gebhart/patrepeval huggingface dataset:
New Considerations in the Treatment of Compromised Third Molars (2004)

Management of asymptomatic malposed third molars is a controversial topic. As a result, many malposed or mildly pathologic third molars are not removed. Historical pro and con arguments regarding removal centered around cost and the aspects of the surgical removal itself. Current epidemiology and medical advances address issues not considered before. There is a large growth of the aging population (over 40 years). More and more of these elderly patients are requiring third molar removal. Over a five-year period, 1997-2002, the incidence almost doubled to 17.9 percent. This age category is known to be high risk for third molar surgery. An equally or higher risk is the rapidly growing number of patients seeking third molar surgery who are moderately severely medically compromised. This paper reviews how this lack of consensus results in delayed removal of malposed third molars in this population. Preventive dental concepts, removing compromised third molars earlier, would eliminate the high risk to this aging population.
Precompiled codon-usage tables (2000)

Given the variety of codon usage by different organisms and organelles, this centralized codon-usage resource is invaluable.
Pharmaceutical modulation of canonical Wnt signaling in multipotent stromal cells for improved osteoinductive therapy (2010)

Human mesenchymal stem cells (hMSCs) from bone marrow are regarded as putative osteoblast progenitors in vivo and differentiate into osteoblasts in vitro. Positive signaling by the canonical wingless (Wnt) pathway is critical for the differentiation of MSCs into osteoblasts. In contrast, activation of the peroxisome proliferator-activated receptor-gamma (PPARgamma)-mediated pathway results in adipogenesis. We therefore compared the effect of glycogen-synthetase-kinase-3beta (GSK3beta) inhibitors and PPARgamma inhibitors on osteogenesis by hMSCs. Both compounds altered the intracellular distribution of beta-catenin and GSK3beta in a manner consistent with activation of Wnt signaling. With osteogenic supplements, the GSK3beta inhibitor 6-bromo-indirubin-3'-oxime (BIO) and the PPARgamma inhibitor GW9662 (GW) enhanced early osteogenic markers, alkaline phosphatase (ALP), and osteoprotegerin (OPG) by hMSCs and transcriptome analysis demonstrated up-regulation of genes encoding bone-related structural proteins. At higher doses of the inhibitors, ALP levels were attenuated, but dexamethasone-induced biomineralization was accelerated. When hMSCs were pretreated with BIO or GW and implanted into experimentally induced nonself healing calvarial defects, GW treatment substantially increased the capacity of the cells to repair the bone lesion, whereas BIO treatment had no significant effect. Further investigation indicated that unlike GW, BIO induced cell cycle inhibition in vitro. Furthermore, we found that GW treatment significantly reduced expression of chemokines that may exacerbate neutrophil- and macrophage-mediated cell rejection. These data suggest that use of PPARgamma inhibitors during the preparation of hMSCs may enhance the capacity of the cells for osteogenic cytotherapy, whereas adenine analogs such as BIO can adversely affect the viability of hMSC preparations in vitro and in vivo.
The HMG-I(Y) A·T-hook Peptide Motif Confers DNA-binding Specificity to a Structured Chimeric Protein (1999)

Chromosomal translocations involving genes coding for members of the HMG-I(Y) family of "high mobility group" non-histone chromatin proteins (HMG-I, HMG-Y, and HMG-IC) have been observed in numerous types of human tumors. Many of these gene rearrangements result in the creation of chimeric proteins in which the DNA-binding domains of the HMG-I(Y) proteins, the so-called A.T-hook motifs, have been fused to heterologous peptide sequences. Although little is known about either the structure or biophysical properties of these naturally occurring fusion proteins, the suggestion has been made that such chimeras have probably assumed an altered in vivo DNA-binding specificity due to the presence of the A.T-hook motifs. To investigate this possibility, we performed in vitro "domain-swap" experiments using a model protein fusion system in which a single A. T-hook peptide was exchanged for a corresponding length peptide in the well characterized "B-box" DNA-binding domain of the HMG-1 non-histone chromatin protein. Here we report that chimeric A. T-hook/B-box hybrids exhibit in vitro DNA-binding characteristics resembling those of wild type HMG-I(Y) protein, rather than the HMG-1 protein. These results strongly suggest that the chimeric fusion proteins produced in human tumors as a result of HMG-I(Y) gene chromosomal translocations also retain A.T-hook-imparted DNA-binding properties in vivo.
Inflammation–Nature's Way to Efficiently Respond to All Types of Challenges: Implications for Understanding and Managing “the Epidemic” of Chronic Diseases (2018)

Siloed or singular system approach to disease management is common practice, developing out of traditional medical school education. Textbooks of medicine describe a huge number of discrete diseases, usually in a systematic fashion following headings like etiology, pathology, investigations, differential diagnoses, and management. This approach suggests that the body has a multitude of ways to respond to harmful incidences. However, physiology and systems biology provide evidence that there is a <i>simple</i> mechanism behind this phenotypical variability. Regardless if an injury or change was caused by trauma, infection, non-communicable disease, autoimmune disorders, or stress, the typical physiological response is: an increase in blood supply to the area, an increase in white cells into the affected tissue, an increase in phagocytic activity to remove the offending agent, followed by a down-regulation of these mechanisms resulting in healing. The <i>cascade of inflammation</i> is the body's unique mechanism to maintain its integrity in response to macroscopic as well as microscopic injuries. We hypothesize that chronic disease development and progression are linked to uncontrolled or dysfunctional inflammation to injuries regardless of their nature, physical, environmental, or psychological. Thus, we <i>aim to reframe</i> the prevailing approach of management of individual diseases into a more integrated systemic approach of treating the "person as a whole," enhancing the patient experience, ability to a make necessary changes, and maximize overall health and well-being. The first part of the paper reviews the local immune cascades of pro- and anti-inflammatory regulation and the interconnected feedback loops with neural and psychological pathways. The second part emphasizes one of nature's principles at work-<i>system design</i> and <i>efficiency</i>. Continually overwhelming this finely tuned system will result in systemic inflammation allowing chronic diseases to <i>emerge</i>; the pathways of several common conditions are described in detail. The final part of the paper considers the implications of these understandings for clinical care and explore how this lens could shape the physician-patient encounter and health system redesign. We conclude that healthcare professionals must advocate for an anti-inflammatory lifestyle at the patient level as well as at the local and national levels to enhance population health and well-being.
Unnatural base pairs for specific transcription (2001)

An unnatural base pair of 2-amino-6-(N,N-dimethylamino)purine (designated as x) and pyridin-2-one (designated as y) has been developed for specific transcription. The ribonucleoside triphosphates of y and a modified y, 5-methylpyridin-2-one, are selectively incorporated into RNA opposite x in the templates by T7 RNA polymerase. In addition, the sequences of the DNA templates containing x can be confirmed by a dideoxynucleotide chain-terminator method supplemented with the deoxynucleoside triphosphate of y. The bulky dimethylamino group of x in the templates effectively eliminates noncognate pairing with the natural bases. These results enable RNA biosynthesis for the specific incorporation of unnatural nucleotides at the desired positions.
Ultrasensitive QRS made by supramolecular assembly of functionalized cyclodextrins and graphene for the detection of lung cancer VOC biomarkers (2014)

A novel electronic nose system comprising functionalized β-cyclodextrin wrapped reduced graphene oxide (RGO) sensors with distinct ability of discrimination of a set of volatile organic compounds has been developed. Non-covalent modification of chemically functionalized cyclodextrin with RGO is carried out by using pyrene adamantane as a linker wherever necessary, in order to construct a supramolecular assembly. The chemical functionality on cyclodextrin is varied utilising the principle of selective chemical modification of cyclodextrin. In the present study, the combined benefits of the host-guest inclusion complex formation ability and tunable chemical functionality of cyclodextrin, as well as the high surface area and electrical conductivity of graphene, are utilized for the development of a set of highly selective quantum resistive chemical vapour sensors (QRS), which can be assembled in an electronic nose.
Do Low Cholesterol Levels Slow Mental Processing? (1995)

The plasma cholesterol levels of 279 students were measured and related to decision and movement times in choice reaction time tasks with one, two, four, and eight lamps. In female subjects, low plasma cholesterol levels were associated with slower movement times and, when responding to one or two lamps, slower decision times. In male subjects, there was a nonlinear relationship between cholesterol level and decision times. Because these data are correlational in nature, it is not possible to assume a causal relationship between cholesterol levels and speed of mental processing. The literature, however, supports the suggestion that further work should consider the possibility of a causal relationship.
Synergistic Antitumor Activity of Gemcitabine and ABT-737 In Vitro and In Vivo through Disrupting the Interaction of USP9X and Mcl-1 (2011)

The Bcl-2 antagonist ABT-737 targets Bcl-2/Bcl-xL, but not Mcl-1, which may confer resistance to this agent in various cancers with high levels of Mcl-1. Here, we showed that the combination of gemcitabine and ABT-737 exhibited synergistic cytotoxicity and induced significant apoptosis in multiple cancer types, including lung, renal, bladder, and prostate cancers. The enhanced apoptosis induced by gemcitabine plus ABT-737 was accompanied by the greater extent of mitochondrial depolarization, caspases-3 activation, and PARP cleavage in 95-D and 5637 cell lines. Importantly, in ABT-737-resistant cancer cells, the interaction between USP9X and Mcl-1, which was increased by ABT-737 treatment, could be disrupted by gemcitabine, thus resulting in enhanced ubiquitination and the subsequent degradation of Mcl-1 and ultimately in the synergism of these two drugs. Moreover, the increased anticancer efficacy of gemcitabine combined with ABT-737 was further validated in a human lung cancer 95-D xenograft model in nude mice. Taken together, our data first showed the synergistic anticancer capabilities achieved by combining gemcitabine and ABT-737 and, second, opened new opportunities to use antiapoptotic Bcl-2 family members, which drive tumor cell resistance in current anticancer therapies, therapeutically.
Enantioselective Tandem O-Nitroso Aldol/Michael Reaction (2004)

This communication presents studies that illustrated nitroso Diels-Alder adduct has been obtained in uniformly high enantioselectivity via a tandem nitroso aldol/Michael reaction using an amine catalyst. The regiochemical outcome of this construction is documented to be the opposite to that of the normal nitroso aldol reaction, which has been determined by X-ray analysis. The reaction of the enone with silver-BINAP catalyst has also been investigated in conjunction with the control of regiochemistry in a stepwise process.
Catabolism and biologic properties of two species of rat IgG2a Fc fragments. (1977)

Prolonged papain digestion of rat IgG2a has recently been shown to yield two species of Fc fragments, termed Fc(I) AND Fc(II). The results of structural studies indicated that Fc(II) fragment was 15 to 20% smaller than Fc(I), probably secondary to loss of a carboxy-terminal peptide. The effects of these structural laterations on the catabolism and biologic properties of the Fc fragments were determined. The results of catabolic experiments indicated that after injection into normal rats Fc(I) fragments were retained in the circulation and slowly catabolized whereas Fc(II) fragments rapidly underwent filtration in the kidneys. In nephrectomized rats, however, both Fc(I) and Fc(II) fragments possessed identical slow rates of catabolism, as determined by serum disappearance and whole body catabolic experiments. Fragment pFc, corresponding to Cgamma3 domain, was different from either of the Fc fragments in exhibiting rapid rates of catabolism in both normal and nephrectomized rats. Fc(I) was more active in complement fixation and in adherence to the Fc receptor on monocytes in comparison with Fc(II). These results support the conclusion that catabolism of Fc and maintenance in circulation are separate processes influenced by different structures in the Fc fragment. The catabolism of Fc is controlled by structures in the Cgamma2 domain. This process probably is not related either to complement fixation or to adherence to the Fc receptor on monocytes. Some correlations between the structure and biologic properties of these Fc fragments are discussed.
Steroid Receptors: Elements for Modulation of Eukaryotic Transcription (1976)

The Hippo pathway was initially discovered in Drosophila melanogaster as a key regulator of tissue growth. It is an evolutionarily conserved signaling cascade regulating numerous biological processes, including cell growth and fate decision, organ size ...Read More
The Dutch hypothesis (chronic non-specific lung disease) revisited (1991)

In 1961 the hypothesis (later referred to as the Dutch Hypothesis (DH)) was put forward that asthma, chronic bronchitis and emphysema should be considered as different expressions of one disease entity, in which both endogenous (host) and exogenous (environmental) factors play a role in the pathogenesis. A hereditary predisposition to develop allergy and bronchial hyperreactivity were considered to be important denominators of disease susceptibility. Complications and complicating diseases would also contribute to the ultimate phenotype of the patient. In the present paper we discuss the relevance of this hypothesis in 1990. Until now it has not been refuted; circumstantial evidence in its favour has accumulated, but formal proof is still lacking. Further research should pay more attention to the genetic aspects of the disease. Arguments are presented against the use of the terms asthma, chronic bronchitis, and emphysema as indicators of disease entities, and in favour of the use of an umbrella-term, e.g. chronic non-specific lung disease (CNSLD), provided that, in addition, every patient is characterized using so-called defining criteria.
A Randomized Trial of Aspirin to Prevent Colorectal Adenomas in Patients with Previous (2003)

Sandler, Robert S.; Halabi, Susan; Baron, John A.; Budinger, Susan; Paskett, Electra; Keresztes, Roger; Petrelli, Nicholas; Pipas, Marc; Karp, Daniel D.; Loprinzi, Charles L.; Steinbach, Gideon; Schilsky, Richard
Percutaneous Endovascular Aortic Aneurysm Repair: A Prospective Evaluation of Safety, Efficiency, and Risk Factors (2009)

Percutaneous EVAR using the Prostar XL is safe, with minimal early and late complications. Operator experience is one of the most significant predictors of success. Anterior wall calcification and severe fibrosis of the access vessel are also predictors of primary failure, whereas obesity and sheath size are not.
Thermal Wave Based on the Thermomass Model (2010)

In times comparable to the characteristic time of the energy carriers, Fourier’s law of heat conduction breaks down and heat may propagate as waves. Based on the concept of thermomass, which is defined as the equivalent mass of phonon gas in dielectrics, according to the Einstein’s mass-energy relation, the phonon gas in the dielectrics is described as a weighty, compressible fluid. Newton mechanics has been applied to establish the equation of state and the equation of motion for the phonon gas as in fluid mechanics, because the drift velocity of a phonon gas is normally much less than the speed of light. The propagation velocity of the thermal wave in the phonon gas is derived directly from the equation of state for the phonon gas, rather than from the relaxation time in the Cattaneo–Vernotte (CV) model (Cattaneo, C., 1948, “Sulla Conduzione Del Calore,” Atti Semin. Mat. Fis. Univ. Modena, 3, pp. 83–101; Vernotte, P., 1958, “Paradoxes in the Continuous Theory of the Heat Equation,” C. R. Acad. Bulg. Sci., 246, pp. 3154–3155). The equation of motion for the phonon gas gives rise to the thermomass model, which depicts the general relation between the temperature gradient and heat flux. The linearized conservation equations for the phonon gas lead to a damped thermal wave equation, which is similar to the CV-wave equation, but with different characteristic time. The lagging time in the resulting thermal wave equation is related to the wave velocity in the phonon gas, which is approximately two orders of magnitude larger than the relaxation time adopted in the CV-wave model for the lattices. A numerical example for fast transient heat conduction in a silicon film is presented to show that the temperature peaks resulting from the thermomass model are much higher than those resulting from the CV-wave model. Due to the slower thermal wave velocity in the phonon gas, by as much as one order of magnitude, the damage due to temperature overshooting may be more severe than that expected from the CV-wave model.
Polyurethane: An Introduction (2012)

The discovery of polyurethane [PU] dates back to the year 1937 by Otto Bayer and his coworkers at the laboratories of I.G. Farben in Leverkusen, Germany. The initial works focussed on PU products obtained from aliphatic diisocyanate and diamine forming polyurea, till the interesting properties of PU obtained from an aliphatic diisocyanate and glycol, were realized. Polyisocyanates became commercially available in the year 1952, soon after the commercial scale production of PU was witnessed (after World War II) from toluene diisocyanate (TDI) and polyester polyols. In the years that followed (1952-1954), different polyester-polyisocyanate systems were developed by Bayer.
Studies Made by Simulating Systole at Necropsy (1959)

In a preceding communication 1 I have suggested that we are now in a position to look more closely at the higher dynamic aspects of cardiac function in our patients. From an analogy with common experience in automobiles, it is reasonable to expect that the first sign of myoeardial weakness will manifest itself in diminished ability to accelerate the blood, that is, in diminished cardiac forces. In this study we aim to establish a clinical method of detecting abnormalities of the initial cardiac forces by means of the ballistocardiogram.
Stable Transduction of the Interleukin-2 Gene Into Human Natural Killer Cell Lines and Their Phenotypic and Functional Characterization In Vitro and In Vivo (1998)

A variety of strategies have been attempted in the past to stably transduce natural killer (NK) cells with cytokine or other cellular genes. Here, we demonstrate the successful delivery of the interleukin-2 (IL-2) gene into two human NK cell lines, IL-2-dependent NK-92 and IL-2-independent YT, by retroviral transduction. An MuLV-based retroviral vector expressing human IL-2 and neor markers from a polycistronic message was constructed and transduced into a CRIP packaging cell line. By coincubation of NK cells with monolayers of CRIP cells or by using retrovirus-containing supernatants in a flow-through method, 10% to 20% of NK cells were stably transduced. Upon selection in the presence of increasing G418 concentrations, transduced NK cells were able to proliferate independently of IL-2 for more than 5 months and to secrete up to 5.5 ng/10(6) cells/24 h of IL-2. IL-2 gene-transduced NK-92 cells had an in vitro cytotoxicity against tumor targets that was significantly higher than that of parental cells and secreted interferon gamma (IFNgamma) and tumor necrosis factor alpha (TNFalpha) in addition to IL-2. Moreover, the in vivo antitumor activity of IL-2 gene-transduced NK-92 cells against established 3-day liver metastases in mice was greater than that of parental nontransduced NK cells. Stable expression of the IL-2 transgene in NK cells improved their therapeutic potential in tumor-bearing hosts. Thus, transduced NK cells secreted sufficient quantities of bioactive IL-2 to proliferate in vitro and mediated the antitumor effects both in vitro and in vivo in the absence of exogenous IL-2. These results suggest that genetic modification of NK cells ex vivo could be useful for clinical cancer therapy in the future.
Role of Immunohistochemical Overexpression of Matrix Metalloproteinases MMP-2 and MMP-11 in the Prognosis of Death by Ovarian Cancer (2008)

Matrix metalloproteinases (MMPs) are enzymes thought to be involved in tumor invasion. We hypothesized that MMP-2 and MMP-11 overexpression was associated with the aggressiveness of ovarian carcinoma. This study was performed on samples from 100 patients with stage III ovarian carcinomas treated surgically between 1990 and 2000. Immunohistochemical staining was performed on ovarian tumors and peritoneal implants using monoclonal antibodies. Overexpression was defined as more than 10% of cells expressing the marker. Multivariate analyses showed that only MMP-2 overexpression by cancer cells in peritoneal implants was associated with a significant risk of death by disease (hazard ratio, 2.65; 95% confidence interval, 1.41-4.97; P =.003). MMP-11 overexpression was not predictive of survival. These results suggest that MMP-2 overexpression by cancer cells in peritoneal implants and not in the primary ovarian cancer is predictive of ovarian cancer prognosis and more likely reflects the presence of particularly aggressive clones of cancer cells.
Genetic variation in hepatitis B virus (1996)

In wild type isolates of hepatitis B virus (HBV), the sequence of the genome may vary in up to 10% of nucleotide positions despite conservation of coding and function. Changes as small as of a single base, however, may disrupt expression of viral proteins. For example, precore mutants fail to synthesize HBeAg and point mutations in the region encoding the a determinant of HBsAg may have a profound effect on antigenicity. Investigation of HBV sequences in virus from patients with unusual serological profiles continues to reveal novel variants.