gebhart/patrepeval huggingface dataset:
Exome Sequencing,ANGPTL3Mutations, and Familial Combined Hypolipidemia (2010)

We sequenced all protein-coding regions of the genome (the "exome") in two family members with combined hypolipidemia, marked by extremely low plasma levels of low-density lipoprotein (LDL) cholesterol, high-density lipoprotein (HDL) cholesterol, and triglycerides. These two participants were compound heterozygotes for two distinct nonsense mutations in ANGPTL3 (encoding the angiopoietin-like 3 protein). ANGPTL3 has been reported to inhibit lipoprotein lipase and endothelial lipase, thereby increasing plasma triglyceride and HDL cholesterol levels in rodents. Our finding of ANGPTL3 mutations highlights a role for the gene in LDL cholesterol metabolism in humans and shows the usefulness of exome sequencing for identification of novel genetic causes of inherited disorders. (Funded by the National Human Genome Research Institute and others.).
1456 CENTRAL ROLE FOR PELP1-ANDROGEN RECEPTOR COMPLEX IN PROSTATE CANCER (2011)

INTRODUCTION AND OBJECTIVES: Previously, we have shown that Estrogen Receptor beta (ER), PELP1 and Androgen Receptor (AR) can form a heterotrmeric protein complex in Prostate Cancer cells (PCa) in tissue culture. We had also shown that this protein complex plays a central role in the non-androgenic activation of AR in PCa. In this study, we examined whether ER, PELP1 and AR also formed a complex in vivo in both PCa cell lines, xenografts and human PCa tumors. METHODS: Extracts from a large variety of PCa cell lines were prepared and evaluated by immunohistochemistry (IHC) and by coimmunoprecipitations (CO-IPs) for the presence of the heterotrimeric complex following treatment with estradiol (E2) or dihydrotestosterone (DHT). Then, following subcutaneously injection of Androgen-independent C4-2 Pca cells into 12 male nude mice and establishment of tumors, six mice were subject to surgical castration. Tumor samples from these mice were then harvested and extracts prepared to examine the formation of the trimeric complex before and after castration by IHC and CO-IP. In addition, fifty-eight samples from androgen dependent (ADPCa) and androgen independent human PCa (AIPCa) were screened for ER, PELP1 and AR expression by IHC and complex formation by CO-IP.
1,3-Cycloadditions of 3,5-dichloro-2,4,6-trimethylbenzonitrile oxide to furan, benzofuran, thiophen, and benzothiophen (1977)

The title nitrile oxide adds to furan and thiophen to give a single regioisomer, while the analogous cycloadditions to benzofuran and benzothiophen lead to both possible adducts. Side reactions occur in the case of thiophen. The orientation of the 1,3-cycloadditions was studied by a perturbational approach, using the CNDO/2 methods for computing molecular orbitals. Results are discussed in terms of the full intermolecular orbital theory as well as the frontier orbital method.
Material Characteristics and Deterioration Assessment of the Stone Buddhas and Shrine in Unjusa Temple, Hwasun, Korea (2008)

The stone Buddhas and Shrine of Unjusa temple (Korea Treasure No. 797) in Hwasun formed in Koryo Dynasty are unique style which the Buddha faces each other the back parts of south and north within the stone Shrine. The stone Buddhas and Shrine are highly evaluated in historical, artistic and academic respects. But, the stone properties have been exposed in the open system various aspects of degradations weathered for a long time without specific protective facilities. The rock materials of the stone Buddhas and Shrine are about 47 blocks, and total press load is about 56.6 metric ton. The host rocks composed mainly of white grey hyaline lithic tuff and rhyolitic tuff breccia. In addition, biotite granite used as part during the restoration works. The chemical index of alteration for host tuffaceous rocks and the replacement granites range from 52.1 to 59.4 and 50.0 to 51.0, respectively. Weathering types for the stone Buddhas and Shrine were largely divided with physical, chemical and biological weathering to make a synthetic deterioration map according to aspects of damage, and estimate share as compared with surface area. Whole deterioration degrees are represented that physical weathering appeared exfoliation. Chemical weathering is black coloration and biological weathering of grey lichen, which show each lighly deterioration degrees. According to deterioration degree by direction of stone Buddhas and Shrine, physical weathering mostly appeared by 39.1% on the sorthern part, and chemical weathering is 61.2% high share on the western part. Biological weathering showed 38.3% the largest distribution on the southern part. Therefore, it is necessary to try hardening for the parts with serious cracks or exfoliations, remove secondary contaminants and organisms through regular cleaning. Also necessary to make a plan to remove moisture of the ground which causes weathering, and estimate that need established and scientific processing through clinical demonstration of conservation plan that chooses suitable treatment.
Pancreatic β-Cell Damage Mediated by β-Cell Production of Interleukin-1 (2001)

Viral infection is one environmental factor that may initiate beta-cell damage during the development of autoimmune diabetes. Formed during viral replication, double-stranded RNA (dsRNA) activates the antiviral response in infected cells. In combination, synthetic dsRNA (polyinosinic-polycytidylic acid, poly(I-C)) and interferon (IFN)-gamma stimulate inducible nitric-oxide synthase (iNOS) expression, inhibit insulin secretion, and induce islet degeneration. Interleukin-1 (IL-1) appears to mediate dsRNA + IFN-gamma-induced islet damage in a nitric oxide-dependent manner, as the interleukin-1 receptor antagonist protein prevents dsRNA + IFN-gamma-induced iNOS expression, inhibition of insulin secretion, and islet degeneration. IL-1beta is synthesized as an inactive precursor protein that requires cleavage by the IL-1beta-converting enzyme (ICE) for activation. dsRNA and IFN-gamma stimulate IL-1beta expression and ICE activation in primary beta-cells, respectively. Selective ICE inhibition attenuates dsRNA + IFN-gamma-induced iNOS expression by primary beta-cells. In addition, poly(I-C) + IFN-gamma-induced iNOS expression and nitric oxide production by human islets are prevented by interleukin-1 receptor antagonist protein, indicating that human islets respond to dsRNA and IFN-gamma in a manner similar to rat islets. These studies provide biochemical evidence for a novel mechanism by which viral infection may initiate beta-cell damage during the development of autoimmune diabetes. The viral replicative intermediate dsRNA stimulates beta-cell production of pro-IL-1beta, and following cleavage to its mature form by IFN-gamma-activated ICE, IL-1 then initiates beta-cell damage in a nitric oxide-dependent fashion.
Antibody-targeted liposomes in cancer therapy and imaging (2008)

The field has advanced in tandem with advances in liposome design and antibody and protein engineering. Targeted liposomes have been used in diagnosis to deliver magnetic resonance contrast agents and radionuclides for magnetic resonance and nuclear medicine imaging, respectively. They have been used in gene therapy to deliver a variety of gene expression modifiers, including plasmids, anti-sense oligonucleotides and short interfering RNA. Targeted liposomes provide a delivery advantage over untargeted liposomes not because of increased localization to tumor sites but because of increased interaction with the target cell population once localized to the tumor site. The increased interaction can take on the form of fusion with the cellular membrane or internalization by endocytosis. To the extent that the spatial distribution of targeted liposomes within a solid tumor may become more non-uniform than has been found for untargeted liposomes, this may be a drawback. However, systematic comparisons of the spatial distribution in tumors of targeted versus untargeted liposomes have yet to be performed. The majority of reported studies have been in the area of chemotherapy delivery. Their use in radionuclide and chemo- and radiosensitizer delivery is just emerging. Multifunctional liposomes containing 'layered functionalities' could potentially be the future direction in targeted liposome-based therapy.
Introduction (2008)

The issue of terrorism is not a new one (Countering Terrorism Strategy, UK, 2006) but the attacks of September 11, 2001, on the United States and the responses of states have changed the notion from ter-rorism to super-terrorism (Claridge, 2000) and mega-terrorism (Nabati, 2005). The balance between concern for democracy, civil liberties, and rule of law and security is tipping toward concern for security (Haubrich, 2003; Blair, 2005; Amnesty International, 2006). There is one overarching goal: Get the terrorists wherever they are and no matter what it takes (Bush, September 24, 2001). It may involve stretching international law beyond its elasticity (see 4.4); marginalizing the Security Council (see 5.3); breaching human rights standards (see 3.2); forging alliances with dictators (Pakistan) and dynastic rulers (Saudi Arabia); introducing Anglo-American democracy by adopting a short-cut approach1 and undemocratic means (Afghanistan, Iraq, Palestine). “The rules of the game are changing” (Blair, August 5, 2005, see Mary Robinson cited in Lord Steyn, 2006). Terrorism is not only a challenge to international peace and security (Security Council Res. 1368, 2001; General Assembly, resolution 51/210, 1994) but is also “disrupting some crucial categories of international law” (Cassese, 2001).
A Practical Approach to Monitoring Recovery: Development of a Perceived Recovery Status Scale (2010)

The aim of this study was to develop and test the practical utility of a perceived recovery status (PRS) scale. Sixteen volunteers (8 men, 8 women) performed 4 bouts of high-intensity intermittent sprint exercise. After completion of the baseline trial, in a repeated-measures design, subjects were given variable counterbalanced recovery periods of 24, 48, and 72 hours whereupon they repeated an identical intermittent exercise protocol. After a warm-up period, but before beginning each subsequent bout of intermittent sprinting, each individual provided their perceived level of recovery with a newly developed PRS scale. Similar to perceived exertion during exercise, PRS was based on subjective feelings. The utility of the PRS scale was assessed by measuring the level of agreement of an individual's perceived recovery relative to their performance during the exercise bout. Perceived recovery status and change (both positive and negative) in sprint performance during multiple bouts of repeated sprint exercise were moderately negative correlated (r = -0.63). Additionally, subjects were able to accurately assess level of recovery using the PRS scale indicated by correspondence with negative and positive changes in total sprint time relative to their previous session. The ability to detect changes in performance using a noninvasive psychobiological tool to identify differences in performance was independent of other psychological and physiological markers measured during testing, because there were no differences (p > 0.05) among ratings of perceived exertion (RPE), heart rate, blood lactate concentration, or session RPE values among any of the performance trials. Although further study is needed, current results indicate a subjective approach may be an effective means for assessing recovery from day to day, at least under similar conditions.
Regulation of mammalian ribonucleotide reductase R1 mRNA stability is mediated by a ribonucleotide reductase R1 mRNA 3′-untranslated region cis-trans interaction through a protein kinase C-controlled pathway (1994)

Ribonucleotide reductase catalyses the reaction that eventually provides the four deoxyribonucleotides required for the synthesis and repair of DNA. U.v.-cross-linking and band-shift experiments have identified in COS 7 monkey cells an approx. 57 kDa ribonucleotide reductase R1 mRNA-binding protein called R1BP, which binds specifically to a 49-nt region of the R1 mRNA 3'-untranslated region (3'UTR). The R1BP-RNA binding activity was down-regulated by the tumour promoters phorbol 12-myristate 13-acetate (PMA; 'TPA') and okadaic acid, and up-regulated by the protein kinase C inhibitor staurosporine, in a dose-dependent fashion. Furthermore, staurosporine treatment decreased the stability of R1 and CAT (chloramphenicol acetyltransferase)/R1 hybrid mRNAs, whereas PMA and okadaic acid increased the stability of these messages, in a dose-dependent manner. In contrast, treatment of cells with forskolin, a protein kinase A inhibitor, did not alter either R1BP-RNA binding or R1 mRNA-stability characteristics. Transfectants containing R1 or CAT/R1 cDNA constructs with a deletion of the 49-nt 3'UTR sequence failed to respond in message-stability studies to the effects of PMA, staurosporine or okadaic acid. These observations indicate that a protein kinase C signal pathway regulates ribonucleotide reductase R1 gene expression post-transcriptionally, through a mechanism involving a specific cis-trans interaction at a 49-nt region within the R1 mRNA 3'UTR.
A Review on Ensembles for the Class Imbalance Problem: Bagging-, Boosting-, and Hybrid-Based Approaches (2011)

Classifier learning with data-sets that suffer from imbalanced class distributions is a challenging problem in data mining community. This issue occurs when the number of examples that represent one class is much lower than the ones of the other classes. Its presence in many real-world applications has brought along a growth of attention from researchers. In machine learning, the ensemble of classifiers are known to increase the accuracy of single classifiers by combining several of them, but neither of these learning techniques alone solve the class imbalance problem, to deal with this issue the ensemble learning algorithms have to be designed specifically. In this paper, our aim is to review the state of the art on ensemble techniques in the framework of imbalanced data-sets, with focus on two-class problems. We propose a taxonomy for ensemble-based methods to address the class imbalance where each proposal can be categorized depending on the inner ensemble methodology in which it is based. In addition, we develop a thorough empirical comparison by the consideration of the most significant published approaches, within the families of the taxonomy proposed, to show whether any of them makes a difference. This comparison has shown the good behavior of the simplest approaches which combine random undersampling techniques with bagging or boosting ensembles. In addition, the positive synergy between sampling techniques and bagging has stood out. Furthermore, our results show empirically that ensemble-based algorithms are worthwhile since they outperform the mere use of preprocessing techniques before learning the classifier, therefore justifying the increase of complexity by means of a significant enhancement of the results.
Hybrid ARQ scheme suitable for coded MIMO transmission (2004)

An automatic-repeat-request (ARQ) scheme for improving the system throughput efficiency is investigated in coded multiple-input multiple-output (MIMO) transmissions. The improved ARQ scheme employs two strategies, referred to as trellis-coded modulation (TCM) reassignment and antenna permutation. TCM reassignment increases the free distance after code combining through the use of different TCM codes for retransmissions. Antenna permutation exploits spatial dimension for preventing successive frame errors by changing the connections between transmitters and transmit antennas upon retransmission. It is shown through computer simulations that this ARQ scheme achieves high throughput even in severe conditions of low signal-to-noise ratio and high Rician factor over spatially and temporally correlated Nakagami-Rice fading MIMO channels.
Asymmetry in the Lipid Affinity of Bihelical Amphipathic Peptides (2008)

ApoA-I contains a tandem array of amphipathic helices with varying lipid affinity, which are critical in its ability to bind and remove lipids from cells by the ABCA1 transporter. In this study, the effect of asymmetry in the lipid affinity of amphipathic helices in a bihelical apoA-I mimetic peptide, 37pA, on lipid efflux by the ABCA1 transporter was examined. Seven peptide variants of 37pA were produced by substituting a varying number of hydrophobic amino acids for alanine on either one or both helices. The 5A peptide with five alanine substitutions in the second helix had decreased helical content compared with 37pA (5A, 12+/-1% helicity; 37pA, 28+/-2% helicity) and showed less self-association but, similar to the parent peptide, was able to readily solubilize phospholipid vesicles. Furthermore, 5A, unlike the parent peptide 37pA, was not hemolytic (37pA, 27+/-2% RBC lysis, 2 h, 18 microm). Finally, the 5A peptide stimulated cholesterol and phospholipid efflux by the ABCA1 transporter with higher specificity (ABCA1-transfected versus untransfected cells) than 37pA (5A, 9.7+/-0.77%, 18 h, 18 microm versus 1.5+/-0.27%, 18 h, 18 microm (p<0.0001); 37pA, 7.4+/-0.85%, 18 h, 18 microm versus 5.8+/-0.20%, 18 h, 18 microm (p=0.03)). In summary, we describe a novel bihelical peptide with asymmetry in the lipid affinity of its helices and properties similar to apoA-I in terms of specificity for cholesterol efflux by the ABCA1 transporter and low cytotoxicity.
A single dose, placebo controlled study of the fully human anti-tumor necrosis factor-alpha antibody adalimumab (D2E7) in patients with rheumatoid arthritis. (2002)

Treatment with the fully human Mab adalimumab was safe and well tolerated when administered as a single intravenous injection at doses up to 10 mg/kg, and was associated with a clinically significant improvement in the signs and symptoms of active RA.
An endocrine pathway in the prostate, ERβ, AR, 5α-androstane-3β,17β-diol, and CYP7B1, regulates prostate growth (2002)

Epithelial proliferation of the ventral prostate in rodents peaks between 2 and 4 weeks of age, and by week 8, proliferating cells are rare. We have used ERbeta(-/-) and CYP7B1(-/-) mice to investigate the role of ERbeta and one of its ligands, 5alpha-androstane-3beta,17beta-diol (3betaAdiol), in growth of the ventral prostate. Before puberty, ERbeta was found in quiescent but not in proliferating cells, and proliferating cells occurred more frequently in ventral prostates of ERbeta(-/-) mice than in wild-type littermates. Treatment with 3betaAdiol decreased proliferation in wild-type but not in ERbeta(-/-) mice. In rats, treatment with 3betaAdiol from postnatal day 2 to 28 resulted in reduction in growth of ventral prostates. The prostates of CYP7B1(-/-) mice were hypoproliferative before puberty and smaller than those of their wild-type littermates after puberty. Because CYP7B1 represents the major pathway for inactivating 3betaAdiol in the prostate, we suggest that ERbeta, 3betaAdiol, and CYP7B1 are the components of a pathway that regulates growth of the rodent ventral prostate. In this pathway, ERbeta is an antiproliferative receptor, 3betaAdiol is an ERbeta ligand, and CYP7B1 is the enzyme that regulates ERbeta function by regulating the level of 3betaAdiol.
THREE DIMENSIONAL FLASH LADAR FOCAL PLANES AND TIME DEPENDENT IMAGING (2008)

3-D flash ladar, herein defined as obtaining an entire frame of 3-D ladar data with one laser pulse, is an emerging technology with a number of advantages over conventional point scanner systems. Probably the most obvious advantage is the higher data rates possible and the potential for much higher data rates with increases in the associated 3-D focal planes array (FPA) format. High data rate means that topographical mapping, for example, can be obtained more rapidly decreasing the amount of flight time required. This paper investigates the clear but perhaps not-so-intuitive use of the high data rate: time dependent 3-D movies can be acquired at the repetition frequency of the associated laser. Data is taken using 3-D flash ladar cameras fabricated by Advanced Scientific Concepts, Inc. The paper concludes that there are a number of advantages and unique applications of the time dynamic 3-D flash ladar, including 3-D collision avoidance and object tracking.
High reproducibility of serum anti-Müllerian hormone measurements suggests a multi-staged follicular secretion and strengthens its role in the assessment of ovarian follicular status (2005)

The improved cycle-to-cycle consistency of AMH as compared with other markers of ovarian follicular status is in keeping with its peculiar production by follicles at several developmental stages and further supports its role as a cost-effective, reliable marker of ovarian fertility potential.
Cardiac stem cell niches (2014)

The critical role that stem cell niches have in cardiac homeostasis and myocardial repair following injury is the focus of this review. Cardiac niches represent specialized microdomains where the quiescent and activated state of resident stem cells is regulated. Alterations in niche function with aging and cardiac diseases result in abnormal sites of cardiomyogenesis and inadequate myocyte formation. The relevance of Notch1 signaling, gap-junction formation, HIF-1α and metabolic state in the regulation of stem cell growth and differentiation within the cardiac niches are discussed.
Administration of Antibodies to Hyaluronanreceptor (CD44) Delays the Start and Ameliorates the Severity of Collagen II Arthritis (1995)

Hyaluronanreceptor (CD44) has been shown to be involved in lymphocyte homing during normal leucocyte circulation and during leucocyte extravasation into sites of tissue inflammation. In addition, interaction with CD44 molecule induces T-cell activation and production of cytokines, such as interferon-gamma. In this study we have examined what influence interaction with the CD44 receptor would have on collagen II-induced arthritis in mice. Mice were immunized with rat collagen II and administered with injections of a monoclonal anti-CD44 antibody. Seventeen days after the outbreak of the disease, all of the anti-CD44 treated animals remained clinically health, whereas 37% of the controls displayed arthritis (P < 0.001). Ten days later the prevalence of arthritis was 26% and 65% (P < 0.05), respectively. Furthermore, the severity of the arthritis was significantly ameliorated by the anti-CD44 treatment. Serum levels of interferon-gamma were significantly higher in collagen II immunized animals having been treated with anti-CD44, compared to the controls. Delayed-type hypersensitivity (DTH) response was significantly decreased in the anti-CD44 treated animals, indicating a functional suppression of T cells. In contrast, T cell independent experimental inflammation was not affected by the administration of CD44 antibodies. Our results suggest that interaction with CD44 down-regulates T lymphocyte/monocyte mediated inflammatory reaction, possibly by triggering of interferon-gamma release.