gebhart/patrepeval huggingface dataset:
A protein patent query system powered by Kleisli (1998)

article Free Access Share on A protein patent query system powered by Kleisli Authors: Jing Chen BioInformatics Centre & Kent Ridge Digital Laboratories, 21 Heng Mui Keng Terrace, Singapore 119613 BioInformatics Centre & Kent Ridge Digital Laboratories, 21 Heng Mui Keng Terrace, Singapore 119613View Profile , Limsoon Wong BioInformatics Centre & Kent Ridge Digital Laboratories, 21 Heng Mui Keng Terrace, Singapore 119613 BioInformatics Centre & Kent Ridge Digital Laboratories, 21 Heng Mui Keng Terrace, Singapore 119613View Profile , Louxin Zhang BioInformatics Centre & Kent Ridge Digital Laboratories, 21 Heng Mui Keng Terrace, Singapore 119613 BioInformatics Centre & Kent Ridge Digital Laboratories, 21 Heng Mui Keng Terrace, Singapore 119613View Profile Authors Info & Claims ACM SIGMOD RecordVolume 27Issue 2June 1998 pp 593–595https://doi.org/10.1145/276305.276392Online:01 June 1998Publication History 5citation405DownloadsMetricsTotal Citations5Total Downloads405Last 12 Months5Last 6 weeks2 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteeReaderPDF
Induction of anoikis and suppression of human ovarian tumor growth in vivo by down-regulation of Bcl-X(L). (2001)

Normal or immortal epithelial cells are sensitive to a form of apoptosis, commonly referred to as anoikis, which is induced by detachment from the extracellular matrix (ECM). In contrast, development of carcinomas is associated with acquisition of cellular resistance to anoikis. However, whether human cancer cells deprived of anoikis resistance necessarily display reduced tumorigenic properties in vivo is unknown. We decided to address this question using human ovarian carcinoma cells as a model. Bcl-X(L), an apoptotic factor considered to play an important role in (resistance to) anoikis, is overexpressed in ovarian cancer, and represents an unfavorable prognostic indicator for this type of human malignancy. We therefore evaluated whether Bcl-X(L) can be used as a tool to manipulate anoikis resistance and tumorigenicity of ovarian cancer cells. We show here that when nonmalignant ovarian epithelial cells are detached from the ECM, down-regulation of Bcl-X(L) and apoptotic cell death are observed, although these events do not occur in ovarian carcinoma cells. Moreover, enforced down-regulation of Bcl-X(L) by transfection with antisense cDNA in the anoikis-resistant and highly tumorigenic HEY ovarian carcinoma cell line had no impact on the viability of these cells under adherent conditions but caused significant apoptosis in response to detachment from the ECM. This change was associated with a strong inhibition of tumorigenicity of the Bcl-X(L)-deficient HEY cells in nude mice, both s.c. and in the peritoneal cavity. These results suggest a critical role for Bcl-X(L) in the maintenance of anoikis resistance in ovarian cancer cells. They also serve to establish a functional linkage between this property and the ability of human cancer cells to grow aggressively in vivo. Consequently, targeting molecular mechanisms responsible for anoikis resistance may serve as a potentially effective therapeutic strategy for the treatment of such human malignancies as ovarian cancer.
Leukocyte proteinases in wound healing: roles in physiologic and pathologic processes (1999)

Leukocytes express a number of proteinases which play critical roles in physiologic processes during wound healing. However, if the activity of these proteinases is uncontrolled, they can contribute to devastating tissue injury that can affect most organ systems. Until recently, little was known about the mechanisms by which leukocytes retain the activity of their proteinases within the extracellular space which contains highly effective proteinase inhibitors. Studies of the cell biology of leukocyte proteinases have begun to identify the mechanisms by which proteinases can circumvent the effects of physiologic proteinase inhibitors. Herein, we will review the cell biology of leukocyte proteinases, and we will discuss the mechanisms by which leukocyte proteinases can contribute to physiologic processes occurring during wound healing, as well as their roles in pathologic processes.
Data augmentation using synthetic data for time series classification\n with deep residual networks (2018)

Data augmentation in deep neural networks is the process of generating\nartificial data in order to reduce the variance of the classifier with the goal\nto reduce the number of errors. This idea has been shown to improve deep neural\nnetwork's generalization capabilities in many computer vision tasks such as\nimage recognition and object localization. Apart from these applications, deep\nConvolutional Neural Networks (CNNs) have also recently gained popularity in\nthe Time Series Classification (TSC) community. However, unlike in image\nrecognition problems, data augmentation techniques have not yet been\ninvestigated thoroughly for the TSC task. This is surprising as the accuracy of\ndeep learning models for TSC could potentially be improved, especially for\nsmall datasets that exhibit overfitting, when a data augmentation method is\nadopted. In this paper, we fill this gap by investigating the application of a\nrecently proposed data augmentation technique based on the Dynamic Time Warping\ndistance, for a deep learning model for TSC. To evaluate the potential of\naugmenting the training set, we performed extensive experiments using the UCR\nTSC benchmark. Our preliminary experiments reveal that data augmentation can\ndrastically increase deep CNN's accuracy on some datasets and significantly\nimprove the deep model's accuracy when the method is used in an ensemble\napproach.\n
Advances in Microelectronics for Implantable Medical Devices (2014)

Implantable medical devices provide therapy to treat numerous health conditions as well as monitoring and diagnosis. Over the years, the development of these devices has seen remarkable progress thanks to tremendous advances in microelectronics, electrode technology, packaging and signal processing techniques. Many of today’s implantable devices use wireless technology to supply power and provide communication. There are many challenges when creating an implantable device. Issues such as reliable and fast bidirectional data communication, efficient power delivery to the implantable circuits, low noise and low power for the recording part of the system, and delivery of safe stimulation to avoid tissue and electrode damage are some of the challenges faced by the microelectronics circuit designer. This paper provides a review of advances in microelectronics over the last decade or so for implantable medical devices and systems. The focus is on neural recording and stimulation circuits suitable for fabrication in modern silicon process technologies and biotelemetry methods for power and data transfer, with particular emphasis on methods employing radio frequency inductive coupling. The paper concludes by highlighting some of the issues that will drive future research in the field.
An intein with genetically selectable markers provides a new approach to internally label proteins with GFP (2011)

Inteins continue to show their flexibility as tools in molecular biology. The Pch PRP8 intein can successfully tolerate a variety of genetic markers and still retain high splicing efficiency. We have shown that a genetically marked intein can be used to insert GFP in one-step within a target protein in vivo.
Genetic and other global optimization algorithms - comparison and use in calibration problems (1998)

Many issues related to water resources require the solution of optimization problems. If the objective function is not known analytically, traditional methods are not applicable and multi-extremum (global) optimization (GO) methods must be used. In the present paper a brief overview of GO methods is given and nine of them are compared in terms of effectiveness (accuracy), efficiency (number of needed function evaluations) and reliability on several problems including two problems of model calibration. Two algorithms - adaptive cluster covering (ACCO) and controlled random search (CRS4) - show better performance than the popular genetic algorithm. The global optimization tool GLOBE used to perform the experiments can be downloaded from www.ihe.nl/hi.
[Studies on Epstein-Barr virus (EBV) infection and reactivity of peripheral B lymphocytes to EBV in patients with ataxia telangiectasia]. (1986)

Ataxia telangiectasia (AT) is a primary immunodeficiency syndrome characterized by oculocutaneous telangiectasia, ataxia, recurrent infection and development of malignancies. Epstein-Barr virus (EBV) is a B-cell lymphocytotropic virus which causes infectious mononucleosis and is also highly associated with Burkitt's lymphoma, nasopharyngeal carcinoma and lymphoproliferative disorders in immunodeficient patients. 10 Japanese patients with AT were studied concerning the status of EBV infection by specific EBV serology, and reactivity of peripheral lymphocytes to EBV. All the AT patients had high EBV antibody titers of IgG to viral capsid antigen (VCA) and early antigen (EA), while low titers of IgG to EBV-associated nuclear antigen (EBNA), compared with age and sex matched healthy controls. However, significant differences were not apparent with antibodies to several other viruses between the AT patients and controls. These antibody characteristics were thought to be that an activated EBV infection occurred in AT patients. Then the lymphocytes were exposed to B95-8 strain EBV. There was no significant differences in EBNA induction frequency at 24 hours prior to cellular DNA synthesis, between the AT and controls. EBV-specific T cell killer function was very low as judged with the days of establishment of lymphoblastoid cells expressing EBNA on all cells after EBV exposure, when compared with the lymphocytes from controls. These AT lymphoblastoid cells easily expressed EA and VCA by cultivation at lower temperature of 33 degrees C, 12-0-tetradecanoyl-phorbol-13-acetate treatment, 60Co irradiation and by P3HR-1 strain EBV infection. Malignant transformation with high colony forming efficiency in soft agarose and tumor formation in nude mice easily occurred with some of AT lymphoblastoid cells.(ABSTRACT TRUNCATED AT 250 WORDS)
Changes in cell diameter during the division cycle of Escherichia coli (1980)

Extensive measurements of steady-state populations of several Escherichia coli strains have consistently indicated that cell diameter decreases with increasing cell length. This was observed both after electron microscopy of air-dried cells and after phase-contrast microscopy of living cells. The analysis was made by considering separately the unconstricted cells and three classes (slight, medium, and deep) of constricted cells in the population. During slow growth, cells with the average newborn length were up to 8% thicker than unconstricted cells twice as long. This decrease in diameter is less at higher growth rates. Despite the small changes and the large variation of the diameter in any particular length class, significant negative correlations between diameter and length were obtained. Cell diameter increases again at the end of the cell cycle as indicated by an increase of average diameter in the three consecutive classes of constriction.
Using dead blocks as a virtual victim cache (2010)

Caches mitigate the long memory latency that limits the performance of modern processors. However, caches can be quite inefficient. On average, a cache block in a 2MB L2 cache is dead 59% of the time, i.e., it will not be referenced again before it is evicted. Increasing cache efficiency can improve performance by reducing miss rate, or alternately, improve power and energy by allowing a smaller cache with the same miss rate.
Apoptosis and cerebral vasospasm following subarachnoid hemonhage (2009)

Cerebral vasospasm is a common serious complication after subarachnoid hemorrhage, and is one of the main reasons of morbidity and mortality in patients suffering from subarachnoid hemorrhage. However, However, its pathogenesis has not yet been fully elucidated. Recent studies have suggested that apoptosis plays an important role in the mechanism of cerebral vasospasm. Further study of the apoptotic mechanism of cerebral vasospasm following suharachnoid hemorrhage has important significance for the optimization of therapeutic schemes in clinical conditions.

Key words: 
cerebral vasospasm;  subarachnoid hemorrhage;  apoptosis
The use of variable camber to reduce drag, weight and costs of transport aircraft (1992)

It was while lecturing at Cranfield in the late 1970s and early 80s on the aerodynamic design of aircraft wings that the ideas discussed in this paper began to develop. My work on wing tip sails had led me to look in some detail at the flight of birds and their ability to vary wing camber. I realised that this was an attractive way to overcome the need to compromise between the design requirements associated with the different regimes of flight necessary with fixed geometry. To be economically attractive, civil aircraft have to be capable of operating over a wide range of flight conditions. For example, an executive jet may be required to fly fast and low at light weight over a short stage length, such as London to Paris, on one day, and fly heavily loaded a much longer stage length the next, when it is desirable for the aircraft to fly high and at an economical speed.
Restricting oral fluid and food intake during labour (2013)

Since the evidence shows no benefits or harms, there is no justification for the restriction of fluids and food in labour for women at low risk of complications. No studies looked specifically at women at increased risk of complications, hence there is no evidence to support restrictions in this group of women. Conflicting evidence on carbohydrate solutions means further studies are needed and it is critical in any future studies to assess women's views.
Perspectives on biotechnological applications of archaea (2002)

Many archaea colonize extreme environments. They include hyperthermophiles, sulfur-metabolizing thermophiles, extreme halophiles and methanogens. Because extremophilic microorganisms have unusual properties, they are a potentially valuable resource in the development of novel biotechnological processes. Despite extensive research, however, there are few existing industrial applications of either archaeal biomass or archaeal enzymes. This review summarizes current knowledge about the biotechnological uses of archaea and archaeal enzymes with special attention to potential applications that are the subject of current experimental evaluation. Topics covered include cultivation methods, recent achievements in genomics, which are of key importance for the development of new biotechnological tools, and the application of wild-type biomasses, engineered microorganisms, enzymes and specific metabolites in particular bioprocesses of industrial interest.
Preservation of passivity during RLC network reduction via split congruence transformations (1998)

Resistance-inductance-capacitance (RLC) network reduction refers to the formulation of small networks whose port behavior is similar to that of large RLC networks. Several network reduction algorithms have been developed in the last few years, but none exist for RLC networks which preserve passivity. The loss of passivity can be a serious problem because simulations of the reduced networks may encounter artificial oscillations or "time step too small" errors which render the simulations useless. This paper presents a set of well-conditioned transformations called "split congruence transformations" (SCTs) which can he used to preserve specified moments and resonances for RLC network reduction, and these transformations are proven to preserve passivity. Network reduction examples are provided to demonstrate the utility of SCTs.
Chromosomal Anomalies in Referred Cases with Suspected Genetic Disorders: First Report from Jammu and Kashmir (2010)

In a four year period (2005-2009), a total of 161 individuals of different age group presenting clinicalprofile like genetically uncertain syndrome, multiple congenital anomalies, short stature, facial dysmorphism, abnormalbehaviour, unclassified mental retardation and Down syndrome were referred to the Human Genetic Research cumCounselling centre, Jammu.Chromosome study was carried out in all the referred cases, when the chromosomalabnormalities were detected in 91 (56.52%) individuals. Besides chromosome study, some non-cytogenetic factorslike maternal age, male: female ratio, birth order and consanguinity have also been studied to find out the possibleassociation of these factors with chromosomal aberrations in referred patients.
Improving photovoltaic response of poly(3-hexylthiophene)/n-Si heterojunction by incorporating double walled carbon nanotubes (2006)

Poly(3-hexylthiophene)/n-Si heterojunction solar cells were studied with and without incorporation of double walled carbon nanotubes (DWCNs) in the polymer layer. Performance of the device improves by manyfold by incorporation of DWCN. The authors report power conversion efficiency, open circuit voltage, short-circuit current density, and fill factor of 0.026%, 0.446V, 0.3398mA∕cm2, and 0.17, respectively, for an unoptimized cell containing DWCN. Reference cells without DWCNs show much lower performance. DWCN incorporation yields better hole transport, easy exciton splitting, and suppression of charge recombination, thereby improving photovoltaic action. DWCN seems promising materials for improving hole transport in organic solar cells.
Circulating vitamin K levels in patients with fractures (1988)

It is now clear that vitamin K1 is part of a biochemical cycle that is essential for the conversion of specific bone peptides into a form that can bind calcium. We have used a recently described procedure for assaying vitamin K1 in plasma to test the involvement of this vitamin in fracture healing. Markedly depressed circulating levels were found in patients with fractures and the time taken for this level to return to normal appeared to be influenced by the severity of the fracture.
Global minimum for active contour models: a minimal path approach (1996)

A new boundary detection approach for shape modeling is presented. It detects the global minimum of an active contour model's energy between two points. Initialization is made easier and the curve cannot be trapped at a local minimum by spurious edges. We modify the "snake" energy by including the internal regularization term in the external potential term. Our method is based on the interpretation of the snake as a path of minimal length in a Riemannian metric, or as a path of minimal cost. We then make use of a new efficient numerical method to find the shortest path which is the global minimum of the energy among all paths joining the two end points. The method is extended to closed contours, given only one point on the objects boundary by using a topology-based saddle search routine. We show examples of our method applied to real aerial and medical images.
Translational Suppression of Atrophic Regulators by MicroRNA-23a Integrates Resistance to Skeletal Muscle Atrophy (2011)

Muscle atrophy is caused by accelerated protein degradation and occurs in many pathological states. Two muscle-specific ubiquitin ligases, MAFbx/atrogin-1 and muscle RING-finger 1 (MuRF1), are prominently induced during muscle atrophy and mediate atrophy-associated protein degradation. Blocking the expression of these two ubiquitin ligases provides protection against muscle atrophy. Here we report that miR-23a suppresses the translation of both MAFbx/atrogin-1 and MuRF1 in a 3'-UTR-dependent manner. Ectopic expression of miR-23a is sufficient to protect muscles from atrophy in vitro and in vivo. Furthermore, miR-23a transgenic mice showed resistance against glucocorticoid-induced skeletal muscle atrophy. These data suggest that suppression of multiple regulators by a single miRNA can have significant consequences in adult tissues.
Antisense Inhibition of Methylenetetrahydrofolate Reductase Reduces Cancer Cell Survival <i>In vitro</i> and Tumor Growth <i>In vivo</i> (2005)

Our results confirm that MTHFR inhibition decreases tumor growth and suggest that inhibition of MTHFR by antisense or small molecules may be a novel anticancer approach.
Application of the Kalman Filter to Health Monitoring of Gas Turbine Engines: a Sequential Approach to Robust Diagnosis (2005)

Avant toute chose, je voudrais adresser quelques mots de remerciements aux quelques personnes, et elles sont nombreuses, qui ont contribu l'aboutissement de ce travail de recherche.Je remercie le Professeur Olivier Lonard pour m'avoir propos ce sujet de recherche.Je tiens lui adresser ma reconnaissance pour la confiance et le soutien
Monitoring Changing Toxigenicity of a Cyanobacterial Bloom by Molecular Methods (2002)

Cyanobacterial blooms are potential health hazards in water supply reservoirs. This paper reports analyses of a cyanobacterial bloom by use of PCR-based methods for direct detection and identification of strains present and determination of their toxigenicity. Serial samples from Malpas Dam, in the New England region of Australia, were analyzed during a prolonged, mixed cyanobacterial bloom in the summer of 2000 to 2001. Malpas Dam has been shown in the past to have toxic blooms of Microcystis aeruginosa that have caused liver damage in the human population drinking from this water supply reservoir. Cyanobacterial genera were detected at low cell numbers by PCR amplification of the phycocyanin intergenic spacer region between the genes for the beta and alpha subunits. The potential for microcystin production was determined by PCR amplification of a gene in the microcystin biosynthesis pathway. The potential for saxitoxin production was determined by PCR amplification of a region of the 16S rRNA gene of Anabaena circinalis strains. Toxicity of samples was established by mouse bioassay and high-pressure liquid chromatography. We show that bloom components can be identified and monitored for toxigenicity by PCR more effectively than by other methods such as microscopy and mouse bioassay. We also show that toxigenic strains of Anabaena and Microcystis spp. occur at this site and that, over the course of the bloom, the cell types and toxicity changed. This work demonstrates that PCR detection of potential toxicity can enhance the management of a significant public health hazard.