gebhart/patrepeval huggingface dataset:
The Development of Enantioselective Rhodium‐Catalysed Hydroboration of Olefins (2005)

Abstract Rhodium‐catalysed enantioselective hydroboration of olefins is a valuable synthetic transformation, typically employing a chiral catalyst and an achiral borane source. The pertinent chemo‐, regio‐ and enantioselectivity issues of this reaction are discussed. However, the main emphasis of this review is on the evolution of catalytic asymmetric hydroboration. This has primarily relied upon the development and application of chiral bidentate P,P and P,N ligands which have exhibited varying degrees of success in this transformation.
Memory Barriers: a Hardware View for Software Hackers (2010)

So what possessed CPU designers to cause them to inflict memory barriers on poor unsuspecting SMP software designers? In short, because reordering memory references allows much better performance, and so memory barriers are needed to force ordering in things like synchronization primitives whose correct operation depends on ordered memory references. Getting a more detailed answer to this question requires a good understanding of how CPU caches work, and especially what is required to make caches really work well. The following sections: 1. present the structure of a cache, 2. describe how cache-coherency protocols ensure that CPUs agree on the value of each location in memory, and, finally, 3. outline how store buffers and invalidate queues help caches and cache-coherency protocols achieve high performance. We will see that memory barriers are a necessary evil that is required to enable good performance and scalability, an evil that stems from the fact that CPUs are orders of magnitude faster than are both the interconnects between them and the memory they are attempting to access. 1 Cache Structure Modern CPUs are much faster than are modern memory systems. A 2006 CPU might be capable of executing ten instructions per nanosecond, but will require many tens of nanoseconds to fetch a data item from main memory. This disparity in speed — more than two orders of magnitude — has resulted in the multimegabyte caches found on modern CPUs. These caches are associated with the CPUs as shown in Figure 1, and can typically be accessed in a few cycles. 1
Studies on the status of lysine residues in phospholipase A2 from Naja naja atra (Taiwan cobra) snake venom (1989)

Phospholipase A2 (PLA2) from Naja naja atra (Taiwan cobra) snake venom was subjected to lysine modification with trinitrobenzene sulphonic acid (TNBS), and two major trinitrophenylated (TNP) derivatives, TNP-1 and TNP-2, were separated by h.p.l.c. TNP-1 contained only one TNP group on Lys-6 and showed a marked decrease in enzymic activity, but still retained 45% of the lethal toxicity. Both Lys-6 and Lys-65 were modified in TNP-2, and modification of Lys-65 caused a further reduction of the lethal toxicity to 12.6%. However, the antigenicity of both TNP-1 and TNP-2 remained unchanged. The reactivity of Lys-6 and Lys-65 toward TNBS was greatly enhanced by Ca2+ and dihexanoyl-lecithin, suggesting that the two Lys residues are not directly involved in the binding of Ca2+ and substrate. The modified derivatives retained their affinity for Ca2+, indicating that Lys-6 and Lys-65 did not participate in the Ca2+ binding. The TNP derivatives could be regenerated with hydrazine hydrochloride. The biological activities of the regenerated PLA2 are almost the same as those of native PLA2. These results indicate that Lys-6 and Lys-65 are important for the biological activities of PLA2, and incorporation of a bulky TNP group on Lys-6 and Lys-65 might give rise to a distortion of the active conformation of PLA2.
Frozen section examination of endometrial curettings. An aid to the rapid diagnosis of ectopic pregnancy. (1980)

The maternal mortality resulting from extrauterine pregnancy has been related to delayed intervention following the onset of symptoms. Therefore, methods that can rapidly include or exclude an ectopic pregnancy are of value. In selected cases dilatation and curettage, with frozen section examination of the curetted tissue, has been utilized to confirm an abnormal intrauterine pregnancy and vitually rule out an extrauterine pregnancy.
Impact of the degree of anemia on the outcome of patients with myelodysplastic syndrome and its integration into the WHO classification-based Prognostic Scoring System (WPSS) (2011)

Accounting for severity of anemia through the WHO classification-based Prognostic Scoring System provides an objective criterion for prognostic assessment and implementation of risk-adapted treatment strategies in myelodysplastic syndrome patients.
Direct Phosphorylation of Psilocin Enables Optimized cGMP Kilogram-Scale Manufacture of Psilocybin (2020)

A second-generation kilogram-scale synthesis of the psychedelic tryptamine psilocybin has been developed. The synthesis was designed to address several challenges first encountered with the scale-up of previously described literature procedures, which were not optimized for providing consistent yield and purity of products, atom economy, or being run in pilot plant-scale reactors. These challenges were addressed and circumvented with the design of the second-generation route, which featured an optimized cGMP large-scale Speeter-Anthony tryptamine synthesis to the intermediate psilocin with improved in-process control and impurity removal over the three steps. Psilocin was subsequently phosphorylated directly with phosphorous oxychloride for the first time, avoiding a tedious and poor atom economy benzyl-protecting group strategy common to all previously described methods for producing psilocybin. In this report, the challenges encountered in a 100 g scale first-generation literature-based synthesis are highlighted, followed by a detailed description of the newly developed second-generation synthesis to provide over one kilogram of high-purity psilocybin under cGMP.
SYNTHESIS, ASSEMBLY, AND SECRETION OF GAMMA GLOBULIN BY MOUSE MYELOMA CELLS (1970)

MPC-11 myeloma tumor cells were adapted to growth in continuous culture. The cultured cells resembled the parent tumor in that they produced the fully assembled gamma globulin molecules as well as six unassembled molecules. Although cultured and tumor cells synthesized excess light chains, the molar ratio of light (L) to heavy (H) chains was approximately 1.7:1 in the culture, and 3.5:1 in the tumor. The cultured cells also produced fewer half molecules and free light chains than the parent tumor. Peptide column analysis did not reveal differences in the primary structure of the H chains derived from the parent tumor and the culture. The L chains may have differed by a minor peptide. As much as 20% of the newly labeled cytoplasmic proteins and almost 100% of the proteins secreted by the cultured myeloma cells could be precipitated by specific antiserum. The immune precipitates contained seven different gamma globulin molecules, six of which were characterized according to their molecular size and H and L chain content as fully assembled molecules (H(2)L(2)), heavy chain dimers (H(2)), half molecules (HL), H, light chain dimers (L(2)), and L chains. All gamma globulin subunits as well as the complete H(2)L(2) molecule were produced and secreted by splenic clones of the parent MPC-11 tumor, and agar clones of the cultured cells. This indicates that the various gamma globulin subunits were produced by the same cell and did not reflect cellular heterogeneity with respect to gamma globulin synthesis.
Primary structure of wheat germ agglutinin isolectin 2. Peptide order deduced from x-ray structure (1984)

The complete amino acid sequence of wheat germ agglutinin isolectin 2 has been determined by the method of sequential Edman degradation and with the aid of the three-dimensional structure known from X-ray crystallography. Peptides ranging from 2 to 18 residues in length were obtained by thermolysin digestion of the S-carboxymethylated protein and purified by gel filtration and high-performance liquid chromatography. The peptide order was established primarily by matching (carboxymethyl)cysteines with the clearly defined half-cystine positions in the X-ray structure, thereby satisfying the disulfide repeat pattern observed in all four isostructural domains (A, B, C, and D) of wheat germ agglutinin, and by examination of amino acid compositions and terminal sequences of ten tryptic peptides. The unique assignment of peptides to these domains was consistent with all invariant half-cystines and glycines, as well as the single tryptophan, the two closely spaced histidines, and a number of other residues clearly identified in the X-ray structure analysis. Discrepancies between the chemical and X-ray sequences lie exclusively in poorly defined regions of the electron density map, at the N- and C-termini, and at the first intercystine loop of each domain. The latter loop was found to be eight instead of six residues in length, thus extending the size of domains A, B, and C from 41 to 43 residues and that of domain D to 42 residues. Regions of extensive interdomain homology, in addition to that of the half-cystines, are clustered at the central portion of each domain fold and are likely to be important for the integrity of the three-dimensional structure of the dimer molecule.
Characterization of functional properties of Enterococcus faecium strains isolated from human gut (2015)

The aim of this work was to characterize the functional properties of Enterococcus faecium strains identified after isolation from human faeces. Of these isolates, strain R13 showed the best resistance to low pH, bile salts, and survival in the simulated in vitro digestion assay, and demonstrated an important level of adhesion to hexadecane as a potential probiotic candidate. Analysis of the antibiotic resistance of E. faecium strains indicated that in general these isolates were sensitive to the tested antibiotics and no strain appeared to be resistant to vancomycin. Examination of the virulence determinants for E. faecium strains demonstrated that all strains contained the virulence genes common in gut- and food-originated enterococci, and strain R13 harboured the lowest number of virulence genes. Additionally, no strain contained the genes related to cytolysin metabolism and showed hemolytic activity. The antimicrobial role of E. faecium strains was tested against several pathogens, in which different levels of inhibitory effects were observed, and strain R13 was inhibitory to all tested pathogens. PCR screening of genes encoding enterocin A and B indicated the presence of these genes in E. faecium strains. Preliminary characterization of bacteriocins revealed that their activity was lost after proteolytic enzyme treatments, but no alteration in antimicrobial activity was observed at different pHs (3.5 to 9.5) and after heat treatments. In conclusion, this study revealed the functional characteristics of E. faecium R13 as a gut isolate, and this strain could be developed as a new probiotic after further tests.
Glucosamine protects neonatal cardiomyocytes from ischemia-reperfusion injury via increased protein O-GlcNAc and increased mitochondrial Bcl-2 (2008)

We have previously reported that glucosamine protected neonatal rat ventricular myocytes against ischemia-reperfusion (I/R) injury, and this was associated with an increase in protein O-linked-N-acetylglucosamine (O-GlcNAc) levels. However, the protective effect of glucosamine could be mediated via pathways other that O-GlcNAc formation; thus the initial goal of the present study was to determine whether increasing O-GlcNAc transferase (OGT) expression, which catalyzes the formation of O-GlcNAc, had a protective effect similar to that of glucosamine. To better understand the potential mechanism underlying O-GlcNAc-mediated cytoprotection, we examined whether increased O-GlcNAc levels altered the expression and translocation of members of the Bcl-2 protein family. Both glucosamine (5 mM) and OGT overexpression increased basal and I/R-induced O-GlcNAc levels, significantly decreased cellular injury, and attenuated loss of cytochrome c. Both interventions also attenuated the loss of mitochondrial membrane potential induced by H2O2 and were also associated with an increase in mitochondrial Bcl-2 levels but had no effect on Bad or Bax levels. Compared with glucosamine and OGT overexpression, NButGT (100 microM), an inhibitor of O-GlcNAcase, was less protective against I/R and H2O2 and did not affect Bcl-2 expression, despite a 5- to 10-fold greater increase in overall O-GlcNAc levels. Decreased OGT expression resulted in lower basal O-GlcNAc levels, prevented the I/R-induced increase in O-GlcNAc and mitochondrial Bcl-2, and increased cellular injury. These results demonstrate that the protective effects of glucosamine are mediated via increased formation of O-GlcNAc and suggest that this is due, in part, to enhanced mitochondrial Bcl-2 translocation.
Tail Assembly and Injection (1983)

The tail of a bacteriophage is a supramolecular organelle with which the phage adsorbs to the host cell and injects its DNA into the cytoplasm. Only the relatively complex double-stranded DNA phages have a tail as a morphologically distinguishable, differentiated structure. The tails of these phages may be classified into three groups on the basis of morphology and function: long contractile (e.g., T4), long noncontractile (e.g., λ ), and short (e.g., T7). In the long contractile and long noncontractile groups, tail assembly forms an independent branch in the morphogenetic pathway (Casjens and King 1975). The assembly of the λ tail has been studied in detail. The results complement those of the T4 tail (King 1968) and give information useful to the studies of other tubular or helical structures, such as bacterial flagella (Iino 1977). Although the function of the λ tail itself may seem a very specialized field of research, problems contained in this study are more general: How do protein molecules function in assembled states where interaction between neighboring molecules is strong? How can we analyze a series of reactions occurring in such structures? The λ tail is a particularly advantageous model to use in attempting to understand the assembly and function of supramolecular structures due to the highly developed experimental approaches (genetic, structural, biochemical, immunological, and so on) available in this system. STRUCTURE OF THE TAIL The tail of phage λ is a thin flexible tube (135 nm in length), ending in a small conical part (15 nm in...
Fast reversible NiTi fibers for use in microrobotics (2002)

The authors report the experimentally determined characteristics of NiTi fibers which have been modified using a preparation procedure in which the fibers were subjected to brief very large current pulses during forced stretching. The modified fibers contract and relax fast enough to be of use in microrobotics. The modified fibers generate a maximum extrapolated stress of 230 MN/m/sup 2/ and yield a peak measured power/mass approaching 50 kW/kg. The theory of a micro-actuator incorporating the modified fibers is presented.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Time-frequency facial gestures EMG analysis using bilinear distribution (2015)

Electromyogram (EMG)-based facial gesture recognition has recently drawn the researchers' attention as a potential medium in different areas, particularly in assistive technology and rehabilitation. Efficient analysis of facial neuromuscular signals generated by different facial muscles can provide lots of information about underlying facial movement mechanisms which can be used to characterize different facial gestures as well as muscle abnormalities like in patients with muscular dystrophy or facial palsy. This paper investigated time-varying properties of facial EMGs in time-frequency domain. Significantly we studied changes of EMG spectrum across time while performing ten different facial gestures. The facial gestures were recorded from ten individuals through three bipolar pairs of surface electrodes. Time-Frequency analysis was carried out using B-Distribution to resolve EMG components in time-frequency domain and specify the signal frequency components that change over time. We observed that 1) there were no significant differences among facial gestures EMG time-varying spectrum distributions, 2) EMG power spectrum decreased over time in each epoch after about one second from the beginning of each movement, 3) the most significant power spectrum of facial EMGs was within 60-300 Hz.
Increased Levels of Circulating Interleukin 6, Interleukin 8, C-Reactive Protein, and Risk of Lung Cancer (2011)

Although increased levels of both serum IL-6 and IL-8 are associated with lung cancer, only IL-8 levels are associated with lung cancer risk several years before diagnosis. Combination of IL-8 and CRP are more robust biomarkers than either marker alone in predicting subsequent lung cancer.
Sugary Recipe Boosts Grow-Your-Own Plastics (2006)

Motorists aren't alone in feeling the pain of rising oil prices. Some commodity chemicals, such as the polypropylene that's found in everything from textiles to dashboards, have tripled in price in the past few years. That surge has spurred new interest in the once-sleepy field of converting crops and other renewable feedstocks into commodity chemicals. Chemical companies have made progress in recent years. But up to now, it has been difficult and costly to make the kinds of compounds that serve as starting materials for most oil-derived chemicals. Now, work by researchers in the United States may give plant-derived chemicals a new push.
UV and skin cancer: specific p53 gene mutation in normal skin as a biologically relevant exposure measurement. (1994)

Many human skin tumors contain mutated p53 genes that probably result from UV exposure. To investigate the link between UV exposure and p53 gene mutation, we developed two methods to detect presumptive UV-specific p53 gene mutations in UV-exposed normal skin. The methods are based on mutant allele-specific PCRs and ligase chain reactions and designed to detect CC to TT mutations at codons 245 and 247/248, using 10 micrograms of DNA samples. These specific mutations in the p53 gene have been reported in skin tumors. CC to TT mutations in the p53 gene were detected in cultured human skin cells only after UV irradiation, and the mutation frequency increased with increasing UV dose. Seventeen of 23 samples of normal skin from sun-exposed sites (74%) on Australian skin cancer patients contained CC to TT mutations in one or both of codons 245 and 247/248 of the p53 gene, and only 1 of 20 samples from non-sun-exposed sites (5%) harbored the mutation. None of 15 biopsies of normal skin from non-sun-exposed or intermittently exposed sites on volunteers living in France carried such mutations. Our results suggest that specific p53 gene mutations associated with human skin cancer are induced in normal skin by solar UV radiation. Measurement of these mutations may be useful as a biologically relevant measure of UV exposure in humans and as a possible predictor of risk for skin cancer.
[Change in sliver metabolism after the application of nanometer silver on burn wound]. (2004)

It was proved to be safe to have the nanometer silver dressing applied on partial thickness burn wound of middle and small areas.
The genetics of venous thromboembolism (2009)

We conducted a systematic and comprehensive meta-analysis on all candidate genes to assess their genetic contribution to the aetiology of venous thromboembolism (VTE) (pulmonary embolism and deep venous thrombosis) in all ethnic groups. Electronic databases were searched until and including January 2008 for any candidate gene investigated in VTE. Odds ratios (OR) and 95% confidence intervals (CI) were determined for each gene disease association using fixed and random effect models. Our meta-analyses included approximately 126,525 cases and 184,068 controls derived from 173 case-control studies, which included 21 genes (28 polymorphisms). Statistically significant associations with VTE were identified for factor V G1691A (OR 9.45; 95% CI 6.72-13.30, p < 0.0001), factor V A4070G (OR 1.24; 95% CI 1.02-1.52, p = 0.03), prothrombin G20210A, (OR 3.17; 95% CI 2.19-3.46, p < 0.00001), prothrombin G11991A, (OR 1.17; 95% CI 1.07-1.27, p = 0.0007), PAI-1 4G/5G, (OR 1.62; 95% CI 1.22-2.16, p = 0.0008), alpha-fibrinogen Thr312Ala (OR 1.37; 95% CI 1.14-1.64, p = 0.0008), all in Caucasian populations. MTHFR/ C677T in Chinese/Thai populations (OR 1.57; 95% CI 1.23-2.00, p = 0.0003), and ACE I/D in African American populations (OR 1.5; 95% CI 1.03-2.18, p = 0.03) were found to be significantly associated with VTE. Factor XIII Val34Leu (OR 0.80; 95% CI 0.68-0.94, p = 0.007) and beta-fibrinogen 455 G/A (OR 0.84; 95% CI 0.72-0.97, p = 0.02) both showed significantly protective effects. Our work supports a genetic aetiology to VTE disease and provides reliable risk estimates.
Differential expression of glucocorticoid receptor in carcinomas of the human digestive system (2008)

Distribution of GR expression is markedly diverse among tissues of the human digestive system. The general lack of GR in adenocarcinomas contrasts with the high percentage of SCCs and HCCs expressing GR, and, along with the generation of chemoresistance by DEX, warrants prospective study of the effects of steroids on these cancers.
5-Benzylidene-1,2-dihydrochromeno[3,4-f]quinolines as Selective Progesterone Receptor Modulators (2003)

A series of 5-benylidene-1,2-dihydrochromeno[3,4-f]quinolines (4) were synthesized and tested in bioassays to evaluate their progestational activities, receptor- and tissue-selectivity profiles as selective progesterone receptor modulators (SPRMs). Most of the new analogues exhibited as highly potent progestins with more than 100-fold receptor selectivity over other steroid hormone receptors and LG120920 (7b) demonstrated tissue selectivity toward uterus and vagina versus breasts in a rodent model after oral administration.
Efficacy, Plasma Pharmacokinetics, and Safety of Icofungipen, an Inhibitor of Candida Isoleucyl-tRNA Synthetase, in Treatment of Experimental Disseminated Candidiasis in Persistently Neutropenic Rabbits (2005)

Icofungipen (formerly PLD-118) is a synthetic derivative of the naturally occurring beta-amino acid cispentacin that blocks isoleucyl-tRNA synthetase, resulting in the inhibition of protein synthesis and growth of fungal cells. We investigated the efficacy, plasma pharmacokinetics, and safety of icofungipen in escalating dosages for the treatment of experimental subacute disseminated candidiasis in persistently neutropenic rabbits. Icofungipen was administered for 10 days starting 24 h after the intravenous inoculation of 10(3) Candida albicans blastoconidia. Study groups consisted of rabbits treated with icofungipen at 4 (ICO-4), 10 (ICO-10), and 25 (ICO-25) mg/kg of body weight/day in two divided dosages, rabbits treated with fluconazole at 10 mg/kg/day, rabbits treated with amphotericin B at 1 mg/kg/day, and untreated controls. Levels of icofungipen in plasma were derivatized by phthaldialdehyde and quantified by high-performance liquid chromatography with fluorescence detection. Rabbits treated with ICO-10 (P < 0.01) and ICO-25 (P < 0.001) showed significant dosage-dependent tissue clearance of C. albicans from the liver, spleen, kidney, brain, vitreous, vena cava, and lung in comparison to untreated controls. ICO-25 cleared C. albicans from all tissues and had activity comparable to that of amphotericin B versus untreated controls (P < 0.001). Pharmacokinetics of icofungipen in plasma approximated a dose-dependent relationship of the maximum concentration of drug in serum and the area under the concentration-time curve. There was no significant elevation of the levels of hepatic transaminases, alkaline phosphatase, bilirubin, urea nitrogen, or creatinine in icofungipen-treated rabbits. Icofungipen followed dose-dependent pharmacokinetics and was effective in the treatment of experimental disseminated candidiasis, including central nervous system infection, in persistently neutropenic rabbits.