gebhart/patrepeval huggingface dataset:
Multiple pathways for primary processing of ribosomal RNA in Escherichia coli. (1977)

A comparison of isogenic RNase III+ and RNase III- strains of Escherichia coli shows that although both synthesize precursor and mature 16 S and 23 S ribosomal RNAs, the transient rRNA species of the RNase III- strain differ from those of the RNase III+ strain. The RNase III+ strain synthesizes p16 and p23 rRNA, whereas the RNase III- strain produces unstable 17 S, 18 S, "p23," 25 S and 30 S RNA molecules. The 30 S RNA, which is a primary transcript of the ribosomal RNA gene cluster, does not contribute significantly to any of the smaller RNAs, nor is m23 rRNA derived from 25 S but rather from "p23" RNA. Mature 16 S rRNA is derived from both 18 S and 17 S RNA, and 17 S RNA can be derived from 18 S. Additionally, an unstable RNA species about 300 bases long is missing in the RNase III- strain and another species which seems to be about 50 bases larger appears. Processing of the primary ribosomal RNA transcript in RNase III- strains of Escherichia coli is accomplished during its transcription by two independent pathways which are not so utilized in RNase III+ strains. One pathway yields 18 S and precursor 23 S RNAs which are processed to mature rRNAs; the second pathway yields 25 S RNA and perhaps 16 S rRNA. The second pathway, unlike the first, is inhibited by chloramphenicol treatment. At slow rates of ribosomal RNA synthesis, the nascent transcript is processed preferentially by the first pathway. We suggest that in the absence of RNase III, which is involved in the primary processing of rRNA in E. coli, other enzymes involved in primary and secondary processing of rRNA in RNase III+ cells can recognize their sites on the nascent rRNA transcript and accomplish the primary processing.
Automatic performance setting for dynamic voltage scaling (2001)

The emphasis on processors that are both low power and high performance has resulted in the incorporation of dynamic voltage scaling into processor designs. This feature allows one to make fine granularity trade-offs between power use and performance, provided there is a mechanism in the OS to control that trade-off. In this paper, we describe a novel software approach to automatically controlling dynamic voltage scaling in order to optimize energy use. Our mechanism is implemented in the Linux kernel and requires no modification of user programs. Unlike previous automated approaches, our method works equally well with irregular and multiprogrammed workloads. Moreover, it has the ability to ensure that the quality of interactive performance is within user specified parameters. Our experiments show that as a result of our algorithm, processor energy savings of as much as 75% can be achieved with only a minimal impact on the user experience.
Photonic crystal line defect waveguide directionalcoupler (2001)

A three-port directional coupler based on photonic crystal line defect waveguides is demonstrated. The directional coupler has only a 21 µm long coupling region. Wavelength-selecting operation around 1.5 µm wavelength was confirmed.
Prevention of third molar tooth development in neonate rat with a long pulse diode laser (2004)

This study confirms the hypothesis that controlled, non-invasive laser treatment delivered on the surface of the oral mucosa near the site of tooth bud formation can selectively achieve third molar agenesis. It also offers hope that further innovative studies may bring about a safe, non-invasive laser treatment to selectively prevent third molar development in humans.
Low erucic acid canola oil does not induce heart triglyceride accumulation in neonatal pigs fed formula (2000)

Canola oil is not approved for use in infant formula largely because of concerns over possible accumulation of triglyceride in heart as a result of the small amounts of erucic acid (22:1n-9) in the oil. Therefore, the concentration and composition of heart triglyceride were determined in piglets fed from birth for 10 (n = 4-6) or 18 (n = 6) d with formula containing about 50% energy fat as 100% canola oil (0.5% 22:1n-9) or 100% soybean oil, or 26% canola oil or soy oil (blend) with palm, high-oleic sunflower and coconut oil, providing amounts of 16:0 and 18:1 closer to milk, or a mix of soy, high-oleic sunflower and flaxseed oils with C16 and C18 fatty acids similar to canola oil but without 22:1. Biochemical analysis found no differences in heart triglyceride concentrations among the groups at 10 or 18 d. Assessment of heart triglycerides using Oil Red O staining in select treatments confirmed no differences between 10-d-old piglets fed formula with 100% canola oil (n = 4), 100% soy oil (n = 4), or the soy oil blend (n = 2). Levels of 22:1n-9 in heart triglyceride and phospholipid, however, were higher (P<0.01) in piglets fed 100% canola oil or the canola oil blend, with higher levels found in triglycerides compared with phospholipids. The modest accumulation of 22:1n-9 associated with feeding canola oil was not associated with biochemical evidence of heart triglyceride accumulation at 10 and 18 d.
Stability of Hydrocortisone Oral Suspensions Prepared from Tablets and Powder (1995)

The hydrocortisone oral suspensions supply a uniform dose and are chemically stable when stored in the dark at 5 and 25 degrees C for at least 30 days. They provide flexible and convenient dosage forms for pediatric patients.
Correlation of microarray-based breast cancer molecular subtypes and clinical outcomes: implications for treatment optimization (2011)

Optimizing treatment through microarray-based molecular subtyping is a promising method to address the problem of heterogeneity in breast cancer; however, current application is restricted to prediction of distant recurrence risk. This study investigated whether breast cancer molecular subtyping according to its global intrinsic biology could be used for treatment customization. Gene expression profiling was conducted on fresh frozen breast cancer tissue collected from 327 patients in conjunction with thoroughly documented clinical data. A method of molecular subtyping based on 783 probe-sets was established and validated. Statistical analysis was performed to correlate molecular subtypes with survival outcome and adjuvant chemotherapy regimens. Heterogeneity of molecular subtypes within groups sharing the same distant recurrence risk predicted by genes of the Oncotype and MammaPrint predictors was studied. We identified six molecular subtypes of breast cancer demonstrating distinctive molecular and clinical characteristics. These six subtypes showed similarities and significant differences from the Perou-Sørlie intrinsic types. Subtype I breast cancer was in concordance with chemosensitive basal-like intrinsic type. Adjuvant chemotherapy of lower intensity with CMF yielded survival outcome similar to those of CAF in this subtype. Subtype IV breast cancer was positive for ER with a full-range expression of HER2, responding poorly to CMF; however, this subtype showed excellent survival when treated with CAF. Reduced expression of a gene associated with methotrexate sensitivity in subtype IV was the likely reason for poor response to methotrexate. All subtype V breast cancer was positive for ER and had excellent long-term survival with hormonal therapy alone following surgery and/or radiation therapy. Adjuvant chemotherapy did not provide any survival benefit in early stages of subtype V patients. Subtype V was consistent with a unique subset of luminal A intrinsic type. When molecular subtypes were correlated with recurrence risk predicted by genes of Oncotype and MammaPrint predictors, a significant degree of heterogeneity within the same risk group was noted. This heterogeneity was distributed over several subtypes, suggesting that patients in the same risk groups require different treatment approaches. Our results indicate that the molecular subtypes established in this study can be utilized for customization of breast cancer treatment.
Diversity and Recognition Efficiency of T Cell Responses to Cancer (2004)

These results suggest that factors that shape the peptide-specific T cell repertoire after vaccination may be different from those that affect the endogenous response. Furthermore, our findings suggest that current heteroclitic peptide vaccination protocols drive expansion of peptide-specific T cells with a diverse range of recognition efficiencies, a significant proportion of which are unable to respond to melanoma cells. Therefore, it is critical that the recognition efficiency of vaccine-elicited T cells be measured, with the goal of advancing those modalities that elicit T cells with the greatest potential of tumor reactivity.
Studies of Octane Properties of Mixtures of Isomeric Hexanes (1988)

&lt;div class="htmlview paragraph"&gt;The five noncyclic hexane homologs were mixed and tested for their octane qualities. The mixtures of normal hexane with the branched homologs, as well as a few of the combinations of branched species, had statistically significant higher octane quality than would be expected if the compounds responded in the CFR octane test engines as a linear combination of the individual components. It is hypothesized that this positive interaction is a reflection, of the formation of intermediates, via intermolecular hydrogen abstraction reactions, which are not able to progress along branching pathways during the combustion process. The formation of these intermediates delays the low temperature reaction kinetics, making the reaction mixture more knock resistant than expected.&lt;/div&gt;
Mast Cell Chemotaxis – Chemoattractants and Signaling Pathways (2012)

Migration of mast cells is essential for their recruitment within target tissues where they play an important role in innate and adaptive immune responses. These processes rely on the ability of mast cells to recognize appropriate chemotactic stimuli and react to them by a chemotactic response. Another level of intercellular communication is attained by production of chemoattractants by activated mast cells, which results in accumulation of mast cells and other hematopoietic cells at the sites of inflammation. Mast cells express numerous surface receptors for various ligands with properties of potent chemoattractants. They include the stem cell factor (SCF) recognized by c-Kit, antigen, which binds to immunoglobulin E (IgE) anchored to the high affinity IgE receptor (FcεRI), highly cytokinergic (HC) IgE recognized by FcεRI, lipid mediator sphingosine-1-phosphate (S1P), which binds to G protein-coupled receptors (GPCRs). Other large groups of chemoattractants are eicosanoids [prostaglandin E(2) and D(2), leukotriene (LT) B(4), LTD(4), and LTC(4), and others] and chemokines (CC, CXC, C, and CX3C), which also bind to various GPCRs. Further noteworthy chemoattractants are isoforms of transforming growth factor (TGF) β1-3, which are sensitively recognized by TGF-β serine/threonine type I and II β receptors, adenosine, C1q, C3a, and C5a components of the complement, 5-hydroxytryptamine, neuroendocrine peptide catestatin, tumor necrosis factor-α, and others. Here we discuss the major types of chemoattractants recognized by mast cells, their target receptors, as well as signaling pathways they utilize. We also briefly deal with methods used for studies of mast cell chemotaxis and with ways of how these studies profited from the results obtained in other cellular systems.
Injected Hyaluronidase Reduces Restylane-Mediated Cutaneous Augmentation (2005)

Intradermal hyaluronidase injections can be used to reduce dermal augmentation from previously injected Restylane. A small dose of hyaluronidase equivalent to 5 to 10 U may be injected initially.
Web advertising (1998)

Advertising on the World Wide Web has arrived. The ads we see now mark the beginning of a rapidly growing business. $906.5 million was spent on Internet advertising in the USA in 1997, and that will rise to $7.7 billion by 2002. The Web's unique properties present excellent advertising opportunities, not only for the advertisers and publishers, but also for those of us browsing the Web. These opportunities are being explored through numerous channels for Web advertising: from do-it-yourself shops to banner exchanges and for-pay advertising networks. Nevertheless, the Web offers many more opportunities. With progress, we might one day find ourselves appreciating ads that are carefully selected according to our preferences.
A three-dimensional pallet loading method for single-size boxes (1997)

The problem of finding an optimal loading layout for packing identical boxes onto a rectangular loading pallet is known as the pallet loading problem. If the boxes may be stacked on their bottom, side, or end surface, the cube utilization of a pallet will increase, but the stability of the unit load will be lost sometimes. This paper presents a method that packs rectangular boxes of the same size onto a pallet. Incorporating certain practical considerations, the method consists of five phases that maximise the degree of stability and the maximum cube utilisation of a unit load.
Stereoselective synthesis of arylated (E)-alkenes by the reaction of alk-1-enylboranes with aryl halides in the presence of palladium catalyst (1979)

The reaction of aryl halides with alk-l-enylboranes, readily obtainable via monohydroboration of acetylenes, provides a conveninet new method for stereoselective synthesis of arylated (E)-alkenes in high yields; these reactions are effectively catalysed by tetrakis(triphenylphosphine)palladium and bases such as sodium ethoxide.
Localization of Membrane-Associated Proteins in Vesicular Stomatitis Virus by Use of Hydrophobic Membrane Probes and Cross-Linking Reagents (1980)

The location of membrane-associated proteins of vesicular stomatitis virus was investigated by using two monofunctional and three bifunctional probes that differ in the degree to which they partition into membranes and in their specific group reactivity. Two hydrophobic aryl azide probes, [(125)I]5-iodonaphthyl-1-azide and [(3)H]pyrenesulfonylazide, readily partitioned into virion membrane and, when activated to nitrenes by UV irradiation, formed stable covalent adducts to membrane constituents. Both of these monofunctional probes labeled the glyco-protein G and matrix M proteins, but [(125)I]5-iodonaphthyl-1-azide also labeled the nucleocapsid N protein and an unidentified low-molecular-weight component. Protein labeling of intact virions was unaffected by the presence of cytochrome c or glutathione, but disruption of membrane by sodium dodecyl sulfate greatly enhanced the labeling of all viral proteins except G. Labeling of G protein was essentially restricted to the membrane-embedded, thermolysin-resistant tail fragment. Three bifunctional reagents, tartryl diazide, dimethylsuberimidate, and 4,4'-dithiobisphenylazide, were tested for their capacity to cross-link proteins to membrane phospholipids of virions grown in the presence of [(3)H]palmitate. Only G and M proteins of intact virions were labeled with (3)H-phospholipid by these cross-linkers; the reactions were not affected by cytochrome c but were abolished by disruption of virus with sodium dodecyl sulfate. Dimethylsuberimidate, which reacts with free amino groups, cross-linked (3)H-phospholipid to both G and M protein. In contrast, the hydrophilic tartryl diazide cross-linked phospholipid primarily to the M protein, whereas the hydrophobic 4,4'-dithiobisphenylazide cross-linked phospholipid primarily to the intrinsic G protein. These data support the hypothesis that the G protein traverses the virion membrane and that the M protein is membrane associated but does not penetrate very deeply, if at all.
Coloration of silver-stained protein bands in polyacrylamide gels is caused by light scattering from silver grains of characteristic sizes. (1988)

This study investigates the physical basis of color effects in the detection of proteins in polyacrylamide gels by silver staining. Specifically, the hypothesis that different colors may correlate with the development of silver grains of characteristic sizes was investigated by electron microscopy. Protein bands that stained brown, yellow, and blue were excised from stained gels and prepared for electron microscopy by thin-sectioning. In each case, the size distributions of globular silver grains were determined directly from the electron micrographs. We found that blue bands have larger silver grains (with diameters of 40-100 nm) than yellow (21-39 nm) or brown bands (17-35 nm). On the basis of these and other observations, a general mechanism is proposed whereby chemical specificity of electrophoretically separated proteins is expressed in color-specific silver staining.
Corrigendum: Induction of Robust B Cell Responses After Influenza mRNA Vaccination Is Accompanied by Circulating Hemagglutinin-Specific ICOS+ PD-1+ CXCR3+ T Follicular Helper Cells (2019)

In the original article ** Liang F, Lindgren G, Lin A, Thompson EA, Ols S, Röhss J, John S, Hassett K, Yuzhakov O, Bahl K, Brito LA, Salter H, Ciaramella G, Loré K. Efficient Targeting and Activation of Antigen Presenting Cells In Vivo after Modified mRNA Vaccine Administration in Rhesus Macaques. Molecular Therapy 2017 Dec; 25 (12). PMID: 28958578** was not cited in the article. The citation has now been inserted in **3 Results **, ** 3.1 mRNA vaccine encoding H10 induces protective levels of antibodies **, **paragraph 3.1** and should read: ** All animals induced neutralizing antibody titers against HA above the accepted level of protection for seasonal influenza vaccination, as measured by hemagglutination inhibition assay (HAI) (Fig 1C) as we have reported earlier (25, MISSING REFERENCE). **The corrigendum template file is uploaded as supplementary material and an updated word and PDF document as manuscript files.Information about the authors in the paper has not changed.
The Activity of the scs and scs’ Insulator Elements Is Not Dependent on Chromosomal Context (1997)

Sequence elements that protect a reporter gene from chromosomal position effects or that block enhancer-activated transcription are called insulators. Using a plasmid-based microinjection assay with Xenopus laevis oocytes, we show that the heterologous Drosophila melanogaster scs and scs' insulator elements do not require chromosomal context to block enhancer-activated transcription. A single insulator element partially blocks enhancer-activated transcription, indicating that each element operates independently rather than as part of a pair. Deletion analysis of the 1.8-kb scs element identified a 220-bp fragment from one of the DNase I-hypersensitive regions that has full blocking activity in the oocyte assay. This fragment corresponds to the critical region of the scs mapped in previous studies with Drosophila. A time course of transcription shows that the scs blocks enhancer-activated transcription as early as transcription can be detected, about 30 min after injection. Complete assembly of the DNA template into nucleosomes requires 4 h. The scs and scs' sequences do not block site-specific recombination by FLP recombinase, implying that insulators do not operate by a general mechanism that physically sequesters the DNA. These data are most consistent with a model for insulator action in which direct interaction between the insulator and either the enhancer or promoter confers directionality to enhancer-activated transcription.
Active leakage power optimization for FPGAs (2004)

We consider active leakage power dissipation in FPGAs and present a "no cost" approach for active leakage reduction. It is well-known that the leakage power consumed by a digital CMOS circuit depends strongly on the state of its inputs. Our leakage reduction technique leverages a fundamental property of basic FPGA logic elements (look-up-tables) that allows a logic signal in an FPGA design to be interchanged with its complemented form without any area or delay penalty. We apply this property to select polarities for logic signals so that FPGA hardware structures spend the majority of time in low leakage states. In an experimental study, we optimize active leakage power in circuits mapped into a state-of-the-art 90nm commercial FPGA. Results show that the proposed approach reduces active leakage by 25%, on average.
Effects of insulin on peripheral and splanchnic glucose metabolism in noninsulin-dependent (type II) diabetes mellitus. (1985)

The mechanism(s) and site(s) of the insulin resistance were examined in nine normal-weight noninsulin-dependent diabetic (NIDD) subjects. The euglycemic insulin clamp technique (insulin concentration approximately 100 microU/ml) was employed in combination with hepatic and femoral venous catheterization and measurement of endogenous glucose production using infusion of tritiated glucose. Total body glucose metabolism in the NIDD subjects (4.37 +/- 0.45 mg/kg per min) was 38% (P less than 0.01) lower than in controls (7.04 +/- 0.63 mg/kg per min). Quantitatively, the most important site of the insulin resistance was found to be in peripheral tissues. Leg glucose uptake in the diabetic group was reduced by 45% as compared with that in controls (6.0 +/- 0.2 vs. 11.0 +/- 0.1 mg/kg leg wt per min; P less than 0.01). A strong positive correlation was observed between leg and total body glucose uptake (r = 0.70, P less than 0.001). Assuming that muscle is the primary leg tissue responsible for glucose uptake, it could be estimated that 90 and 87% of the infused glucose was disposed of by peripheral tissues in the control and NIDD subjects, respectively. Net splanchnic glucose balance during insulin stimulation was slightly more positive in the control than in the diabetic subjects (0.31 +/- 0.10 vs. 0.05 +/- 0.19 mg/kg per min; P less than 0.07). The difference (0.26 mg/kg per min) in net splanchnic glucose balance in NIDD represented only 10% of the reduction (2.67 mg/kg per min) in total body glucose uptake in the NIDD group and thus contributed very little to the insulin resistance. The results emphasize the importance of the peripheral tissues in the disposal of infused glucose and indicate that muscle is the most important site of the insulin resistance in NIDD.
Pyridinylimidazole Based p38 MAP Kinase Inhibitors (2002)

The p38 MAP kinase is thought to be involved in a variety of inflammatory and immunological disorders such as rheumatoid arthritis. The pyridinylimidazole class of compounds was the first to potently inhibit this kinase. Since the original reports of their efficacy, they have become the most widely studied series of inhibitors of this kinase. This framework has served as a starting point for further synthetic work and several compounds have entered clinical trials. These compounds have also been utilized to elucidate the role of p38 kinase in the immune system, and more recently have been used to examine the role of this kinase in central nervous system disorders.