CMP topography variation that can result in functional and parametric yield loss. Fill insertion is used to reduce pattern variation and consequently decrease post-CMP topography variation. Traditional fill insertion is rule-based and is used with reverse etchback to attain desired planarization quality. Due to extra costs associated with reverse etchback, single-step STI CMP in which fill insertion suffices is desirable. To alleviate the failures caused by imperfect CMP, we focus on two objectives for fill insertion: oxide density variation minimization and nitride density maximization. A linear programming based optimization is used to calculate oxide densities that minimize oxide density variation. Next a fill insertion methodology is presented that attains the calculated oxide density while maximizing the nitride density. Averaged over the two large testcases, the oxide density variation is reduced by 63% and minimum nitride density increased by 79% compared to tiling-based fill insertion. To assess post-CMP planarization, we run CMP simulation on the layout filled with our approach and find the planarization window (time window in which polishing can be stopped) to increase by 17% and maximum final step height (maximum difference in post-CMP oxide thickness) to decrease by 9%.