gebhart/patrepeval huggingface dataset:
The Genetics of Psoriasis 2001 (2001)

Accumulating evidence indicates that psoriasis is a multifactorial disorder caused by the concerted action of multiple disease genes in a single individual, triggered by environmental factors. Some of these genes control the severity of multiple diseases by regulating inflammation and immunity (severity genes), whereas others are unique to psoriasis. Various combinations of these genes can occur even within a single family, accounting in large measure for the many clinical manifestations of psoriasis. The disease-causing variants (alleles) of these genes probably arose early in the history of modern humans. As a result, psoriasis disease alleles are common in the general population, have a worldwide distribution, and often share the same ancestral chromosome with neutral alleles at adjacent loci. This phenomenon, called linkage disequilibrium, explains why psoriasis is strongly associated with HLA-Cw6 worldwide, although HLA-Cw6 is unlikely to be the disease allele. Many unaffected individuals carry 1 or more disease alleles, but lack other genetic and/or environmental factors necessary to produce disease. This explains why psoriasis develops in only about 10% of HLA-Cw6-positive individuals, and why genome-wide linkage scans for psoriasis and other multifactorial genetic disorders have not been uniformly successful. The Human Genome Project is rapidly generating a catalog of human DNA sequence variations. This resource has already allowed precise linkage disequilibrium mapping of the major histocompatibility complex psoriasis gene to just beyond HLA-C, toward HLA-A. This gene is likely to be identified soon. Further development and use of linkage disequilibrium resources will provide a powerful tool for the identification of the remaining psoriasis genes.
Zero-data learning of new tasks (2008)

We introduce the problem of zero-data learning, where a model must generalize to classes or tasks for which no training data are available and only a description of the classes or tasks are provided. Zero-data learning is useful for problems where the set of classes to distinguish or tasks to solve is very large and is not entirely covered by the training data. The main contributions of this work lie in the presentation of a general formalization of zero-data learning, in an experimental analysis of its properties and in empirical evidence showing that generalization is possible and significant in this context. The experimental work of this paper addresses two classification problems of character recognition and a multitask ranking problem in the context of drug discovery. Finally, we conclude by discussing how this new framework could lead to a novel perspective on how to extend machine learning towards AI, where an agent can be given a specification for a learning problem before attempting to solve it (with very few or even zero examples).
A murine model of experimental metastasis to bone and bone marrow. (1988)

Bone is a common site of metastasis in human cancer. A major impediment to understanding the pathogenesis of bone metastasis has been the lack of an appropriate animal model. In this paper, we describe an animal model in which B16 melanoma cells injected in the left cardiac ventricle reproducibly colonize specific sites of the skeletal system of mice. Injection of 10(5) cells resulted in melanotic tumor colonies in most organs, including the skeletal system. Injection of 10(4) or fewer cells resulted in experimental metastasis almost entirely restricted to the skeletal system and ovary. In contrast, i.v. injection of 10(5) cells resulted in tumor colonies in the lung only. Left cardiac injection of 10(2) cells caused bone colonization, but the same number of cells injected i.v. did not colonize the lung. The number of bones with tumor colonies increased with increasing number of cells injected. Melanotic tumor colonies in the bone were characteristically distributed in the metaphysis of long bones and in the periphery of flat bones. Most animals developed paraplegia due to spinal cord compression by bony metastasis to the spine. Tumor colonization of bone occurred only in regions of bone containing hematopoietic bone marrow. This suggests that the injected tumor cells lodge, survive in the hematopoietic bone marrow environment, and grow to destroy adjacent bone. This experimental model of metastasis to bone will facilitate future studies of the pathophysiology and treatment of bone and bone marrow metastasis.
H.263+: video coding at low bit rates (1998)

We discuss the ITU-T H.263+ (or H.263 Version 2) low-bit-rate video coding standard. We first describe, briefly, the H.263 standard including its optional modes. We then address the 12 new negotiable modes of H.263+. Next, we present experimental results for these modes, based on our public-domain implementation (http:ilspmg.ece.ubc.ca). Tradeoffs among compression performance, complexity, and memory requirements for the H.263+ optional modes are discussed. Finally, results for mode combinations are presented.
Serodiagnosis of Human Bocavirus Infection (2008)

Respiratory infections due to HBoV are systemic, elicit B cell immune responses, and can be diagnosed serologically. Serological diagnoses correlate with high virus loads in the nasopharynx and with viremia. Serological testing is an accurate tool for disclosing the association of HBoV infection with disease.
Two-handed spatial interface tools for neurosurgical planning (1995)

A computer-based neurosurgical planning system lets neurosurgeons easily manipulate 3D data using their everyday skills from handling tools with two hands. It has been tested in actual surgical procedures.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
The insulin-like growth factor insulin system in epithelial ovarian cancer (2003)

Ovarian cancer is the most lethal of the gynecologic malignancies, in part because the lack of striking symptoms in many women often results in diagnosis only after the disease has spread. In order to develop rational biologic or pharmacologic therapies, it is important to understand the biology of both normal and malignant ovarian epithelial cells. This review will summarize current knowledge of the expression and function of proteins in the insulin-like growth factor system in ovarian epithelium, including the peptide ligands, receptors, binding proteins, and binding protein proteases. All components of this complex regulatory system are present in the ovarian epithelium and may play important roles in regulating the normal biology of ovarian surface epithelial cells or the transformed phenotype of ovarian carcinoma cells.
Routine vs Selective Invasive Strategies in Patients With Acute Coronary Syndromes (2005)

A routine invasive strategy exceeded a selective invasive strategy in reducing MI, severe angina, and rehospitalization over a mean follow-up of 17 months. But routine intervention was associated with a higher early mortality hazard and a trend toward a mortality reduction at follow-up. Future strategies should explore ways to minimize the early hazard and enhance later benefits by focusing on higher-risk patients and optimizing timing of intervention and use of proven therapies.
Natural course of chronic hepatitis C. (1993)

We studied 333 chronic hepatitis C patients to evaluate the natural course of this disease. Among 57 patients undergoing serial biopsies, 20 had chronic persistent hepatitis (CPH) at the first biopsy, and 10 of them progressed to chronic active hepatitis (CAH) or liver cirrhosis (LC) after 11 yr. Sixteen patients had CAH 2A, and this progressed to CAH 2B or LC in 10 cases over 9 yr. Among the 21 patients with CAH 2B, progression to LC was noted in 15 after 7 yr. Among the 100 patients observed for over 5 yr, the normalization of liver function for at least 3 yr was seen in only four patients. In two of these four patients, serum HCV-RNA was tested serially. Despite the sustained normalization of alanine aminotransferase levels, HCV-RNA continued to be detectable in one patient. We conclude that many patients with chronic hepatitis C eventually show progression of their disease after a long and symptomless course.
The human L-myc gene encodes multiple nuclear phosphoproteins from alternatively processed mRNAs. (1988)

The human proto-oncogene L-myc generates at least four different mRNAs by alternative RNA processing. We have identified two phosphorylated L-myc proteins with molecular masses of 60,000 and 66,000 daltons [p60L-myc(human) and p66L-myc(human)] in a small-cell carcinoma line expressing high levels of L-myc mRNA. These proteins have a short half-life and are localized to the nuclear matrix fraction, as previously reported for the c-myc and N-myc proteins. In vitro translation experiments demonstrated that both the p60 and p66 species are encoded by a 3.9-kilobase (kb) mRNA which retains intron 1, while only the p60 protein is translated from a 3.6-kb L-myc mRNA which has had intron 1 removed. While L-myc proteins [p32L-myc(human) and p37L-myc(human)] could be synthesized in vitro from 2.2-kb mRNA templates, no such proteins were detected by immunoprecipitation in vivo. These observations suggest that alternative RNA processing of the L-myc transcript could play a role in determining the steady-state levels of the p60L-myc and p66L-myc proteins.
Klotho and the Treatment of Human Malignancies (2020)

Klotho was first discovered as an anti-ageing protein linked to a number of age-related disease processes, including cardiovascular, renal, musculoskeletal, and neurodegenerative conditions. Emerging research has also demonstrated a potential therapeutic role for Klotho in cancer biology, which is perhaps unsurprising given that cancer and ageing share similar molecular hallmarks. In addition to functioning as a tumour suppressor in numerous solid tumours and haematological malignancies, Klotho represents a candidate therapeutic target for patients with these diseases, the majority of whom have limited treatment options. Here, we examine contemporary evidence evaluating the anti-neoplastic effects of Klotho and describe the modulation of downstream oncogenic signalling pathways, including Wnt/β-catenin, FGF, IGF1, PIK3K/AKT, TGFβ, and the Unfolded Protein Response. We also discuss possible approaches to developing therapeutic Klotho and consider technological advances that may facilitate the delivery of Klotho through gene therapy.
C2 Region–Derived Peptides of β-Protein Kinase C Regulate Cardiac Ca2+Channels (1997)

We have previously shown that alpha1-adrenergic activation inhibited beta-adrenergic-stimulated L-type Ca2+ current (I(Ca)). To determine the role of protein kinase C (PKC) in this regulation, the inositol trisphosphate pathway was bypassed by direct activation of PKC with 4beta-phorbol 12-myristate 13-acetate (PMA). To minimize Ca2+-induced Ca2+ inactivation, Ba2+ current (I(Ba)) was recorded through Ca2+ channels in adult rat ventricular myocytes. We found that PMA (0.1 micromol/L) consistently inhibited basal I(Ba) by 40.5+/-7.4% and isoproterenol (ISO, 0.1 micromol/L)-stimulated I(Ba) by 48.9+/-7.8%. These inhibitory effects were not observed with the inactive phorbol ester analogue alpha-phorbol 12,13-didecanoate (0.1 micromol/L). To identify the PKC isozymes that mediate these PMA effects, we intracellularly applied peptide inhibitors of a subclass of PKC isozymes, the C2-containing cPKCs. These peptides (betaC2-2 and betaC2-4) specifically inhibit the translocation and function of C2-containing isozymes (alpha-PKC, betaI-PKC, and betaII-PKC), but not the C2-less isozymes (delta-PKC and epsilon-PKC). We first used the pseudosubstrate peptide (0.1 micromol/L in the pipette), which inhibits the catalytic activity of all the PKC isozymes, and found that PMA-induced inhibition of ISO-stimulated I(Ba) was reduced to 16.8+/-7.4% but was not affected by the scrambled pseudosubstrate peptide. The effects of PMA on basal and ISO-stimulated I(Ba) were then determined in the presence of C2-derived peptides or control peptides. When the pipette contained 0.1 micromol/L of betaC2-2 or betaC2-4, PMA-induced inhibition of basal I(Ba) was 26.1+/-4.5% and 23.6+/-2.2%, respectively. Similarly, ISO-stimulated I(Ba) was inhibited by 29.9+/-6.6% and 29.3+/-7.8% in the presence of betaC2-2 and betaC2-4, respectively. In contrast, there was no significant change in the effect of PMA in the presence of control peptides, scrambled betaC2-4, or pentalysine. Finally, PMA-induced inhibition of basal and ISO-stimulated I(Ba) was almost completely abolished in cells dialyzed with both betaC2-2 and betaC2-4. Together, these data suggest a role for C2-containing isozymes in mediating PMA-induced inhibition of L-type Ca2+ channel activity.
Partial Purification and Characterization of a CAAX-Motif--Specific Protease from Bovine Brain Using a Novel Fluorometric Assay (1997)

Proteolytic trimming of isoprenylated proteins, including Ras, at the C-terminal CAAX motifs is a key event in their activation. However, the protease responsible for the proteolysis has not been well characterized yet. In this study, we established a novel assay method for the enzyme using a fluorescent substrate, dansyl(Dns)-KSKTKC(S-farnesyl)VIM, with which we can assess the proteolytic activity with high sensitivity and more easily than by the former assay methods using radio-labeled substrates. Using this assay method, we purified the protease 104-fold from bovine brain microsomal membranes by Sepharose CL-6B gel filtration and DE-52 chromatography. The partially purified enzyme was shown to be an endoprotease specific to the farnesylated peptide and to have a K(m) value of 1.0 microM for Dns-KSKTKC(S-farnesyl)VIM. o-Phenanthroline and zinc chloride strongly inhibited the activity. Interestingly, however, m- and p-phenanthrolines were as effective as o-phenanthroline, indicating that the inhibition by o-phenanthroline is not simply due to its chelating action. The molecular mass of the protease was deduced to be 480 kDa by gel filtration. The enzymatic activity was lost during further attempts at chromatographic purification, but was partially recovered by mixing the chromatographic fractions which had apparently lost the activity. These results suggest that this protease consists of multiple subunits.
Effect of surface modification on the reactivity of MCF-supported IndaBOX (2005)

MCF-immobilized indaBOX-copper complexes, which show high enantioselectivities in asymmetric Diels-Alder and cyclopropanation reactions and have reactivities strongly affected by their environment, were prepared using various linker groups and silanol capping agents.
Synthesis of Radiopharmaceuticals via Organotin Intermediates (1996)

The basic concepts and uses of organotin intermediates in the rapidly growing domain of radiopharmaceutical chemistry are reviewed. Organotin intermediates can readily be prepared, and radiohalodestannylation is both efficient and site selective to give labeled products in good yields and high specific activities.
Exosomes: The Future of Biomarkers in Medicine (2013)

Exosomes are nanovesicles secreted into the extracellular environment upon internal vesicle fusion with the plasma membrane. The molecular content of exosomes is a fingerprint of the releasing cell type and of its status. For this reason, and because they are released in easily accessible body fluids such as blood and urine, they represent a precious biomedical tool. A growing body of evidence suggests that exosomes may be used as biomarkers for the diagnosis and prognosis of malignant tumors. This article focuses on the exploitation of exosomes as diagnostic tools for human tumors and discusses possible applications of the same strategies to other pathologies, such as neurodegenerative diseases.
Microbial biochemistry, physiology, and biotechnology of hyperthermophilicThermotogaspecies (2006)

High-throughput sequencing of microbial genomes has allowed the application of functional genomics methods to species lacking well-developed genetic systems. For the model hyperthermophile Thermotoga maritima, microarrays have been used in comparative genomic hybridization studies to investigate diversity among Thermotoga species. Transcriptional data have assisted in prediction of pathways for carbohydrate utilization, iron-sulfur cluster synthesis and repair, expolysaccharide formation, and quorum sensing. Structural genomics efforts aimed at the T. maritima proteome have yielded hundreds of high-resolution datasets and predicted functions for uncharacterized proteins. The information gained from genomics studies will be particularly useful for developing new biotechnology applications for T. maritima enzymes.
Data Compression Using Dynamic Markov Modelling (1987)

A method of dynamically constructing Markov chain models that describe the characteristics of binary messages is developed. Such models can be used to predict future message characters and can therefore be used as a basis for data compression. To this end, the Markov modelling technique is combined with Guazzo's arithmetic coding scheme to produce a powerful method of data compression. The method has the advantage of being adaptive: messages may be encoded or decoded with just a single pass through the data. Experimental results reported here indicate that the Markov modelling approach generally achieves much better data compression than that observed with competing methods on typical computer data.
The reciprocal relationship of thrombopoietin (c-Mpl ligand) to changes in the platelet mass during busulfan-induced thrombocytopenia in the rabbit (1995)

Thrombopoietin (c-Mpl ligand) has recently been purified and is considered to be the humoral regulator of platelet production. To see whether this molecule possessed the physiologic characteristics necessary to mediate the feed-back loop between blood platelets and the bone marrow megakaryocytes, we determined the relationship between blood levels of thrombopoietin and changes in the circulating platelet mass. We developed a model of nonimmune thrombocytopenia in rabbits by the subcutaneous administration of busulfan. Compared with pretreatment plasma, plasma taken from all thrombocytopenic rabbits at their platelet nadir contained increased amounts of thrombopoietin. All of this activity was neutralized by soluble c-Mpl receptor. We subsequently measured the level of thrombopoietin in the circulation over the entire time course after the administration of busulfan. As the platelet mass declined, levels of thrombopoietin increased inversely and proportionally and peaked during the platelet nadir. With return of the platelet mass toward normal, thrombopoietin levels decreased accordingly. When platelets were transfused into thrombocytopenic rabbits near the time of their platelet count nadir, the elevated levels of thrombopoietin decreased. In addition, platelets were observed to remove thrombopoietin from thrombocytopenic plasma in vitro. These results confirm that thrombopoietin is the humoral mediator of megakaryocytopoiesis and suggest that the platelet mass may directly play a role in regulating the circulating levels of this factor.
NMOS drive current reduction caused by transistor layout and trench isolation induced stress (2003)

This paper describes a previously unreported phenomenon wherein NMOS transistors of identical gate length exhibit a significant sensitivity to layout. Drive current may be reduced up to 13%, depending on diffusion overlap of gate. Mobility reduction, induced by stress from the trench isolation edge, is the root cause of the performance degradation. PMOS devices are not affected. Simulation results show that stress varies strongly with distance from the trench edge, and with overall diffusion size. Stress is also a major component of narrow-width effects, and explains why Idsat scaling with W differs for NMOS and PMOS devices.
Three-dimensional optical data storage in a fluorescent dye-doped photopolymer (2000)

We propose a new, to our knowledge, monolithic multilayer optical storage medium in which data may be stored through the diffusional redistribution of fluorescent molecules within a polymer host. The active portion of the medium consists of a photopolymer doped with a fluorescent dye that is polymerized at the focal point of a high-numerical-aperture lens. We believe that as fluorescent molecules bond to the polymer matrix they become more highly concentrated in the polymerized regions, resulting in the modulated data pattern. Since data readout is based on detection of fluorescence rather than index modulation as in other photopolymer-based memories, the problems of media shrinkage and optical scatter are of less concern. An intensity threshold observed in the recording response of this material due to the presence of inhibitor molecules in the photopolymer allows for the three-dimensional confinement of recorded bits and therefore multilayer recording. The nonlinear recording characteristics of this material were investigated through a simple model of photopolymerization and diffusion and verified experimentally. Both single-layer and multilayer recordings were demonstrated.
A glycerol-3-phosphate dehydrogenase-deficient mutant of Saccharomyces cerevisiae expressing the heterologous XYL1 gene (1996)

The gene XYL1, encoding a xylose reductase, from Pichia stipitis was transformed into a mutant of Saccharomyces cerevisiae incapable of glycerol production because of deletion of the genes GPD1 and GPD2. The transformed strain was capable of anaerobic glucose conversion in the presence of added xylose, indicating that the xylose reductase reaction can fulfill the role of the glycerol-3-phosphate dehydrogenase reaction as a redox sink. The specific xylitol production rate obtained was 0.38 g g-1 h-1.
Integrated perception with recurrent multi-task neural networks (2016)

Modern discriminative predictors have been shown to match natural intelligences in specific perceptual tasks in image classification, object and part detection, boundary extraction, etc. However, a major advantage that natural intelligences still have is that they work well for "all" perceptual problems together, solving them efficiently and coherently in an "integrated manner". In order to capture some of these advantages in machine perception, we ask two questions: whether deep neural networks can learn universal image representations, useful not only for a single task but for all of them, and how the solutions to the different tasks can be integrated in this framework. We answer by proposing a new architecture, which we call "MultiNet", in which not only deep image features are shared between tasks, but where tasks can interact in a recurrent manner by encoding the results of their analysis in a common shared representation of the data. In this manner, we show that the performance of individual tasks in standard benchmarks can be improved first by sharing features between them and then, more significantly, by integrating their solutions in the common representation.
Partially-depleted SOI technology for digital logic (2003)

This partially-depleted (PD) silicon on insulator (SOI) technology results in 20-35% performance gain over a comparable bulk technology. A number of SOI-unique effects that complicate device and circuit design are discussed, along with possible remedies. A fully functional 32 bit microprocessor, operating at >500 MHz, demonstrates this SOI technology.
Flexible baseband transmitter for OFDM (2003)

To fully utilize the available spectrum for a wireless communication system it is feasible to adapt to different situations on the channel. In this paper a flexible OFDM transmitter is presented together with basic theory behind OFDM transmission. It is shown that high flexibility can be obtained with a reasonable amount of additional hardware. Part of the design, the FFT-processor, has already been fabricated and measurement results are presented.