gebhart/patrepeval huggingface dataset:
Mild Iridium-Catalyzed Borylation of Arenes. High Turnover Numbers, Room Temperature Reactions, and Isolation of a Potential Intermediate (2001)

The borylation of arenes leads to the formation of synthetically versatile products from unactivated arene reagents. We report that Ir(I) precursors in conjunction with bipyridine ligands catalyze in high yields the borylation of arenes under mild conditions. These reactions encompase arenes bearing both electron-withdrawing and electron-donating substituents. The temperatures required for the transformation are much lower than those previously reported for direct arene borylation. The combination of [Ir(COE)2Cl]2 and (4,4-di-t-butyl)bipyridine even allows for reaction at room temperature. The same catalyst system at 100 degrees C provides remarkably high turnover numbers for a hydrocarbon functionalization process. Mechanistic studies show that the reactions involve uncommon, Ir(II) tris-boryl complexes. An example of this type of complex ligated by di-t-butylbipyridine was isolated and structurally characterized. It reacted rapidly at room temperature to produce aryl boronate esters in high yields.
Pulse oximetry: Accuracy of methods of interpreting graphic summaries (1996)

Although pulse oximetry has been used to determine the frequency and extent of hemoglobin desaturation during sleep, movement artifact can result in overestimation of desaturation unless valid desaturations can be identified accurately. Therefore, we determined the accuracy of pulmonologists' and technicians' interpretations of graphic displays of desaturation events, derived an objective method for interpreting such events, and validated the method on an independent data set. Eighty-seven randomly selected desaturation events were classified as valid (58) or artifactual (29) based on cardiorespiratory recordings (gold standard) that included pulse waveform and respiratory inductive plethysmography signals. Using oximetry recordings (test method), nine pediatric pulmonologists and three respiratory technicians ("readers") averaged 50 +/- 11% (SD) accuracy for event classification. A single variable, the pulse amplitude modulation range (PAMR) prior to desaturation, performed better in discriminating valid from artifactual events with 76% accuracy (P < 0.05). Following a seminar on oximetry and the use of the PAMR method, the readers' accuracy increased to 73 +/- 2%. In an independent set of 73 apparent desaturation events (74% valid, 26% artifactual), the PAMR method of assessing oximetry graphs yielded 82% accuracy; transcutaneous oxygen tension records confirmed a drop in oxygenation during 49 of 54 (89%) valid desaturation events. In conclusion, the most accurate method (91%) of assessing desaturation events requires recording of the pulse and respiratory waveforms. However, a practical, easy-to-use method of interpreting pulse oximetry recordings achieved 76-82% accuracy, which constitutes a significant improvement from previous subjective interpretations.
Support for the file system security requirements of computational E-mail systems (1994)

Computational e-mail systems, which allow mail messages to contain command scripts that automatically execute upon receipt, can be used as a basis for building a variety of collaborative applications. However, their use also presents a serious security problem because a command script from a sender may access/modify receiver's private files or execute applications on receiver's behalf. Existing solutions to the problem either severely restrict I/O capability of scripts, limiting the range of applications that can be supported over computational e-mail, or permit all I/O to scripts, potentially compromising the security of the receiver's files. Our model, called the intersection model of security, permits I/O for e-mail from trusted senders but without compromising the security of private files. We describe two implementations of our security model: an interpreter-level implementation and an operating systems-level implementation. We discuss the tradeoffs between the two implementations and suggest directions for future work.
Networks of Coevolving Sites in Structural and Functional Domains of Serpin Proteins (2005)

Amino acids do not occur randomly in proteins; rather, their occurrence at any given site is strongly influenced by the amino acid composition at other sites, the structural and functional aspects of the region of the protein in which they occur, and the evolutionary history of the protein. The goal of our research study is to identify networks of coevolving sites within the serpin proteins (serine protease inhibitors) and classify them as being caused by structural-functional constraints or by evolutionary history. To address this, a matrix of pairwise normalized mutual information (NMI) values was computed among amino acid sites for the serpin proteins. The NMI matrix was partitioned into orthogonal patterns of amino acid variability by factor analysis. Each common factor pattern was interpreted as having phylogenetic and/or structural-functional explanations. In addition, we used a bootstrap factor analysis technique to limit the effects of phylogenetic history on our factor patterns. Our results show an extensive network of correlations among amino acid sites in key functional regions (reactive center loop, shutter, and breach). Additionally, we have discovered long-range coevolution for packed amino acids within the serpin protein core. Lastly, we have discovered a group of serpin sites which coevolve in the hydrophobic core region (s5B and s4B) and appear to represent sites important for formation of the "native" instead of the "latent" serpin structure. This research provides a better understanding on how protein structure evolves; in particular, it elucidates the selective forces creating coevolution among protein sites.
Long‐term follow‐up of sacral neuromodulation for lower urinary tract dysfunction (2013)

SNM appears effective in the long-term with a success rate after definitive IPG implant of ≈70% and complete cure rates ranging between 20% and 58% depending on indication. Patients with idiopathic retention appear to do best. The re-intervention rate is high with most occurring ≤2 years of implantation. It is likely that with the newer techniques used, efficacy and re-intervention rates will improve.
Novel combination therapy for human colon cancer with adenovirus‐mediated wild‐type p53 gene transfer and DNA‐damaging chemotherapeutic agent (1997)

Alteration of the wild-type (wt) p53gene by mutation, deletion or re-arrangement is a major factor in the development of human colon cancer. Recent studies have demonstrated that p53 might be an essential component of the apoptotic pathway triggered by DNA-damaging stimuli such as chemotherapeutic agents and ionizing radiation. We examined the anti-tumor effects of adenovirus-mediated wt-p53 gene transfer in combination with a chemotherapeutic drug on the human colon cancer cell line WiDr, which is homozygous for a mutation in the p53 gene. Treatment with the chemotherapeutic drug cisplatin following infection with a replication-deficient, recombinant adenoviral vector expressing wt-p53 (termed AdCMVp53) significantly suppressed the growth of WiDr cells compared to single treatments alone. To evaluate the in vivo efficacy of AdCMVp53 and cisplatin given sequentially, WiDr cells were inoculated s.c. in nu/nu mice. After 3 days, AdCMVp53 was injected s.c. into the area where tumor cells were implanted, followed by i.p. administration of cisplatin. Analysis of initial growth inhibition at 21 days demonstrated a profound therapeutic cooperativity, though administration of either AdCMVp53 or cisplatin alone was followed only by a slowing of growth. Our results suggest that gene therapy using wt-p53-expressing adenovirus in combination with a chemotherapeutic DNA-damaging drug could be a useful strategy for treating human colon cancer. Int. J. Cancer 73:367–370, 1997. © 1997 Wiley-Liss, Inc.
The farnesyl protein transferase inhibitor BZA-5B blocks farnesylation of nuclear lamins and p21ras but does not affect their function or localization. (1995)

BZA-5B is a peptidomimetic inhibitor of protein farnesylation in mammalian cells. We have examined the specificity of this compound toward inhibition of farnesylation of p21ras and the nuclear lamin proteins, prelamin A and lamin B. We have also used the Raney nickel cleavage technique in conjunction with radio-gas liquid chromatography to assess the ability of this compound to block total protein farnesylation. These studies show that BZA-5B blocks farnesylation of the lamin proteins with an IC50 comparable to that seen for p21ras. At a concentration in excess of 25 microM, BZA-5B inhibits all protein farnesylation in CHO-K1 cells below the limits of detection. Furthermore, we found that after a 2-day exposure to high concentrations of BZA-5B, CHO-K1 cell lines exhibit no loss in sensitivity to inhibition of prenylation by this compound. Yet, despite the potent and general inhibition of protein farnesylation, BZA-5B does not interfere with a variety of cellular functions expected to be farnesylation dependent, including cell growth and viability, assembly of the nuclear lamina, membrane association of p21ras, and p21ras-dependent differentiation of PC-12 cells in response to treatment with nerve growth factor. The maintenance of farnesylation-dependent events in the presence of BZA-5B stands in marked contrast to the inhibition of the oncogenic ras-mediated transformed phenotype that has been observed with this compound and other farnesyl protein transferase inhibitors. This specificity for inhibition of ras transformation by BZA-5B is quite encouraging to its eventual development as an antimalignancy pharmaceutical.
Hierarchical structure and porosity in UiO-66 polyMOFs (2017)

The first polymer-MOF hybrid material (polyMOF) with a UiO-66 architecture is reported, prepared from polymers with varying alkyl spacers, molecular weights, and dispersities. With appropriate spacing, mesoporous UiO-66 polyMOF can be obtained having an uncommon, interlaced crystal morphology, suggesting that polyMOFs can be used to generate MOF materials with hierarchical architectures.
Selective methylation of kaempferol via benzylation and deacetylation of kaempferol acetates (2015)

A strategy for selective mono-, di- and tri-O-methylation of kaempferol, predominantly on the basis of selective benzylation and controllable deacetylation of kaempferol acetates, was developed. From the selective deacetylation and benzylation of kaempferol tetraacetate (1), 3,4',5,-tri-O-acetylkaempferol (2) and 7-O-benzyl-3,4'5,-tri-O-acetylkaempferol (8) were obtained, respectively. By controllable deacetylation and followed selective or direct methylation of these two intermediates, eight O-methylated kaempferols were prepared with 51-77% total yields from kaempferol.
A Study on The Basic Skin Makeup Products Consuming Patterns of Female College Students lived in Metropolitan Area of Seoul (2005)

The purpose of this research is to analyze the patterns on consuming basic skin makeup products of female college students, and to provide basic information to understand the patterns of ordinary consumers. The survey was included 283 female students from 5 colleges located in metropolitan area of Seoul. The survey data were analyzed by one-way ANOVA, Duncan test, T-test, chi-scuare-test methods. The results are as follows : 1. 60% of the college students of metropolitan area are doing basic skin makeup for aesthetic reasons in most cases, eye makeup is regarded the most important part, so 92% students have experienced to buy imported cosmetic products because of it's better absorption to skin. 2. Significant correlations were found between the skin types and dissatisfaction about foundation after using. 3. According to demographic variables, significant correlations were found between grade and makeup extent, grade and the reasons why they use imported products. 4. According to demographic variables, significant correlations were found between grade and foundation types used, monthly average living expense and purchasing channels, grade and purchasing channels, price level of the currently using face powder and monthly average living expense, monthly average spending for cosmetic products and level of wealth, price level of the currently using foundation and monthly average living expense. 5. According to demographic variables, significant differences were found in monthly average living expense, monthly average spending for cosmetic product, mother's job, grade.
Double layer supercapacitor properties of onion‐like carbon materials (2008)

Abstract This paper describes the electrochemical performance of carbon onions as electrode materials in electrical double layer capacitors with water electrolytes. Onion‐like carbon (OLC) species were produced by vacuum annealing of detonation nanodiamonds (NDs) powder at 1170–2170 K. The material capability of the charge accumulation in the electric double layer was estimated using the voltammetric technique. The correlations between specific capacitance, surface area and conductivity were found. Charge‐discharge measurements revealed a dependence of the specific capacitance of OLC on the degree of diamond particle graphitization and defectness of particle surfaces. Promising capacitance values, ranging within 20−40 F g –1 and within 70−100 F g –1 were found for the OLC materials operating respectively in acid electrolytic solution (1 M H 2 SO 4 ) and alkaline electrolytic solution (6 M KOH). (© 2008 WILEY‐VCH Verlag GmbH &amp; Co. KGaA, Weinheim)
Factors Influencing Agonist Potency and Selectivity for the Opioid δ Receptor Are Revealed in Structure−Activity Relationship Studies of the 4-[(N-Substituted-4-piperidinyl)arylamino]-N,N-diethylbenzamides (2001)

A study of the effect of transposition of the internal nitrogen atom for the adjacent benzylic carbon atom in delta-selective agonists such as BW373U86 (1) and SNC-80 (2) has been undertaken. It was shown that high-affinity, fully efficacious, and delta opioid receptor-selective compounds can be obtained from this transposition. In addition to the N,N-diethylamido group needed as the delta address, the structural features identified to promote delta receptor affinity in the set of compounds studied included a cis relative stereochemistry between the 3- and 4-substituents in the piperidine ring, a trans-crotyl or allyl substituent on the basic nitrogen, the lack of a 2-methyl group in the piperidine ring, and either no substitution or hydroxyl substitution in the aryl ring not substituted with the N,N-diethylamido group. Structural features found to be important for mu affinity include hydroxyl substitution in the aryl ring, the presence of a 2-methyl group in a cis relative relationship to the 4-amino group as well as N-substituents such as cyclopropylmethyl. It was also determined that mu receptor affinity could be increased while maintaining delta receptor affinity, especially when hydroxyl-substituted compounds are considered. Additionally, it was discovered that the somewhat lower mu/delta selectivities observed for the piperidine compounds relative to the piperazine-based ligands appear to arise as a consequence of the carbon-nitrogen transposition which imparts an overall lower delta and higher mu affinity to the piperidine-based ligands. This higher affinity for the mu receptor, apparently intrinsic to the piperidine-based compounds, suggests that ligands of this class will more easily be converted to mu/delta combination agonists compared to the piperazine ligands such as 1. This is particularly important since analogues of 1, which show both mu- and delta-type activity, are now recognized as important for their strong analgesia and cross-canceling of many of the side effects found in agonists operating exclusively from either the delta or mu opioid receptor.
Self-Complementary Recombinant Adeno-Associated Viral Vectors: Packaging Capacity And The Role of Rep Proteins in Vector Purity (2007)

Self-complementary adeno-associated viral (scAAV) vectors bypass the requirement for viral second-strand DNA synthesis, but the packaging capacity of these vectors ( approximately 2.4 kb) is significantly smaller than that of conventional AAV vectors ( approximately 4.8 kb). We constructed human recombinant green fluorescent protein (hrGFP) expression cassettes ranging from 2.3 to 4.1 kb. Each vector was biologically active, but the transduction efficiency of vectors containing <3.3-kb genomes was significantly higher than those containing 3.5-kb genomes or larger. However, scAAV vectors containing up to approximately 3.3-kb genomes also contained single-stranded genomes, and 3.5-kb and larger genomes were packaged only as single-stranded DNA. These data suggest that the maximum packaging capacity of scAAV vectors is approximately 3.3 kb. The production of single-stranded genomes was not due to repair of the terminal resolution site (trs) in the inverted terminal repeats in the AAV genome, but rather was partly due to the use of AAV helper plasmid, known to lead to higher levels of expression of Rep proteins. The use of a helper plasmid known to lead to reduced levels of Rep proteins led to the generation of scAAV vectors that contained approximately 90% of the viral genomes in double-stranded forms. These studies demonstrate the feasibility of achieving encapsidation of larger genomes into scAAV vectors than was suggested originally, but underscore the need to exercise caution in using the appropriate helper plasmid to generate scAAV stocks capable of high-efficiency transduction that are relatively free of single-stranded DNA-containing vectors.
Next-generation carrier screening (2013)

Our next-generation DNA sequencing-based approach yields the accuracy and completeness necessary for a carrier screening test.
Observation of Measles Virus Cell-to-Cell Spread in Astrocytoma Cells by Using a Green Fluorescent Protein-Expressing Recombinant Virus (1999)

A recombinant measles virus (MV) which expresses enhanced green fluorescent protein (EGFP) has been rescued. This virus, MVeGFP, expresses the reporter gene from an additional transcription unit which is located prior to the gene encoding the measles virus nucleocapsid protein. The recombinant virus was used to infect human astrocytoma cells (GCCM). Immunocytochemistry (ICC) together with EGFP autofluorescence showed that EGFP is both an early and very sensitive indicator of cell infection. Cells that were EGFP-positive and ICC-negative were frequently observed. Confocal microscopy was used to indirectly visualize MV infection of GCCM cells and to subsequently follow cell-to-cell spread in real time. These astrocytoma cells have extended processes, which in many cases are intimately associated. The processes appear to have an important role in cell-to-cell spread, and MVeGFP was observed to utilize them in the infection of surrounding cells. Heterogeneity was seen in cell-to-cell spread in what was expected to be a homogeneous monolayer. In tissue culture, physical constraints govern the integrity of the syncytia which are formed upon extensive cell fusion. When around 50 cells were fused, the syncytia rapidly disintegrated and many of the infected cells detached. Residual adherent EGFP-positive cells were seen to either continue to be involved in the infection of surrounding cells or to remain EGFP positive but no longer participate in the transmission of MV infection to neighboring cells.
Immunizing Patients With Metastatic Melanoma Using Recombinant Adenoviruses Encoding MART-1 or gp100 Melanoma Antigens (1998)

High doses of recombinant adenoviruses could be safely administered to cancer patients. High levels of neutralizing antibody present in patients' sera prior to treatment may have impaired the ability of these viruses to immunize patients against melanoma antigens.
A delayless subband adaptive filter architecture (1995)

Some adaptive signal processing applications, such as wideband active noise control and acoustic echo cancellation, involve adaptive filters with hundreds of taps. The computational burden associated with these long adaptive filters precludes their use for many low-cost applications. In addition, adaptive filters with many taps may also suffer from slow convergence, especially if the reference signal spectrum has a large dynamic range. Subband techniques have been previously developed for adaptive filters to solve these problems. However, the conventional approach is ruled out for many applications because delay is introduced into the signal path. The paper presents a new type of subband adaptive filter architecture in which the adaptive weights are computed in subbands, but collectively transformed into an equivalent set of wideband filter coefficients. In this manner, signal path delay is avoided while retaining the computational and convergence speed advantages of subband processing. An additional benefit accrues through a significant reduction of aliasing effects. An example of the general technique is presented for a 32-subband design using a polyphase FFT implementation. For this example, the number of multiplies required are only about one-third that of a conventional full band design with zero delay, and only slightly greater than that of a conventional subband design with 16 ms delay.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Combination antifungal therapy againstCandidaspecies: the new frontier-are we there yet? (2003)

In the past decade, we have seen a significant increase in the incidence of invasive fungal infections. In addition, opportunistic fungal infections resistant to antifungal agents have become increasingly common and their frequency will more than likely continue to increase. The antifungal armamentarium for the treatment of serious fungal infections remains limited. A possible approach to overcoming antifungal drug resistance and high mortality rates seen in severe fungal infections is to combine two or three classes of antifungals, especially if the drugs have different mechanisms of action. The unique properties of newer antifungals now provide us with the opportunity to investigate antifungal combinations that may become the standard of care for serious fungal infections. Combinations of new agents along with more traditional antifungals have now been shown to possess some synergistic or at least additive activity against Candida in clinical trials. On the other hand, caution is still needed since other antifungal combinations have demonstrated antagonistic activity in vitro. Well-controlled clinical trials are needed to define the most efficacious antifungal regimen. Furthermore, these trials should also evaluate the side effect potential of combination regimens and the pharmacoeconomic impact these regimens may have. Thus, while much optimism exists for combination therapy, there is much yet to be done.