gebhart/patrepeval huggingface dataset:
Selective clearance of glycoforms of a complex glycoprotein pharmaceutical caused by terminal N-acetylglucosamine is similar in humans and cynomolgus monkeys (2007)

To understand how the carbohydrate moieties of a recombinant glycoprotein affected its pharmacokinetic (PK) properties, the glycan distribution was directly assessed from serial blood samples taken during PK studies in cynomolgus monkeys and humans. The protein studied was an immunoadhesin (lenercept), containing an Fc domain from human immunoglobulin G (IgG-1) and two copies of the extensively glycosylated extra cellular domain of tumor necrosis factor receptor p55. The protein was recovered in pure form using a dual column, immunoaffinity-reversed-phase high-performance liquid chromatography method. The glycans were released and analyzed by matrix-assisted laser desorption ionization time of flight mass spectrometry (MALDI-TOF MS). Alternatively, trypsin was used to obtain glycopeptides, and these were analyzed by MALDI-TOF. The composition versus time profiles show that the distribution of glycans in the Fc domain was not altered over 10 days of circulation, consistent with their sequestration in the interior of the protein. However, the glycan composition in the receptor domain was changed dramatically in the first 24 h and then remained relatively constant. Analysis of the acidic glycans (derived exclusively from the receptor domain) showed that, in the rapid initial phase of clearance, glycans carrying terminal N-acetylglucosamine (tGlcNAc) were selectively cleared from the circulation. This phenomenon occurred similarly in humans and cynomolgus monkeys. Sialic acid content and terminal galactose showed only small changes. These data confirm the correlation of tGlcNAc and half-life of the molecule, and support the hypothesis that the mannose receptor (which can also bind tGlcNAc) causes the variable clearance of this molecule.
11E-2 Review and Comparison of Bulk Acoustic Wave FBAR, SMR Technology (2007)

Since FBAR (free-standing bulk acoustic resonator) and solidly mounted resonator SMR-BAW devices came onto the scene as serious competition to the entrenched SAW technology (for cell phone applications), there has been much speculation and discussion as to which of these two "disruptive" technologies is the superior one. The one fundamental difference between SMR-BAWs and FBARs, is the means by which the acoustic energy is trapped. For FBAR the air/crystal interface on both faces of the resonator ensures that the main mode of interest (the thickness extensional mode, TE1) is appropriately trapped In the SMR-BAW, Bragg reflectors underneath the resonator, effectively trap this mode. This addition of a Bragg reflector will degrade the effective coupling coefficient as well as creating additional Q loss mechanisms. The science of improving Q must focus on the edges of the resonator for FBAR, while for SMR devices, both the edges and the vertical design of the Bragg reflector must be optimized. That said, compared to conventional SAW technology, both BAW and FBAR provide temperature stability, power handling capability, good ESD (electro-static discharge), and -most important-high Q's. One of the key drivers for the success (in terms of high Q and coupling coefficients) of both BAW and FBAR was the exploitation of AlN as the piezoelectric material and high acoustic impedance, electrode materials such as molybdenum, tungsten or ruthenium. These are the technology differentiators that create the inherent superiority of BAW/FBAR over both the conventional SAW technology and the newer and enhanced flavors of SAW. The need for large coupling coefficients and high Q's becomes an important value proposition as one considers the proliferation of new bands and services.
Lessons from Operation Iraqi Freedom: Successful Subacute Reconstruction of Complex Lower Extremity Battle Injuries (2008)

Despite reconstruction in the subacute period, the high rate of antimicrobial colonization before wound closure, and the devastating nature of improvised explosive device blast injuries, early analysis of the National Naval Medical Center war extremity reconstruction cohort demonstrates low total and partial flap loss rates and acceptable infection rates.
HPV DNA vaccines (2003)

Human papillomaviruses (HPV), particularly HPV type 16, are the primary etiologic agent of cervical cancer. Thus, HPV-associated cervical malignancies might be prevented or treated by induction of the appropriate virus-specific immune responses in patients. HPV capsid proteins including L1 and L2 proteins have been shown to generate neutralizing antibodies against HPV particles in vaccinated individuals. Furthermore, HPV oncogenic proteins such as E6 and E7 proteins are important in the induction and maintenance of cellular transformation and are co-expressed in the majority of HPV-containing carcinomas. They represent ideal targets for the development of therapeutic vaccines against HPV infections and HPV-associated neoplasia. Vaccines targeting these proteins may provide an opportunity to control HPV-associated malignancies. Genetic immunization with naked DNA has emerged as an important strategy for vaccine development. Plasmid DNA encoding antigen of interest, such as capsid protein L1 and L2 (for preventive vaccines) and non-structural proteins E6 and E7 (for therapeutic vaccines) enters the host and stimulates an antigen-specific humoral and cellular immune response. Various strategies to enhance preventive and therapeutic effects of DNA vaccines are currently under active investigation. Should they fulfill their promise, these DNA vaccines may prevent HPV infection or control HPV-related cervical lesions.
Identification of a gene essential for piliation in Haemophilus influenzae type b with homology to the pilus assembly platform genes of gram-negative bacteria (1994)

Haemophilus influenzae type b (Hib) pili are complex filamentous surface structures consisting predominantly of pilin protein subunits. The gene encoding the major pilin protein subunit of Hib adherence pili has been cloned and its nucleotide sequence has been determined. In order to identify specific accessory genes involved in pilus expression and assembly, we constructed isogenic Hib mutants containing insertional chromosomal mutations in the DNA flanking the pilin structural gene. These mutants were screened for pilin production, pilus expression, and hemagglutination. Pili and pilin production were assessed by immunoassays with polyclonal antisera specific for pilin and pili of Hib strain Eagan. Hemagglutination was semiquantitatively evaluated in a microtiter plate assay. Six Hib mutants produced proteins immunoreactive with antipilin antiserum but no longer produced structures reactive with antipilus antiserum. In addition, the mutants were unable to agglutinate human erythrocytes. Nucleotide sequence analysis localized the insertion sites in the six mutants to 2.5-kb open reading frame upstream of the pilin structural gene and immediately downstream of an Hib pilin chaperone gene. The amino acid sequence encoded by this open reading frame has significant homology to members of the pilus assembly platform protein family, including FhaA of Bordetella pertussis, MrkC of Klebsiella pneumoniae, and the Escherichia coli assembly platform proteins FimD and PapC. This open reading frame, designated hifC, appears to represent a gene essential to Hib pilus biogenesis that has genetic and functional similarity to the pilus platform assembly genes of other gram-negative rods.
Beyond spreadsheets: tools for building decision support systems (1999)

The complexity and long development time inherent in building decision support systems has thus far prevented their wide use. A new class of tools, DSS generators, seeks to cut the lead time between development and deployment. DSS generators provide tools that make it easier and faster to develop models, data, and user interfaces that are customized to the application's requirements. Using a DSS generator reduces DSS development to a decision analysis task-which requires expertise in decision analysis and mathematical modeling-rather than a programming task. DSS generators are crucial to the success of DSSs in practice. We describe the state of the art in DSS generator software, specifically in the realm of decision analysis methods. Decision analysis techniques account for the uncertain, dynamic, and multicriteria aspects of decisions. Essentially, they aid the evaluation of alternatives in the face of trade-offs. Well known decision analysis methods include decision trees and influence diagrams. We briefly describe the features of 11 commercially available DSS generators that specialize in decision analysis. Although not a comprehensive, complete analysis of these tools, the article clarifies the idea of DSS generators as DSS development environments and presents an overview of the progress in this area.
Synthesis of Fluorobenzoates as Possible Pesticides (1962)

Synthesis of Fluorobenzoates as Possible Pesticides
Testosterone Implants in Specific Neural Sites Activate Female Sexual Behaviour (1994)

Sexual behaviour in most female mammals is regulated by oestrogen, often acting synergistically with progesterone. Moreover, the most important neural site of action for oestradiol is the ventromedial nucleus. In the female musk shrew, Suncus murinus, testosterone (T) activates sexual behaviour. Virgin females first engage in copulatory behaviour many hours in advance of follicular development and ovulation, when plasma oestradiol levels are very low. Testosterone, produced by the ovaries and the adrenal glands, must be aromatized centrally to oestradiol to initiate sexual behaviour. To identify the neural sites of action for T, ovariectomized females received unilateral hormone implants containing testosterone propionate. Hormone pellets were placed in 1 of several brain sites including the medial preoptic area and the dorsalmedial hypothalamus (DMH). Implants in either of these 2 sites, but not in the lateral preoptic area, internal capsule, nor anterior hypothalamus stimulated the induction of sexual behaviour. Hormone implants in the ventrolateral hypothalamus resulted in partially receptive animals. Immunocytochemistry was employed to determine which steroid receptors were present in the 2 behaviourally active sites. The medial preoptic area (MPO) and the dorsal and ventromedial hypothalamus both contain many cells that express oestrogen receptor immunoreactivity. A smaller subset of neurons in these regions are immunoreactive for androgen receptors. In summary, testosterone can act specifically in either the MPO or the DMH to induce female sexual behaviour. Both sites contain cells that express oestrogen and androgen receptors. Thus, testosterone may work via one or both of these steroid receptors to regulate behaviour.(ABSTRACT TRUNCATED AT 250 WORDS)
The Role of Glucose in Supporting Motility and Capacitation in Human Spermatozoa (2001)

Glucose has been reported to be beneficial to human sperm for optimal capacitation and fertilization, although it is unclear whether glucose is required for providing extra metabolic energy through glycolysis, or for generating some other metabolic product. In this study, the effects of sugars on human sperm capacitation, motility, and energy production were investigated. The glucose concentration that supported the greatest number of acrosome reactions was 5.56 mmol L(-1). Compared with incubations with no added sugar, this concentration of glucose, fructose, mannose, or galactose appeared to slightly increase the number of acrosome reactions occurring after 18 hours of capacitation, or following induction by 2 micromol A23187 + 3.6 mmol pentoxifylline L 1, but only glucose had a statistically significant effect. Glucose supported increased penetration of zona-free hamster oocytes, but its advantage was not statistically significant. The addition of 5.56 mmol glucose or fructose L(-1) to sugar-free medium immediately increased the adenosine triphosphate (ATP) concentration and motility of sperm. These parameters were then stable for 3 hours, but declined markedly after 18 hours. In the absence of a glycolysable sugar, motility began to decline in the first hour and only 2% or 3% of sperm remained motile after 18 hours. Glucose or fructose was required to support hyperactivated motility. 2-Deoxyglucose was detrimental to the ATP concentration and motility of sperm, and supported fewer spontaneous or progesterone-stimulated acrosome reactions than were observed in the absence of a sugar. We conclude that glycolytic ATP production is required for vigorous motility and hyperactivation in human sperm. Other products of glucose metabolism are not essential to support capacitation, but they may have a small, enhancing effect.
The effect of the anti-estrogen tamoxifen on cardiovascular risk factors in normal postmenopausal women. (1995)

There is growing interest in the use of anti-estrogens as agents of disease prevention. Studies of women with breast cancer suggest that the synthetic anti-estrogen tamoxifen may reduce the incidence of cardiovascular disease, but the effects of this agent on cardiovascular risk factors in healthy women have not been studied. We have performed a two-year, randomized, placebo-controlled trial to assess the effects of tamoxifen 20 mg/day on serum lipids, fibrinogen, and body composition in 57 normal postmenopausal women. Tamoxifen treatment lowered levels of serum cholesterol by (mean +/- SE) 12 +/- 2%, low density lipoprotein cholesterol by 19 +/- 3%, and fibrinogen by 18 +/- 4% (P < 0.0001 vs. placebo for each). Levels of high density lipoprotein cholesterol were not altered by tamoxifen, but the ratio of total cholesterol to HDL-cholesterol decreased by 11 +/- 4% (P < 0.001 vs. placebo). Tamoxifen did not affect levels of triglycerides, high density lipoprotein cholesterol subfractions, apolipoprotein A1, or glucose, and did not change body weight, body mass index, or body fat distribution. We conclude that tamoxifen significantly reduces the levels of atherogenic lipids and fibrinogen in normal postmenopausal women. The results suggest that the anti-estrogens may substantially reduce the risk of cardiovascular disease, which remains the most common cause of death among postmenopausal women.
Polymerase chain reaction in the diagnosis of Aspergillus endophthalmitis. (2001)

This study indicates that PCR was not only a more sensitive, but also a rapid diagnostic tool compared to the conventional mycological methods in the diagnosis of Aspergillus endophthalmitis.
Estimate Hand Poses Efficiently from Single Depth Images (2015)

This paper aims to tackle the practically very challenging problem of efficient and accurate hand pose estimation from single depth images. A dedicated two-step regression forest pipeline is proposed: given an input hand depth image, step one involves mainly estimation of 3D location and in-plane rotation of the hand using a pixel-wise regression forest. This is utilized in step two which delivers final hand estimation by a similar regression forest model based on the entire hand image patch. Moreover, our estimation is guided by internally executing a 3D hand kinematic chain model. For an unseen test image, the kinematic model parameters are estimated by a proposed dynamically weighted scheme. As a combined effect of these proposed building blocks, our approach is able to deliver more precise estimation of hand poses. In practice, our approach works at 15.6 frame-per-second (FPS) on an average laptop when implemented in CPU, which is further sped-up to 67.2 FPS when running on GPU. In addition, we introduce and make publicly available a data-glove annotated depth image dataset covering various hand shapes and gestures, which enables us conducting quantitative analyses on real-world hand images. The effectiveness of our approach is verified empirically on both synthetic and the annotated real-world datasets for hand pose estimation, as well as related applications including part-based labeling and gesture classification. In addition to empirical studies, the consistency property of our approach is also theoretically analyzed.
Adult Retinal Stem Cells Revisited (2010)

Recent advances in retinal stem cell research have raised the possibility that these cells have the potential to be used to repair or regenerate diseased retina. Various cell sources for replacement of retinal neurons have been identified, including embryonic stem cells, the adult ciliary epithelium, adult Müller stem cells and induced pluripotent stem cells (iPS). However, the true stem cell nature of the ciliary epithelium and its possible application in cell therapies has now been questioned, leaving other cell sources to be carefully examined as potential candidates for such therapies. The need for identification of the ontogenetic state of grafted stem cells in order to achieve their successful integration into the murine retina has been recognized. However, it is not known whether the same requirements may apply to achieve transplant cell integration into the adult human eye. In addition, the existence of natural barriers for stem cell transplantation, including microglial accumulation and abnormal extracellular matrix deposition have been demonstrated, suggesting that several obstacles need to be overcome before such therapies may be implemented. This review addresses recent scientific developments in the field and discusses various strategies that may be potentially used to design cell based therapies to treat human retinal disease.
Phenotypic and immunoregulatory analysis of intestinal T‐cells in patients with inflammatory bowel disease: evaluation of an in vitro model (1995)

Although a disturbed immune response to constituents of the gut mucosa has been implicated in the pathogenesis of inflammatory bowel disease, the mechanisms are still unclear. Intestinal T-cells derived from gut biopsies were propagated in vitro as single and co-cultures under different experimental conditions prior to flow cytometry. Intestinal T-cell lines from inflamed mucosa (n = 69) showed a significant (P < 0.001) decrease in CD4+ T-cells compared to T-cells from normal (n = 49) and uninflamed (n = 29) tissue specimens. Co-culturing of inflamed and uninflamed mucosa led to a normalization of CD4+ T-cells in cultures derived from inflamed mucosa. Analysis of supernatants revealed a significantly (P < 0.001) increased secretion of IL-4 under co-culture conditions. Moreover, stimulation of cultures derived from inflamed mucosa with rIL-4 led to a significant (P < 0.001) increase in CD4+ T-cells, whereas anti-IL-4 antibodies or IFN-gamma supplementation of T-cells derived from uninflamed mucosa significantly (P < 0.001) reduced the CD4+ subset. Treatment with IFN-gamma and anti-IL-4 antibodies did not affect the phenotype of T-cells derived from inflamed mucosa. These data suggest that IL-4 might play a key role in the intestinal immune response. Furthermore, this in vitro system allows the investigation of mucosal immune mechanisms in more detail under standardized conditions.
Chromatographic Recovery of Monosaccharides for the Production of Bioethanol from Wood (2010)

Chromatographic recovery of monosaccharides from concentrated-acid hydrolysates of spruce and birch was investigated for the production of bioethanol from lignocellulose. The effects of resin cross-linkage, column loading, and hydrolysate composition on the yield of monosaccharides and the productivity of the process were of particular interest. Three strong acid cation-exchange resins (gel type) were used. Chromatographic separation experiments were done in a batch column. Monosaccharides were recovered as a “center cut” between sulfuric acid and acetic acid. Hydroxymethyl furfural and furfural, which inhibit the fermentation of monosaccharides, were completely separated from the other components. The highest H2SO4−monosaccharide separation efficiency was obtained with a 6 wt % cross-linked resin. The monosaccharide−acetic acid separation efficiency was found to improve with increasing resin cross-linkage. In the case of high amounts of acetic acid in the hydrolysate, a resin with a high cross-link density is needed for a good yield of monosaccharides. With hydrolysates containing small amounts of acetic acid, a 6 wt % cross-linked resin was found to give the highest yield. The productivity of the process was found to increase with the resin cross-linkage (up to 8 wt %). The optimum column loading depends on whether a high monosaccharide yield or high productivity is desired. The highest yield is obtained with a low loading. As to the productivity, the optimum loading was found to be approximately 10 vol % of the bed volume.
A receptor model for tumor promoters: rational superposition of teleocidins and phorbol esters. (1988)

Four 12-O-tetradecanoyl-13-O-acetylphorbol-type tumor promoters--teleocidin, phorbol ester, aplysiatoxin, and ingenol ester--are superposed in an attempt to understand their common biological activity on the assumption that they may bind to the same receptor site. A method using three-dimensional computer graphics was applied for superposing molecules and receptor mapping. The main feature of the method is that molecules are superposed in terms of spatial arrangement of physical and chemical properties but not in terms of the atomic positions as in conventional methods. This led to successful extraction of common structural features required for potent tumor-promoting activity: two hydrogen donors, a hydrogen acceptor, and a large lipophilic group. Their mutual spatial arrangements are most important for biological activity.
The p150,95 molecule is a marker of human mononuclear phagocytes: Comparison with expression of class II molecules (1986)

A new monoclonal antibody (mAb), named 3.9, is described that is specific for the p150,95 molecule, a member of the LFA-1, CR3, p150,95 family of human leukocyte differentiation antigens. The LFA-1 molecule participates in a variety of T cell interactions and the CR3 molecule is the receptor for the complement component iC3b, but little is known about the p150,95 molecule. Here we show that the expression of p150,95 is confined to myeloid cells. mAb 3.9 reacts variably with neutrophils, more strongly with monocytes and is most strongly expressed on tissue macrophages. Using this mAb and others, we have examined the heterogeneity of tissue macrophages. Cells such as Langerhans' cells, dendritic reticulum cells and osteoclasts failed to react with these mAb and thus, probably do not belong to the mononuclear phagocyte lineage. Using a new double-labeling technique, we investigated lymphoid tissue for dendritic cells bearing class II molecules which might function in interactions with T cells. In T cell areas macrophages expressing class II markers were seen but there was no evidence for other types of dendritic or interdigitating cells which expressed class II molecules but not macrophage epitopes. The conclusion from this survey was that the most prominent cell with dendritic morphology found in the T cell areas of lymphoid tissue was a macrophage.
A language for compositional specification and verification of finite state hardware controllers (1991)

The authors consider the state machine language (SML) for describing complex finite state hardware controllers. It provides many of the standard control structures found in modern programming languages. The state tables produced by the SML compiler can be used as input to a temporal logic model checker that can automatically determine whether a specification in the logic CTL is satisfied. The authors describe extensions to SML for the design of modular controllers. These extensions allow a compositional approach to model checking which can substantially reduce its complexity. To demonstrate these methods, the authors discuss the specification and verification of a simple central-processing-unit (CPU) controller.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>