gebhart/patrepeval huggingface dataset:
Prostate Specific Antigen: A Critical Assessment of the Most Useful Tumor Marker for Adenocarcinoma of the Prostate (1991)

PSA is a kallikrein-like, serine protease that is produced exclusively by the epithelial cells of all types of prostatic tissue, benign and malignant. Physiologically, it is present in the seminal fluid at high concentration and functions to cleave the high molecular weight protein responsible for the seminal coagulum into smaller polypeptides. This action results in liquefaction of the coagulum. PSA is also present in the serum and can be measured reliably by either a monoclonal immunoradiometric assay or a polyclonal radioimmunoassay. The calculated half-life of serum PSA ranges from 2.2 to 3.2 days and the metabolic clearance rate of this tumor marker follows first-order kinetics. Digital rectal examination, cystoscopic examination and prostate biopsy all can cause spurious elevations of the serum PSA concentration. Conditions such as bacterial prostatitis and acute urinary retention also can falsely elevate the serum PSA level. Because approximately 25% of the patients with BPH only will have an elevated serum PSA concentration and BPH tissue contributes to this PSA value in a variable manner from patient to patient, it is unlikely that PSA by itself will become an effective screening tool for the early diagnosis of prostate cancer. However, if combined with digital rectal examination and/or transrectal ultrasound it may become a vital part of any early detection program. Prostatic intraepithelial neoplasia also may be associated with moderately elevated serum PSA levels. Although there is a direct correlation between the serum PSA concentration and clinical stage, PSA is not sufficiently reliable to determine the clinical stage on an individual basis. This finding also applies to pathological stage. As a result, the preoperative serum PSA concentration cannot be used to decide whether to recommend radical prostatectomy for potential cure. Low preoperative serum PSA concentrations in patients with previously untreated prostate cancers are predictive of a negative bone scan. Thus, in these select patients a staging bone scintigram may not be necessary. With respect to monitoring patients after definitive therapy, PSA is an exquisitely sensitive tumor marker. Irrespective of the treatment modality (radical prostatectomy, radiation therapy or antiandrogen treatment), PSA reflects accurately the tumor status of the patient and is prognostic of eventual outcome; this tumor marker is capable of predicting tumor recurrence months before its detection by any other method. PSA is also a most useful immunocytochemical marker. Its sensitivity and specificity to identify tissue of prostatic origin approach 100%. When compared to PAP, PSA is a more precise and meaningful marker in all clinical situations.(ABSTRACT TRUNCATED AT 400 WORDS)
A sight record of the Singing Starling 'Aplonis cantoroides' in Australia (1996)

On 22 December 1987, I was birdwatching on Boigu Island, at the north-eastern end of the Australian territorial boundary in the Torres Strait, North Queensland, when I noticed a flock of six starlings feeding noisily in a Ficus tree. It soon became apparent that the birds were Singing Starlings' Aplonis cantoroides', a species with which I was familiar in Papua New Guinea, where it is common and widespread in the lowlands. Two of the birds were adults with bright red eyes and glossy greenish-black plumage. The remainder were red-eyed juveniles, with creamy underparts heavily marked by dark brown streaking. All birds had short, blunt-tipped tails, a feature which immediately distinguishes the species from the Metallic Starling 'A. metallica' . The birds were calling frequently. The high-pitched, musical note with a slight downwards inflection was also distinctive.
A STEP into Darkness or Light? (2008)

The recent failure of a vector-based HIV vaccine may be explained by individual subjects' immune capacity and genetics.
The Effects of Nabilone on Sleep in Fibromyalgia: Results of a Randomized Controlled Trial (2010)

Nabilone is effective in improving sleep in patients with FM and is well tolerated. Low-dose nabilone given once daily at bedtime may be considered as an alternative to amitriptyline. Longer trials are needed to determine the duration of effect and to characterize long-term safety.
Estrogen activates telomerase. (1999)

Telomerase activity is present in most malignant tumors and provides a mechanism for the unlimited potential for division of neoplastic cells. Although telomerase is known to be a regulated enzyme, the factors and mechanisms involved in telomerase regulation are not well understood. In the present study, we examined the effects of estrogen on telomerase activity. Telomerase activity in estrogen receptor (ER)-positive MCF-7 cells was up-regulated by the treatment with 17beta-estradiol. This activation accompanied up-regulation of the telomerase catalytic subunit, hTERT mRNA. Gel shift assays revealed that the imperfect palindromic estrogen-responsive element in the hTERT promoter specifically binds to ER. Transient expression assays using luciferase reporter plasmids containing various fragments of hTERT promoter showed that this imperfect palindromic estrogen-responsive element is responsible for transcriptional activation by ligand-activated ER. We also found that estrogen activates c-Myc expression in MCF-7 cells and that E-boxes in the hTERT promoter that bind c-Myc/Max play additional roles in estrogen-induced transactivation of hTERT. Estrogen thus activates telomerase via direct and indirect effects on the hTERT promoter. These findings may help elucidate the mechanisms of hormonal control of telomerase activity and aid understanding of the roles of sex steroids in cellular senescence and aging as well as estrogen-induced carcinogenesis.
The Effect on Serum Cholesterol Levels of Coffee Brewed by Filtering or Boiling (1989)

Previous reports have indicated that coffee consumption may increase serum cholesterol levels. We studied the effects of coffee prepared by two common brewing methods (filtering and boiling) on serum lipid levels in a 12-week randomized trial involving 107 young adult subjects with normal serum cholesterol levels. After a three-week run-in period during which they all consumed filtered coffee, the participants were randomly assigned to one of three groups receiving four to six cups of boiled coffee a day, four to six cups of filtered coffee a day, or no coffee, for a period of nine weeks. As compared with the change from base line in the filtered-coffee group, the serum total cholesterol level increased after the consumption of boiled coffee by 0.48 mmol per liter (95 percent confidence limits, 0.13 and 0.83), and the low-density lipoprotein cholesterol level increased by 0.39 mmol per liter (95 percent confidence limits, -0.04 and 0.82). There was no significant difference in the change in serum total or low-density lipoprotein cholesterol levels between the filtered-coffee group and the group that drank no coffee. The levels of high-density lipoprotein cholesterol and apolipoproteins were not affected by boiled or filtered coffee. We conclude that drinking filtered coffee does not affect serum lipid levels. The consumption of boiled coffee, however, has an effect on serum cholesterol levels amounting to a mean net increase of 10 percent of the base-line level after nine weeks.
Transforming Growth Factors β1 and α in Chronic Liver Disease (1991)

TGF beta 1 may have an important role in the pathogenesis of fibrosis in patients with chronic liver disease, and TGF alpha expression may be associated with liver regeneration in these patients.
The common marmoset genome provides insight into primate biology and evolution (2014)

We report the whole-genome sequence of the common marmoset (Callithrix jacchus). The 2.26-Gb genome of a female marmoset was assembled using Sanger read data (6×) and a whole-genome shotgun strategy. A first analysis has permitted comparison with the genomes of apes and Old World monkeys and the identification of specific features that might contribute to the unique biology of this diminutive primate, including genetic changes that may influence body size, frequent twinning and chimerism. We observed positive selection in growth hormone/insulin-like growth factor genes (growth pathways), respiratory complex I genes (metabolic pathways), and genes encoding immunobiological factors and proteases (reproductive and immunity pathways). In addition, both protein-coding and microRNA genes related to reproduction exhibited evidence of rapid sequence evolution. This genome sequence for a New World monkey enables increased power for comparative analyses among available primate genomes and facilitates biomedical research application.
Polyphenolic Substance of Mytilus edulis : Novel Adhesive Containing L-Dopa and Hydroxyproline (1981)

The fouling marine mussel Mytilus edulis attaches itself to various substrates by spinning byssal threads, the adhesive discs of which are rich in the amino acid 3,4-dihydroxyphenylalanine (dopa). An acid-soluble protein was extracted and purified from the phenol gland located in the byssus-secreting foot of the animal. This protein is highly basic and contains large amounts of lysine, dopa, and 3- and 4-hydroxyproline. The composition of this protein and its sticky tendencies in vitro strongly suggest that it contributes to byssal adhesion.
The catalytic domain of λ site-specific recombinase (1997)

The Escherichia coli phage lambda integrase protein (Int) belongs to the large Int family of site-specific recombinases. It is a heterobivalent DNA binding protein that makes use of a high energy covalent phosphotyrosine intermediate to catalyze integrative and excisive recombination at specific chromosomal sites (att sites). A 293-amino acid carboxy-terminal fragment of Int (C65) has been cloned, characterized, and used to further dissect the protein. From this we have cloned and characterized a 188-amino acid, protease-resistant, carboxy-terminal fragment (C170) that we believe is the minimal catalytically competent domain of Int. C170 has topoisomerase activity and converts att suicide substrates to the covalent phosphotyrosine complexes characteristic of recombination intermediates. However, it does not show efficient binding to att site DNA in a native gel shift assay. We propose that lambda Int consists of three functional and structural domains: residues 1-64 specify recognition of "arm-type" DNA sequences distant from the region of strand exchange; residues 65-169 contribute to specific recognition of "core-type" sequences at the sites of strand exchange and possibly to protein-protein interactions; and residues 170-356 carry out the chemistry of DNA cleavage and ligation. The finding that the active site nucleophile Tyr-342 is in a uniquely protease-sensitive region complements and reinforces the recently solved C170 crystal structure, which places Tyr-342 at the center of a 17-amino acid flexible loop. It is proposed that C170 is likely to represent a generic Int family domain that thus affords a specific route to studying the chemistry of DNA cleavage and ligation in these recombinases.
Data Mining and Case-Based Reasoning for Distance Learning (2003)

Web-based learning enables more students to have access to the distance-learning environment, and provides students and teachers with unprecedented flexibility and convenience. However, the early experience of using this new learning means in China exposes a few problems. Among others, teachers accustomed to traditional teaching methods often find it difficult to put their courses online, and some students, especially the adult students, find themselves overloaded with too much information. In this paper, we present an open framework to solve these two problems. This framework allows students to interact with an automated question answering system to get their answers. It enables teachers to analyze students’ learning patterns and organize the web-based contents efficiently. The framework is intelligent due to the data mining and case-based reasoning features, and user-friendly because of its personalized services to both teachers and students.
Fast polarization switching in a vertical-cavity surface-emitting laser under optical injection (2002)

We report the first observation of bistable polarization switching in a vertical cavity surface-emitting GaAs/AlGaAs laser (VCSEL) under optical injection. Input wavelength dependence of the switching is studied. Polarization switching at frequencies up to 6 GHz is obtained. We believe this polarization switching is achieved through injection locking where both the wavelength and the polarization of the VCSEL are locked by the injected optical signal. Because of the high switching speed and the low switching energy, the polarization bistable switching in VCSELs opens new possibilities in optical storage and the area of smart pixels for optical processing and interconnects.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
High power terahertz generation using 1550 nm plasmonic photomixers (2014)

We present a 1550 nm plasmonic photomixer operating under pumping duty cycles below 10%, which offers significantly higher terahertz radiation power levels compared to previously demonstrated photomixers. The record-high terahertz radiation powers are enabled by enhancing the device quantum efficiency through use of plasmonic contact electrodes, and by mitigating thermal breakdown at high optical pump power levels through use of a low duty cycle optical pump. The repetition rate of the optical pump can be specifically selected at a given pump duty cycle to control the spectral linewidth of the generated terahertz radiation. At an average optical pump power of 150 mW with a pump modulation frequency of 1 MHz and pump duty cycle of 2%, we demonstrate up to 0.8 mW radiation power at 1 THz, within each continuous wave radiation cycle.
Engineering nanoparticles to overcome barriers to immunotherapy (2016)

Advances in immunotherapy have led to the development of a variety of promising therapeutics, including small molecules, proteins and peptides, monoclonal antibodies, and cellular therapies. Despite this wealth of new therapeutics, the efficacy of immunotherapy has been limited by challenges in targeted delivery and controlled release, that is, spatial and temporal control on delivery. Particulate carriers, especially nanoparticles have been widely studied in drug delivery and vaccine research and are being increasingly investigated as vehicles to deliver immunotherapies. Nanoparticle-mediated drug delivery could provide several benefits, including control of biodistribution and transport kinetics, the potential for site-specific targeting, immunogenicity, tracking capability using medical imaging, and multitherapeutic loading. There are also a unique set of challenges, which include nonspecific uptake by phagocytic cells, off-target biodistribution, permeation through tissue (transport limitation), nonspecific immune-activation, and poor control over intracellular localization. This review highlights the importance of understanding the relationship between a nanoparticle's size, shape, charge, ligand density and elasticity to its vascular transport, biodistribution, cellular internalization, and immunogenicity. For the design of an effective immunotherapy, we highlight the importance of selecting a nanoparticle's physical characteristics (e.g., size, shape, elasticity) and its surface functionalization (e.g., chemical or polymer modifications, targeting or tissue-penetrating peptides) with consideration of its reactivity to the targeted microenvironment (e.g., targeted cell types, use of stimuli-sensitive biomaterials, immunogenicity). Applications of this rational nanoparticle design process in vaccine development and cancer immunotherapy are discussed.
Submucosa of canine small intestine as an alternative medium-diameter autogenous arterial graft. (2000)

Small intestinal canine submucosa showed satisfactory haemodynamic properties, long-term patency and resistance to infection, when used as a medium-diameter arterial substitute.
Sleep quality in mechanically ventilated patients: comparison between NAVA and PSV modes (2011)

NAVA improves the quality of sleep over PSV in terms of REM sleep, fragmentation index, and ineffective efforts in a nonsedated adult population.
Large-Scale Preparation and Function of Porcine Hepatocyte Spheroids (1996)

To obtain a large number of porcine hepatocyte aggregates (spheroids) that have great potential in a bioartificial liver (BAL), we performed spheroid formation at a high cell density in a 1-L-scale spinner flask fitted with a silicon tubing apparatus for oxygen supply. We thereby obtained, within 24 hours, approximately fifty times more porcine hepatocyte spheroids as compared with the results of previous reports. The amount obtained corresponds to 2.5x10(9) cells and to roughly one-sixth of the cell number required for a BAL for a human patient. When we cultured spheroids continuously in suspension, they expressed three times more albumin secretion and twice the ammonium removal as compared with conventional monolayers during 10 days culture. Collagen gel entrapment of spheroids particularly lowered albumin secretion. We therefore conclude that the supension culture vessel of porcine hepatocyte spheroids is one of the most promising module types.
Laissez-Faire (2015)

Backscatter provides dual-benefits of energy harvesting and low-power communication, making it attractive to a broad class of wireless sensors. But the design of a protocol that enables extremely power-efficient radios for harvesting-based sensors as well as high-rate data transfer for data-rich sensors presents a conundrum. In this paper, we present a new {\em fully asymmetric} backscatter communication protocol where nodes blindly transmit data as and when they sense. This model enables fully flexible node designs, from extraordinarily power-efficient backscatter radios that consume barely a few micro-watts to high-throughput radios that can stream at hundreds of Kbps while consuming a paltry tens of micro-watts. The challenge, however, lies in decoding concurrent streams at the reader, which we achieve using a novel combination of time-domain separation of interleaved signal edges, and phase-domain separation of colliding transmissions. We provide an implementation of our protocol, LF-Backscatter, and show that it can achieve an order of magnitude or more improvement in throughput, latency and power over state-of-art alternatives.
The Preparation and Characterization of Small Mesopores in Siloxane‐Based Materials That Use Cyclodextrins as Templates (2003)

Abstract Porous thin films containing very small closed pores (∼ 20 Å) with a low dielectric constant (∼ 2.0) and excellent mechanical properties have been prepared using the mixture of cyclic silsesquioxane (CSSQ) and a new porogen, heptakis(2,3,6‐tri‐ O ‐methyl)‐β‐cyclodextrin (tCD). The pore sizes vary from 16.3 Å to 22.2 Å when the content of tCD in the coating mixture increases to 45 wt.‐% according to positronium annihilation lifetime spectroscopy (PALS) analysis. It has also been found that the pore percolation threshold (the onset of pore interconnectivity) occurs as the ∼ 50 % tCD porogen load. The dielectric constants ( k = 2.4 ∼ 1.9) and refractive indices of these porous thin films decreased systematically as the amount of porogen loading increased in the coating mixture. The electrical properties and mechanical properties of such porous thin films were fairly good as interlayer dielectrics.
High Temperature Superconductivity: Materials, Mechanism and Applications (2014)

The immense potential of high temperature superconductivity for technological use has kept the subject alive ever since its discovery. Though the mechanism of high temperature superconductivity still remains elusive, a lot of progress has been made resulting in a major reduction in the number of pro- posed mechanisms under consideration. At present, electron phonon interaction or spin fluctuations are considered to be central to the mechanism of super- conductivity. While the transition temperature has not been improved over the last few years and room temperature superconductivity may not be achieved in near future, many technological applications are in use and being constantly im- proved. New materials with a better promise are also being discovered. This pa- per attempts to look back at the progress made so far on all fronts and elucidate the challenges of understanding the mechanism and achieving room temperature superconductivity.
Lung transplantation in idiopathic pulmonary fibrosis: a systematic review of the literature (2014)

IPF accounts for the largest proportion of patients awaiting lung transplants, and IPF is associated with higher wait-list and post-transplant mortality vs. other diagnoses. Improved BLT vs. SLT survival may be the result of selection bias. Survival pre- vs. post LAS appears to be similar except for IPF patients with high LAS, who have lower survival compared to pre-LAS. Data on post-transplant morbidity outcomes are sparse.
Efficacy and Safety of Ezetimibe Coadministered With Atorvastatin or Simvastatin in Patients With Homozygous Familial Hypercholesterolemia (2002)

Ezetimibe coadministered with atorvastatin or simvastatin in patients with HoFH produced clinically important LDL-C reductions compared with best current therapy. Ezetimibe provides a new, complementary pharmacological approach for this high-risk population.
Conformational transitions of cyclic D,L‐peptides (2008)

Conformational transitions of cyclic D,L-hexapeptides have been studied by first-principles calculations. Geometry optimizations for 20 types of homoresidue cyclic D,L-hexapeptide revealed that the cyclic peptides have two types of energetically stable backbone (extended (E) and bound (B) types); and for each type, the amino acid side chains have two orientations (equatorial and axial). Among the four types of isomer [E-type equatorial (E(eq)), B-type equatorial (B(eq)), E-type axial (E(ax)), and B-type axial (B(ax))], B(ax) is the energetically most preferred by most of the 20 encoded amino acid residues, whereas E(ax) is the least preferred. A search for transition states indicated that six types of conformational transition are possible between the isomers of the cyclic peptide, i.e., the backbone-backbone conversions (E(eq)-B(eq) and E(ax)-B(ax) transitions), the side chain-side chain conversions (E(eq)-E(ax) and B(eq)-B(ax) transitions), and the simultaneous conversions of the backbone and the side-chain orientation (E(eq)-B(ax) and E(ax)-B(eq) transitions). All the six transitions proceed with the breaking of the high molecular symmetry (S(6)) and go through the triangular (C(3)) intermediate structure with either equatorial or axial side-chain orientation.