gebhart/patrepeval huggingface dataset:
Vitamin D: A millenium perspective (2003)

Vitamin D is one of the oldest hormones that have been made in the earliest life forms for over 750 million years. Phytoplankton, zooplankton, and most plants and animals that are exposed to sunlight have the capacity to make vitamin D. Vitamin D is critically important for the development, growth, and maintenance of a healthy skeleton from birth until death. The major function of vitamin D is to maintain calcium homeostasis. It accomplishes this by increasing the efficiency of the intestine to absorb dietary calcium. When there is inadequate calcium in the diet to satisfy the body's calcium requirement, vitamin D communicates to the osteoblasts that signal osteoclast precursors to mature and dissolve the calcium stored in the bone. Vitamin D is metabolized in the liver and then in the kidney to 1,25-dihydroxyvitamin D [1,25(OH)(2)D]. 1,25(OH)(2)D receptors (VDR) are present not only in the intestine and bone, but in a wide variety of other tissues, including the brain, heart, stomach, pancreas, activated T and B lymphocytes, skin, gonads, etc. 1,25(OH)(2)D is one of the most potent substances to inhibit proliferation of both normal and hyperproliferative cells and induce them to mature. It is also recognized that a wide variety of tissues, including colon, prostate, breast, and skin have the enzymatic machinery to produce 1,25(OH)(2)D. 1,25(OH)(2)D and its analogs have been developed for treating the hyperproliferative disease psoriasis. Vitamin D deficiency is a major unrecognized health problem. Not only does it cause rickets in children, osteomalacia and osteoporosis in adults, but may have long lasting effects. Chronic vitamin D deficiency may have serious adverse consequences, including increased risk of hypertension, multiple sclerosis, cancers of the colon, prostate, breast, and ovary, and type 1 diabetes. There needs to be a better appreciation of the importance of vitamin D for overall health and well being.
Cardiovascular disease and osteoporosis: is there a link between lipids and bone? (2002)

Atherosclerotic heart disease and osteoporosis are both diseases of old age. Evidence is accumulating for a link between vascular and bone disease. Calcification is a common feature of atherosclerotic plaques, and osteoporosis is associated with both atherosclerosis and vascular calcification. However, the relationship of vascular calcification to the pathogenesis of atherosclerosis remains incompletely understood. Hormone replacement therapy has beneficial effects in the prevention of both atherosclerosis and osteoporosis. Bisphosphonates inhibit bone resorption and are used in the treatment of osteoporosis, whereas the statins inhibit cholesterol biosynthesis and are used for the treatment of atherosclerosis. We have reviewed recent advances in the knowledge of the actions of bisphosphonates and statins at the cellular, molecular and end-organ levels in order to examine the relationship between cardiovascular disease and osteoporosis and to explore the link between lipids and bones. These studies suggest that the mechanism of actions of these two classes of drugs at the cellular level may not be mutually exclusive. There are some early clinical data to complement these findings, suggesting that statins increase bone density and bisphosphonates may have a beneficial effect in vivo on plasma lipid levels and on the atherosclerotic process. Properly designed prospective studies that examine the effect of statins on bone density and fractures, as well as the effects of bisphosphonates on lipid profiles, atherosclerotic progression and cardiovascular morbidity and mortality are needed to define clearly the clinical effects and potential new roles for these agents.
Clustering of dendritic cells, helper T lymphocytes, and histocompatible B cells during primary antibody responses in vitro. (1984)

Mouse spleen suspensions generate discrete cell clusters within 1-2 d of culture. We have isolated these clusters by velocity sedimentation to study their contribution to primary antibody responses. Clusters represent approximately 5% of the starting spleen cells and consist of 20-50% B cells, 20-50% T cells, and 10-20% dendritic cells (DC). When the cultures are stimulated with thymus-dependent antigens, like heterologous red cells or dinitrophenyl-keyhole limpet hemocyanin (DNP-KLH), the clusters are the principal site for the development of plaque-forming cells (PFC). Noncluster fractions form few PFC and only when supplemented with fresh DC. PFC responses in all cases are antigen specific. B cells cluster only in the presence of T cells and DC (1 DC/200 B-T cell mixtures) and only after encountering specific antigen. The elimination of either DC or Lyt-1+2- T cells, with monoclonal antibody and complement, ablates B cell development into PFC. PFC responses are restored with antigen-nonspecific helper factors formed in the syngeneic mixed leukocyte reaction between DC and T cells. Since PFC to DNP-KLH do not develop de novo when B cells are exposed to antigen and helper factors, anti-DNP PFC precursors must be stimulated within clusters to become responsive to helper factors. PFC development within clusters is restricted by the major histocompatibility complex (MHC). When DC and T cells are from strain P1, then P1 but not P2 B cells develop into PFC; when DC are from strain P2 and T cells from strain P1, strain P2 B cells are selected to become PFC in clusters. The entry of B cells into clusters is itself MHC restricted, since P1 DC/T cells aggregate six times as many B cells from strain P1 as strain P2. Thus, clusters are the site in which DC, B, and T cells interact to generate PFC. One can use clusters to retrieve B cells that have been selected in an antigen-dependent, MHC-restricted fashion and to show that clustering B cells become responsive to soluble, polyclonal helper factors.
ON THE USE OF VERY LOW COST TERMINALS (1969)

This effort seeks to maximize the number of places (cities, buildings, rooms, desks,...) from which people can interact with digital computers in a meaningful way. Because of the extraordinary availability and low cost of the ordinary telephone, it was chosen as the corner-stone of the project. A set of possible applications were then identified. This applications include desk calculator services (scientific and business), information storage and retrieval (public assistance and private industry); and computer program development. For each category of applications, the identification of specific services is followed by a study of input/output language problems, economic considerations and human factor problems. These studies have involved the design and implementation of a specific hardware/ software system. Telephone signals are interfaced and multiplexed into an Interdata Model 14 computer in the same manner as teletype messages. Output is generated by a Cognitronics Speechmaker as a consequence of selection codes that are presented to a specially designed buffer. Requirements for large data collections and computational services are satisfied by a high speed connection to the University's central computing facility.
HLA‐DR, DQ antigens in North American Caucasians (1990)

HLA-DR, DQ specificities are determined by serological methods in 2,586 North American Caucasians. Antigen frequency, gene frequency and haplotype frequency are computed for each phenotype observed. The DR and DQ loci antigen distributions are well-fitted to a Hardy-Weinberg equilibrium (p greater than 0.25 for DR locus, p greater than 0.10 for DQ locus). All World Health Organization (WHO) recognized HLA-DR,DQ specificities were found except HLA-DRw18, which has been identified only in the black population. DR and DQ linkage disequilibria among recently defined splits is observed. The following DR and DQ associations are found: DR1 and DQw5; DR4 and DQw7, DQw8; DR7 and DQw2, DQw9; DR8 and DQw4, DQw6, DQw7; DR9 and DQw2, DQw9; DRw10 and DQw5; DRw11 and DQw6, DQw7; DRw12 and DQw5, DQw7; DRw13 and DQw6, DQw7; DRw14 and DQw5, DQW7; DRw15 and DQw6, DQw7; DRw16 and DQw5; DRw17 and DQw2. In this large study population, the following unusual DR and DQ associations are found: DR4, DQw2; DR4, DQw1; DR1, DQw7; DR7, DQw5; DRw17, DQw6; and other unusual haplotype phenotypes containing DRX, DQX.
Diels–Alder reactions of trichloro-1,2,4-triazine: intramolecular additions with 1,5 and 1,6 dienes (1996)

Trichloro-1,2,4-triazine reacts with cycloheptene and cyclododecene to give the 2,6-dichloropyridine derivatives 6 and 7 via an intermediate dihydropyridine formed by Diels–Alder addition and loss of N2, and with cyclopenta-1,3-diene and indene by addition of a second molecule of alkene to the intermediate dihydropyridine. Bicyclo [2.2.1]hepta-2,5-diene and quadricyclane give mainly 2,3,6-trichloropyridine by loss of cyclopentadiene from the intermediate dihydropyridine. With hexa-1,5-diene, the dihydropyridine is trapped by an intramolecular Diels–Alder reaction, forming tricyclic compounds 17 and 18. With diallyl ether, the dihydropyridine partly undergoes intramolecular cycloaddition to give 23 and partly [1,5]-sigmatropic shift of hydrogen before intramolecular cycloaddition to give 25. With cyclododeca-1,5,9-triene formation of pyridine derivatives is incomplete and the immediate precursor can be trapped with water.
88. A new reaction of hydrazones (1962)

D. H. R. Barton, R. E. O'Brien and S. Sternhell, J. Chem. Soc., 1962, 470 DOI: 10.1039/JR9620000470
Sucrose Uptake by Sugar Beet Tap Root Tissue (1979)

Sucrose uptake by discs of mature sugar beet root tissue incubated in [(14)C]-sucrose exhibited nonsaturating kinetics over the concentration range of 1 to 500 millimolar. Uptake was inhibited by dinitrophenol, sodium cyanide, low O(2), and penetrating sulfhydryl inhibitors. ATPase inhibitors, sodium fluoride, and oligomycin reduced uptake by 20 and 40%, respectively. Uptake as asymmetrically labeled sucrose ([(14)C]glucose) occurred with approximately 80% retention of asymmetry, indicating a nonhydrolytic pathway. Uptake was against a concentration gradient and required metabolic energy.Glucose and fructose uptake exhibited typical saturation kinetics but rates of uptake were lower than that of sucrose, particularly at high concentration. Glucose strongly inhibited the uptake of sucrose and fructose but sucrose and fructose had little effect on the rate of glucose uptake. It is proposed that a major protion of the sucrose movement between its free space and vacuole occurs via a nonsaturating carrier at sites where the plasmalemma and tonoplast are appressed.
The Microtubule-associated Protein Tau Is Extensively Modified with O-linked N-acetylglucosamine (1996)

Tau is a family of phosphoproteins that are important in modulating microtubule stability in neurons. In Alzheimer's disease tau is abnormally hyperphosphorylated, no longer binds microtubules, and self-assembles to form paired helical filaments that likely contribute to neuron death. Here we demonstrate that normal bovine tau is multiply modified by Ser(Thr)-O-linked N-acetylglucosamine, a dynamic and abundant post-translational modification that is often reciprocal to Ser(Thr)-phosphorylation. O-GlcNAcylation of tau was demonstrated by blotting with succinylated wheat germ agglutinin and by probing with bovine milk beta(1,4)galactosyltransferase. Structural analyses confirm the linkage and the saccharide structure. Tau splicing variants are multiply O-GlcNAcylated at similar sites, with an average stoichiometry of greater than 4 mol of O-linked N-acetylglucosamine/mol of tau. However, the number of sites occupied appears to be greater than 12, suggesting substoichiometric occupancy at any given site. A similar relationship between average stoichiometry and site-occupancy has also been described for the phosphorylation of tau. Site-specific or stoichiometric changes in O-GlcNAcylation may not only modulate tau function but may also play a role in the formation of paired helical filaments.
Microfluidic Model Porous Media: Fabrication and Applications (2018)

Complex fluid flow in porous media is ubiquitous in many natural and industrial processes. Direct visualization of the fluid structure and flow dynamics is critical for understanding and eventually manipulating these processes. However, the opacity of realistic porous media makes such visualization very challenging. Micromodels, microfluidic model porous media systems, have been developed to address this challenge. They provide a transparent interconnected porous network that enables the optical visualization of the complex fluid flow occurring inside at the pore scale. In this Review, the materials and fabrication methods to make micromodels, the main research activities that are conducted with micromodels and their applications in petroleum, geologic, and environmental engineering, as well as in the food and wood industries, are discussed. The potential applications of micromodels in other areas are also discussed and the key issues that should be addressed in the near future are proposed.
Synthetic applications of non‐polymerizable monomers in living carbocationic polymerization (1995)

Abstract The foundation and methodology of using highly reactive but non‐polymerizable monomers in living cationic polymerizations is introduced. The chemistry and kinetics of 1,1‐diphenylethylene (DPE) addition to living polyisobutylene (PIB) in methyl chloride/n‐hexanes 40/60 v/v at −80°C is reported. Monoaddition occurred even when large excess of 1,1‐diphenylethylene was used. The methanol quenched polymer of the DPE capped PIB carried ‐OCH 3 functionality exclusively, suggesting that the diphenyl alkyl chain‐ends are completely ionized, which was confirmed by conductivity studies. By in‐situ functionalization using soft nucleophiles a variety of functional groups were obtained, most notably ester upon reaction with silyl ketene acetal. It was found that the diphenyl carbenium ion is an efficient initiating species for the polymerization of reactive monomers such as vinyl ethers and α‐methylstyrene. The synthesis of PIB based block copolymers was accomplished by sequential monomer addition, using para‐methylstyrene, α‐methylstyrene or isobutyl vinyl ether as the second monomer. It involved capping with DPE, followed by tailoring the Lewis acidity to the reactivity of the second monomer by the addition of titanium(IV) alkoxide, by replacing the Lewis acid with a weaker one or by the use of a common ion salt. PIB‐b‐PMMA was obtained by the combination of living cationic and group transfer (GTP) polymerizations.
Promotion and control of selective adhesion and proliferation of endothelial cells on polymer surface by carbon deposition (1996)

The adhesion and proliferation of endothelial cells can be drastically improved when cultivated on a carbon-deposited polymer surface. When the surface of segmented polyurethane, in which endothelial cells are not capable of proliferating, is modified by carbon deposition, cell adhesion and proliferation occurred selectively on the carbon-deposited region. Carbon deposition to a tissue culture-treated polystyrene surface on which cells are capable of proliferating further promoted cell spreading and proliferation. Cell patterning on carbon-deposited segmented polyurethane was also attempted by controlling the direction or region of cell proliferation. Carbon deposition onto the polymer surface brought about a decrease in the water contact angle of the surface. Precoating fibronectin or laminin on the carbon-deposited polymer surface brought about cell adhesion and proliferation in the carbon-deposited region, but not in the non-carbon-deposited region. Our data suggest that promotion of cell proliferation on a carbon-deposited surface is probably due to selective adhesion of adhesive proteins to the surface.
Automatic classification of digestive organs in wireless capsule endoscopy videos (2007)

Wireless Capsule Endoscopy (WCE) allows a physician to examine the entire small intestine without any surgical operation. With the miniaturization of wireless and camera technologies the ability comes to view the entire gestational track with little effort. Although WCE is a technical break-through that allows us to access the entire intestine without surgery, it is reported that a medical clinician spends one or two hours to assess a WCE video, It limits the number of examinations possible, and incur considerable amount of costs. To reduce the assessment time, it is critical to develop a technique to automatically discriminate digestive organs such as esophagus, stomach, small intestinal (i.e., duodenum, jejunum, and ileum) and colon. In this paper, we propose a novel technique to segment a WCE video into these anatomic parts based on color change pattern analysis. The basic idea is that the each digestive organ has different patterns of intestinal contractions that are quantified as the features. We present the experimental results that demonstrate the effectiveness of the proposed method.
Mammary Development and Breast Cancer: The Role of Stem Cells (2011)

The mammary gland is a highly regenerative organ that can undergo multiple cycles of proliferation, lactation and involution, a process controlled by stem cells. The last decade much progress has been made in the identification of signaling pathways that function in these stem cells to control self-renewal, lineage commitment and epithelial differentiation in the normal mammary gland. The same signaling pathways that control physiological mammary development and homeostasis are also often found deregulated in breast cancer. Here we provide an overview on the functional and molecular identification of mammary stem cells in the context of both normal breast development and breast cancer. We discuss the contribution of some key signaling pathways with an emphasis on Notch receptor signaling, a cell fate determination pathway often deregulated in breast cancer. A further understanding of the biological roles of the Notch pathway in mammary stem cell behavior and carcinogenesis might be relevant for the development of future therapies.
Urokinase-related proteins in human urine. Isolation and characterization of single-chain urokinase (pro-urokinase) and urokinase-inhibitor complex. (1986)

Urokinase-related proteins were purified from 60liter batches of human urine collected into the protease inhibitor aprotinin to prevent proteolytic degradation. Three homogeneous species were obtained by chromatography on zinc chelate-Sepharose, SP-Sephadex C-50, Sephadex G-100, benzamidine-Sepharose, and immunoad~rption on a murine anti-human urokinase monoclonal antibody. One urokinase-related protein with M, 95,000 representing a complex of two-chain urokinase with an inhibitor accounts for about 70% of the total urokinase-related antigen in urine. Nucleophilic agents dissociate the complex into active twochain urokinase and a protein with M, 45,000-50,O~~ which is immunologically distinct from urokinase. Approximately 25% of the urinary urokinase-related antigen represents a single-chain molecule with Mr 54,000. This highly purified single-chain molecule was obtained with a yield of 5 gglliter of urine. Only trace amounts (<5%) of the uroklnase-related antigen were recovered as free two-chain urokinase.
Autophagy Is Disrupted in a Knock-in Mouse Model of Juvenile Neuronal Ceroid Lipofuscinosis (2006)

Juvenile neuronal ceroid lipofuscinosis is caused by mutation of a novel, endosomal/lysosomal membrane protein encoded by CLN3. The observation that the mitochondrial ATPase subunit c protein accumulates in this disease suggests that autophagy, a pathway that regulates mitochondrial turnover, may be disrupted. To test this hypothesis, we examined the autophagic pathway in Cln3(Deltaex7/8) knock-in mice and CbCln3(Deltaex7/8) cerebellar cells, accurate genetic models of juvenile neuronal ceroid lipofuscinosis. In homozygous knock-in mice, we found that the autophagy marker LC3-II was increased, and mammalian target of rapamycin was down-regulated. Moreover, isolated autophagic vacuoles and lysosomes from homozygous knock-in mice were less mature in their ultrastructural morphology than the wild-type organelles, and subunit c accumulated in autophagic vacuoles. Intriguingly, we also observed subunit c accumulation in autophagic vacuoles in normal aging mice. Upon further investigation of the autophagic pathway in homozygous knock-in cerebellar cells, we found that LC3-positive vesicles were altered and overlap of endocytic and lysosomal dyes was reduced when autophagy was stimulated, compared with wildtype cells. Surprisingly, however, stimulation of autophagy did not significantly impact cell survival, but inhibition of autophagy led to cell death. Together these observations suggest that autophagy is disrupted in juvenile neuronal ceroid lipofuscinosis, likely at the level of autophagic vacuolar maturation, and that activation of autophagy may be a prosurvival feedback response in the disease process.
Adaptive 3-D object recognition from multiple views (1992)

The authors address the problem of generating representations of 3-D objects automatically from exploratory view sequences of unoccluded objects. In building the models, processed frames of a video sequence are clustered into view categories called aspects, which represent characteristic views of an object invariant to its apparent position, size, 2-D orientation, and limited foreshortening deformation. The aspects as well as the aspect transitions of a view sequence are used to build (and refine) the 3-D object representations online in the form of aspect-transition matrices. Recognition emerges as the hypothesis that has accumulated the maximum evidence at each moment. The 'winning' object continues to refine its representation until either the camera is redirected or another hypothesis accumulates greater evidence. This work concentrates on 3-D appearance modeling and succeeds under favorable viewing conditions by using simplified processes to segment objects from the scene and derive the spatial agreement of object features.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Analysis of Injection Site Reactions across Four Placebo Controlled Trials of Erenumab for Migraine Prevention (P4.116) (2018)

To assess the frequency of injection site reaction-related adverseevents (ISR-AEs) observed in erenumab clinical trials in subjects with eitherepisodic or chronic migraine.
Esomeprazole tabletvsomeprazole capsule in treating erosive esophagitis (2005)

Esomeprazole 40 mg is an effective and safe drug at least comparable to omeprazole in treating Chinese EE patients.