gebhart/patrepeval huggingface dataset:
Integrated Metabolomics Assessment of Human Dried Blood Spots and Urine Strips (2017)

(1) Background: Interest in the application of metabolomics toward clinical diagnostics development and population health monitoring has grown significantly in recent years. In spite of several advances in analytical and computational tools, obtaining a sufficient number of samples from patients remains an obstacle. The dried blood spot (DBS) and dried urine strip (DUS) methodologies are a minimally invasive sample collection method allowing for the relative simplicity of sample collection and minimal cost. (2) Methods: In the current report, we compared results of targeted metabolomics analyses of four types of human blood sample collection methods (with and without DBS) and two types of urine sample collection (DUS and urine) across several parameters including the metabolite coverage of each matrix and the sample stability for DBS/DUS using commercially available Whatman 903TM paper. The DBS/DUS metabolomics protocols were further applied to examine the temporal metabolite level fluctuations within hours and days of sample collection. (3) Results: Several hundred polar metabolites were monitored using DBS/DUS. Temporal analysis of the polar metabolites at various times of the day and across days identified several species that fluctuate as a function of day and time. In addition, a subset of metabolites were identified to be significantly altered across hours within a day and within successive days of the week. (4) Conclusion: A comprehensive DBS/DUS metabolomics protocol was developed for human blood and urine analyses. The described methodology demonstrates the potential for enabling patients to contribute to the expanding bioanalytical demands of precision medicine and population health studies.
Caesarean section delivery and the risk of allergic disorders in childhood (2005)

Caesarean sections may be associated with an increased risk of developing AR in childhood.
The GCN2 homologue in Arabidopsis thaliana interacts with uncharged tRNA and uses Arabidopsis eIF2α molecules as direct substrates (2012)

Phosphorylation of eIF2α is an important strategy for living organisms to adapt to metabolic and physiological changes that are often associated with external stimuli. GCN2 is one of the well-studied eIF2α kinases in yeast and mammals, which is responsible for the survival of the organism under amino acid starvation. Despite the downstream reactions being quite divergent, AtGCN2 exhibits a high primary sequence similarity to its yeast and animal counterparts. In this study, we provide experimental evidence to show that AtGCN2 shares similar biochemical properties to the yeast and animal homologues. Our in vitro assays demonstrate the binding of the C-terminus of AtGCN2 to uncharged tRNA molecules and the enzymatic activities of AtGCN2 on both eIF2α homologues in A. thaliana, thus providing essential information for further understanding the functions of plant general control non-repressible (GCN) homologues.
A World Wide Web Telerobotic Remote Environment Browser (1995)

Robots provide us with a means to move around in, visualize, and interact with a remote physical world. We have exploited these physical properties coupled with the growing diversity of users on the World Wide Web (WWW) [1] to create a WWW-based active telerobotic remote environment browser. This browser, called Mechanical Gaze, allows multiple remote WWW users to actively control up to six degrees of freedom of a robot arm with an attached camera to explore a real remote environment. The initial environment is a collection of physical museum exhibits which WWW users can view at various positions, orientations, and levels of resolution.
Neogenesis of cerebellar Purkinje neurons from gene-marked bone marrow cells in vivo (2001)

The versatility of stem cells has only recently been fully recognized. There is evidence that upon adoptive bone marrow (BM) transplantation (BMT), donor-derived cells can give rise to neuronal phenotypes in the brains of recipient mice. Yet only few cells with the characteristic shape of neurons were detected 1-6 mo post-BMT using transgenic or newborn mutant mice. To evaluate the potential of BM to generate mature neurons in adult C57BL/6 mice, we transferred the enhanced green fluorescent protein (GFP) gene into BM cells using a murine stem cell virus-based retroviral vector. Stable and high level long-term GFP expression was observed in mice transplanted with the transduced BM. Engraftment of GFP-expressing cells in the brain was monitored by intravital microscopy. In a long-term follow up of 15 mo post-BMT, fully developed Purkinje neurons were found to express GFP in both cerebellar hemispheres and in all chimeric mice. GFP-positive Purkinje cells were also detected in BM chimeras from transgenic mice that ubiquitously express GFP. Based on morphologic criteria and the expression of glutamic acid decarboxylase, the newly generated Purkinje cells were functional.
Stepwise proteolysis liberates tau fragments that nucleate the Alzheimer-like aggregation of full-length tau in a neuronal cell model (2007)

Tau is a highly soluble protein, yet it aggregates abnormally in Alzheimer's disease. Here, we address the question of proteolytic processing of tau and the nucleation of aggregates by tau fragments. We show in neuronal cell models that fragments of the repeat domain of tau containing mutations of FTDP17 (frontotemporal dementia with parkinsonism linked to chromosome 17), produced by endogenous proteases, can induce the aggregation of full-length tau. Fragments are generated by successive cleavages, first N-terminally between K257 and S258, then C-terminally around residues 353-364; conversely, when the N-terminal cleavage is inhibited, no fragmentation and aggregation takes place. The C-terminal truncation and the coaggregation of fragments with full-length tau depends on the propensity for beta-structure. The aggregation is modulated by phosphorylation but does not depend on it. Aggregation but not fragmentation as such is toxic to cells; conversely, toxicity can be prevented by inhibiting either aggregation or proteolysis. The results reveal a novel pathway of abnormal tau aggregation in neuronal cells.
Spectral Properties of Fluorescent Dyes in Lecithin Vesicles (1976)

Three fluorescent dyes (a merocyanin, a cyanin and a modified umbeliferon) have been incorporated into vesicles from three different lecithins. Their absorption spectrum, emission spectrum and fluorescence polarization in the lipid vesicles has been studied and compared with the spectral properties in homogeneous organic solutions. The reactivity of lipid bound dyes with reagents in the aqueous phase was investigated. The location of various dyes in the lipid membrane and their use as indicators of phase transitions or membrane potentials are discussed.
The Colloid Chemical Approach to Nanostructured Materials** (1995)

Nanocrystalline particulate films , dispersions of nanoparticles in monolayers in which the inter‐particle distances can be controlled, and systems containing nanoparticles incorporated between the head groups of organic thin films (see Fig.) produced using a wet colloid‐chemical approach are reviewed. Size‐quantized metallic, magnetic, and semiconducting particles are cosnidered and the development of nanostructured devices discussed magnified image .
Hierarchical Edge Bundles: Visualization of Adjacency Relations in Hierarchical Data (2006)

A compound graph is a frequently encountered type of data set. Relations are given between items, and a hierarchy is defined on the items as well. We present a new method for visualizing such compound graphs. Our approach is based on visually bundling the adjacency edges, i.e., non-hierarchical edges, together. We realize this as follows. We assume that the hierarchy is shown via a standard tree visualization method. Next, we bend each adjacency edge, modeled as a B-spline curve, toward the polyline defined by the path via the inclusion edges from one node to another. This hierarchical bundling reduces visual clutter and also visualizes implicit adjacency edges between parent nodes that are the result of explicit adjacency edges between their respective child nodes. Furthermore, hierarchical edge bundling is a generic method which can be used in conjunction with existing tree visualization techniques. We illustrate our technique by providing example visualizations and discuss the results based on an informal evaluation provided by potential users of such visualizations.
Allelic loss in ovarian cancer (1993)

Loss of heterozygosity (LOH) was examined at 86 loci distributed on every chromosomal arm in 50 human ovarian tumors. Frequent allele losses were observed on chromosomes 13q (42%), 17p (42%), 17q (45%), and Xp (41%). Deletion mapping on chromosome 17 revealed a candidate gene on the long arm distal to D17S41/S74 for ovarian cancer which is distant from the locus for early onset breast cancer. LOH on chromosome 17q was found to be concordant with LOH on chromosomes 3p, 13q, 17p and Xp suggesting that it may be an early event in neoplastic development. These findings indicate that multiple tumor-suppressor genes for ovarian cancer possibly exist on chromosomes 13q, 17, and/or Xp and provide the basis for the identification of candidate gene(s) associated with ovarian cancer. The chromosomal mechanisms resulting in allele losses in ovarian cancer include deletion, deletion/duplication, mitotic recombination and monosomy, in concordance with the developed genetic model.
Concentration, Size Distribution, and Infectivity of Airborne Particles Carrying Swine Viruses (2015)

When pathogens become airborne, they travel associated with particles of different size and composition. Particle size determines the distance across which pathogens can be transported, as well as the site of deposition and the survivability of the pathogen. Despite the importance of this information, the size distribution of particles bearing viruses emitted by infectious animals remains unknown. In this study we characterized the concentration and size distribution of inhalable particles that transport influenza A virus (IAV), porcine reproductive and respiratory syndrome virus (PRRSV), and porcine epidemic diarrhea virus (PEDV) generated by acutely infected pigs and assessed virus viability for each particle size range. Aerosols from experimentally infected pigs were sampled for 24 days using an Andersen cascade impactor able to separate particles by size (ranging from 0.4 to 10 micrometer (μm) in diameter). Air samples collected for the first 9, 20 and the last 3 days of the study were analyzed for IAV, PRRSV and PEDV, respectively, using quantitative reverse transcription polymerase chain reaction (RT-PCR) and quantified as geometric mean copies/m(3) within each size range. IAV was detected in all particle size ranges in quantities ranging from 5.5x10(2) (in particles ranging from 1.1 to 2.1 μm) to 4.3x10(5) RNA copies/m(3) in the largest particles (9.0-10.0 μm). PRRSV was detected in all size ranges except particles between 0.7 and 2.1 μm in quantities ranging from 6x10(2) (0.4-0.7 μm) to 5.1x10(4) RNA copies/m(3) (9.0-10.0 μm). PEDV, an enteric virus, was detected in all particle sizes and in higher quantities than IAV and PRRSV (p < 0.0001) ranging from 1.3x10(6) (0.4-0.7 μm) to 3.5x10(8) RNA copies/m(3) (9.0-10.0 μm). Infectious status was demonstrated for the 3 viruses, and in the case of IAV and PRRSV, viruses were isolated from particles larger than 2.1 μm. In summary, our results indicated that airborne PEDV, IAV and PRRSV can be found in a wide range of particle sizes. However, virus viability is particle size dependent.
Selective Uptake of Indocyanine Green by Reticulocytes in Circulation (2003)

ICG strongly labels reticulocytes and weakly labels neutrophils. To the authors' knowledge, this is the first report of selective staining of reticulocytes by ICG.
Flexible organic solar cells composed of P3HT:PCBM using chemically doped graphene electrodes (2012)

Flexible organic solar cells (OSCs) composed of blended films of poly(3-hexylthiophene) (P3HT) and [6,6]-phenyl-C61-butyric acid methyl ester (PCBM) were fabricated and investigated with chemically doped multilayer graphene films as transparent and conducting electrodes on plastic substrates. The sheet resistance of the chemically doped graphene film was reduced to half of its original value, resulting in a significant performance enhancement of OSCs featuring doped graphene electrodes. Moreover, there was no substantial variation observed in the fill factor and power conversion efficiency values of the flexible OSCs under bending conditions. A power conversion efficiency of ~2.5% for flexible OSCs with doped graphene electrodes was observed under bending conditions, even up to a 5.2 mm bending radius.
Distinct roles of osteopontin in host defense activity and tumor survival during squamous cell carcinoma progression in vivo. (1998)

Secreted phosphoprotein 1 (spp1), the gene encoding osteopontin (OPN), is expressed in many human carcinomas, although its in vivo functions remain unclear. To delineate the role of OPN during tumor progression, we have subjected OPN null mutant mice to repeated applications of a mutagen/carcinogen to induce cutaneous squamous cell carcinoma. OPN null animals exhibited accelerated tumor growth and progression and had a greater number of metastases per animal compared with wild-type animals. However, metastases in the OPN null animals were significantly smaller than in controls. When injected into nude mice, the growth of OPN null tumor lines and the same lines engineered to reexpress spp1 recapitulated the growth differences observed in the progression study. These differences in tumor growth inversely correlated with the degree of macrophage infiltration. Slower-growing, OPN-producing tumors contained significantly more macrophages, although a higher proportion were mannose receptor positive, a characteristic of differentiated resting macrophages. In vitro, OPN null cell lines displayed decreased survival at clonal density compared with OPN-producing lines, an observation consistent with the smaller metastases of the OPN null mice. Overall, we provide evidence for a model where host-derived OPN acts as a macrophage chemoattractant, whereas tumor-derived OPN is able to inhibit macrophage function and enhances the growth or survival of metastases.
Isolation of cDNAs encoding the CD19 antigen of human and mouse B lymphocytes. A new member of the immunoglobulin superfamily. (1989)

The CD19 (B4) molecule is a m.w. 95,000 cell-surface protein of human B lymphocytes that is expressed before Ig and persists throughout differentiation. In this report, cDNA clones that encode the CD19 molecule were isolated and the amino acid sequence of CD19 was determined. A cDNA clone that selectively hybridized to RNA from CD19+ cell lines was selected from a human tonsilar cDNA library using differential hybridization. This cDNA was used to isolate additional cDNA clones. Four of the five longest cDNA clones isolated were sequenced and found to contain unique sequences presumed to be introns. One clone, pB4-19, was near full length (2.1 kb) and did not contain these putative introns. pB4-19 contained an 1685 bp open reading frame that could encode a protein of about 60 kDa. COS cells that were transfected with pB4-19 expressed a nascent cell surface structure reactive with the anti-B4 antibody. Immunoprecipitation of this structure from surface-iodinated COS cells with the anti-B4 antibody revealed a m.w. 85,000 protein. Northern blot analysis indicated that pB4-19 hybridized with a predominant mRNA species of 2.4 kb and a minor species of 1.5 kb, found in only CD19+ cells. The pre-B cell line, PB-697, also expressed four larger RNA species that hybridized with pB4-19. cDNA clones that encode the putative cytoplasmic portion (247 amino acids) of the mouse CD19 molecule were also isolated and found to be highly homologous (79 and 75%) with the human CD19 nucleotide and amino acid sequences. The deduced amino acid sequence of the CD19 cytoplasmic tail shared no significant homology with other known proteins but the putative extracellular region contained two Ig-like domains indicating that CD19 is a new member of the Ig superfamily.
Forecasting the global burden of Alzheimer's disease (2007)

We face a looming global epidemic of Alzheimer's disease as the world's population ages. Modest advances in therapeutic and preventive strategies that lead to even small delays in the onset and progression of Alzheimer's disease can significantly reduce the global burden of this disease.
Spanworm Control, 1988 (1989)

Abstract Materials were applied on 13 May (Test 1), 16 May (Test 2), and 3 Jun (Test 3) to 23- by 23-ft plots in crop-year blueberry fields at Township 19 (Tests 1 and 2) and Jonesboro (Test 3), Maine. There were 3 replications of each treatment in a randomized complete block design with 5- or 10-ft untreated buffer strips around each plot. Insecticides were applied at a rate of 25 gal/acre with a CO2-propelled, 30-inch boom sprayer with 4 flat-spray 800067 Teejet nozzles and at 35 psi. At treatment in Tests 1 &amp; 2, 80% of the plants were in loose cluster bud stage, 10% were in tight cluster, and 10% were in swollen cluster; in Test 3, 90% of the plants were blooming and 10% were in loose cluster stage. The larvae were generally first to third, second to fourth, and third to fifth instars at treatment time for Tests 1, 2, and 3, respectively. On sample dates indicated in table, 10 sweeps with a standard 12-inch sweep net were taken from the center of each plot; the larvae were counted and then released over the same plot. Significant rainfall occurred on 17 May (0.6 inches), 18 May (1.0 inches), and 26 May (1.0 inches).
Report of the ACA Ethics Committee: 1992–1993 (1993)

The activities of the American Counseling Association (ACA) Ethics Committee are summarized for the year 1992–1993. Complaints received and adjudicated by the committee as well as formal inquiries regarding ethical conduct are summarized.
Parameter estimation and blind channel identification in impulsive signal environments (1995)

New methods for parameter estimation and blind channel identification in impulsive signal environments are presented, where the signals/noise are modeled as symmetric /spl alpha/-stable (S/spl alpha/S) processes. First, we present methods for estimating the parameters (characteristic exponent /spl alpha/ and dispersion /spl gamma/) of a S/spl alpha/S distribution from a time series. The fractional lower order moments, with both positive and negative orders, and their applications to signal processing are introduced. Then we present a new algorithm for blind channel identification using the output fractional lower order moments, and the /spl alpha/-Spectrum, a new spectral representation for impulsive signals, is introduced. From the /spl alpha/-Spectrum, we establish the blind identifiability conditions of any FIR channel (mixed-phase, unknown order) with i.i.d. S/spl alpha/S (/spl alpha/>1) input. As a byproduct, a simple algorithm for recovering the phase of any type of a signal from the magnitude of its z-transform is presented. The novelty of our paper is in parameter estimation and blind identification of the FIR channel based on fractional lower order moments of its output data. Monte Carlo simulations clearly demonstrate the performance of the new methods.
Strongly glucocorticoid receptor immunoreactive neurons in the neonatal rat brain (1991)

Brain glucocorticoid receptor (GR) immunoreactivity was studied in the neonatal rat. Already at postnatal days 1-3 strongly GR immunoreactive (IR) neurons were found in the arcuate and paraventricular hypothalamic nuclei. Moderately to strongly GR IR neurons were found in the locus coeruleus and raphe nuclei, while only weakly GR IR neurons were present in the CA1 and CA2 areas of the hippocampus. GR IR increases steadily during the postnatal period reaching adult levels at day 16. Thus, GR may play a role in the maturation of these hypothalamic nuclei and the 5-hydroxytryptamine and noradrenaline neurons, and GR may provide a basis for the ability of stress-induced increases of glucocorticoids to influence distinct brain circuits during postnatal development.
The evolutionary diversification of LSF and Grainyhead transcription factors preceded the radiation of basal animal lineages (2010)

In metazoans, LSF and GRH proteins play a number of roles that are essential to achieving and maintaining multicellularity. It is now clear that this protein family already existed in the unicellular ancestor of animals, choanoflagellates, and fungi. However, the diversification of distinct LSF and GRH subfamilies appears to be a metazoan invention. Given the conserved role of GRH in maintaining epithelial integrity in vertebrates, insects, and nematodes, it is noteworthy that the evolutionary origin of Grh appears roughly coincident with the evolutionary origin of the epithelium.
Immunomodulatory functions of surfactant (1997)

The possibility that the lipoprotein complex of lung surfactant functions in pulmonary host defense as well as lowering surface tension at the air-liquid interface has been the subject of renewed interest in light of the finding that surfactant proteins A and D (SP-A and SP-D) are members of a family of proteins known as collectins. The collectins, so named because they have in common an NH2-terminal collagen-like domain and a COOH-terminal lectin (carbohydrate binding) domain, are found in both lung and serum and participate in "innate" immunity, acting before induction of an antibody-mediated response. In vitro, many of the collectins stimulate phagocytosis, chemotaxis, and production of reactive oxygen and regulate cytokine release by immune cells. It has been known for several years that surfactant lipids suppress a variety of immune cell functions, most notably lymphocyte proliferation, which, conversely, is augmented by SP-A. Thus surfactant lipids and proteins may be counterregulatory, and changes in lipid-to-protein ratios may be important in regulating the immune status of the lung. That these ratios change in disease states is clear, but it is not known whether the alterations are a cause or an effect. Important future studies with mice in which the SP-A and SP-D genes have been ablated will help clarify the role of surfactant in immune function.
Monoclonal Antibodies Against the Flavivirus West Nile (1982)

Monoclonal antibodies having three different specificities have been prepared against the Egypt 101 strain of West Nile virus (WNV). All were reactive against the envelope glycoprotein in radioimmune precipitation tests, and all enhanced WNV replication in the mouse macrophage line P388D1. One antibody, which is of IgG2a subclass, had strong neutralizing activity against the homologous virus, although it failed to neutralize a different WNV strain. The other two antibodies, both of IgG1 subclass, had little neutralizing activity, but one had strong reactivity with the haemagglutinin of the inducing virus and other flavivirus haemagglutinins.