gebhart/patrepeval huggingface dataset:
The Levels of Ribonucleotide Reductase, Thioredoxin, Glutaredoxin 1, and GSH Are Balanced in Escherichia coli K12 (1996)

The dithiol forms of thioredoxin and glutaredoxin are hydrogen donors for ribonucleotide reductase. We have determined the intracellular levels of ribonucleotide reductase (RRase), thioredoxin (Trx), glutaredoxin 1 (Grx1), and glutathione (GSH) and the glutathione redox status in new Escherichia coli K12 strains lacking thioredoxin (trxA-), glutaredoxin 1 (grxA-), and/or GSH (gshA-) or overproducing Trx or Grx1 from multicopy plasmids. We propose a regulatory network in which RRase levels are balanced with those of Trx, Grx1, and GSH so that deficiency or overproduction of one component would promote the opposite effect on the others to maintain a balanced supply of deoxyribonucleotides. GSH deficiency strongly increased both Grx1 levels and RRase activity, even more than Trx deficiency. Double gshA-trxA- bacteria were viable, whereas additional deficiency in lipoate synthesis (gshA-trxA-lipA-) caused the inability to grow in minimal medium plates supplemented with acetate plus succinate instead of lipoic acid. Thus, lipoate might be the only substitute of GSH for glutaredoxin reduction in gshA-trxA- cells, although the extremely high Grx1 content (55-fold) of these bacteria suggests that electron transfer from lipoate might be an inefficient reduction mechanism of glutaredoxins. Moreover, the enhanced Grx1 level of gshA-trxA- cells could obviate the need for a large increase in RRase activity, in contrast to grxA-trxA- double mutant cells. Impairment of the sulfate assimilation pathway, leading to very low GSH concentrations, and an oxidized glutathione redox state might explain the inability of grxA-trxA- cells to grow in minimal medium. Restoration of nearly normal levels of both GSH content and redox status cure the growth defect.
Use of Endoscopic Stents to Treat Anastomotic Complications after Bariatric Surgery (2008)

Treatment of anastomotic complications after bariatric surgery with endoscopic covered stents allows rapid healing while simultaneously allowing for oral nutrition. The primary morbidity is stent migration.
Avis en réponse à la saisine HCB – dossier RX-016. Paris, le 21 février 2019 (2019)

Le Haut Conseil des biotechnologies (HCB) a été saisi sur le fondement du règlement (CE) n° 1829/2003 d’une demande d’avis relative au dossier EFSA-GMO-RX-016 dans le but de proposer des commentaires à destination de l’EFSA en contribution à l’évaluation européenne du dossier, et d’éclairer les autorités compétentes françaises dans une étape intermédiaire en amont du vote à la Commission européenne. Déposé par la société Syngenta Crop Protection NV/SA, ce dossier est une demande de renouvellement d’autorisation de mise sur le marché du maïs génétiquement modifié Bt11 à des fins d’importation, transformation, et alimentation humaine et animale dans l’Union européenne.
Editing graphical objects using procedural representations (1988)

Traditionally, people have created computer-generated images by writing programs in a programming language that supports graphics. More recently, interactive graphics editors have become commonplace. Graphics editors are easy to use but frequently lack many of the capabilities found in graphics programming languages. This deficiency is intrinsic to graphics editors; it is not a result of neglect or incompetence by the implementer.
Tweedle is a graphics editor that attempts to bridge this gap by using a program as its internal representation for a picture. During an editing session the user can modify either the picture itself or the program representation; the editor modifies the other to keep the two consistent. The language used by the editor contains features that allow the editor to incrementally execute parts of a program in response to a change so that the picture can be regenerated without completely reexecuting the program.
The use of a procedural representation allows the user to create easily pictures with repetition, recursion, and calculated point values. It further allows him to define parts of a drawing as variants of other parts; these variants can differ from their original objects in quite arbitrary ways but still respond to changes made to the original.
A working prototype of Tweedle has been implemented under the X Window System.
Plasma homocysteine, methionine and S-adenosylhomocysteine levels following high-dose methotrexate treatment in pediatric patients with acute lymphoblastic leukemia or Burkitt lymphoma: association with hepatotoxicity (2013)

This study aimed to investigate: (i) changes of plasma homocysteine, methionine and S-adenosylhomocysteine levels following high-dose methotrexate (HD-MTX) treatment and (ii) the correlation of these sulfur-containing amino acids with MTX-induced hepatotoxicity. Fifteen pediatric patients with acute lymphoblastic leukemia and one patient with Burkitt lymphoma, with a total of 26 treatment courses of HD-MTX, were enrolled. Homocysteine levels increased at 24 h after HD-MTX treatment, and showed marginal decreases at 48 and 72 h. Methionine levels showed a biphasic pattern, i.e. an initial decrease at 24 h followed by increases at 48 and 72 h. S-adenosylhomocysteine exhibited a marginal decrease at 24 h. Changes of homocysteine exhibited significant correlation only with a maximum increase of alanine aminotransferase or total bilirubin from baseline. This study has demonstrated, for the first time, simultaneous changes of plasma homocysteine, methionine and S-adenosylhomocysteine following HD-MTX. The potential of homocysteine as a marker of hepatotoxicity is also presented.
Prospective Genomic Profiling of Prostate Cancer Across Disease States Reveals Germline and Somatic Alterations That May Affect Clinical Decision Making (2017)

Through genomic profiling of prostate tumors representing the disease clinical spectrum, we identified a high frequency of potentially actionable alterations and possible drivers of disease initiation, metastasis and castration-resistance. Our findings support the routine use of tumor and germline DNA profiling for patients with advanced prostate cancer, for the purpose of guiding enrollment in targeted clinical trials and counseling families at increased risk of malignancy.
Evidence for Differential Effects of Selective Somatostatin Receptor Subtype Agonists on α-Subunit and Chromogranin A Secretion and on Cell Viability in Human Nonfunctioning Pituitary Adenomas in Vitro (2004)

Somatostatin (SRIF) analogs interacting with SRIF receptor (SSTR) subtypes SSTR2 and SSTR5 reduce hormone secretion of pituitary adenomas, but their antiproliferative effects are still controversial. We investigated the in vitro effects of SRIF and SSTR-selective agonists interacting with SSTR1 (BIM-23926), SSTR2 (BIM-23120), SSTR5 (BIM-23206), or both SSTR2 and SSTR5 (BIM-23244) on alpha-subunit and chromogranin A secretion and on cell viability of 12 nonfunctioning pituitary adenomas (NFA) expressing SSTR1, SSTR2, and SSTR5, as assessed by RT-PCR. Treatment with SRIF or BIM-23206 did not modify alpha-subunit and chromogranin A secretion, which was significantly inhibited by BIM-23926, BIM-23120, and BIM-23244. SRIF and BIM-23120 did not influence cell viability, which was significantly promoted by BIM-23206 and BIM-23244 and reduced by treatment with BIM-23926. These results demonstrate that, in the selected NFA, the SSTR1-selective agonist inhibits secretory activity and cell viability, the SSTR2-selective agonist inhibits secretion but not cell viability, and the SSTR5-selective agonist does not influence secretion but promotes cell viability. These data can explain the lack of inhibitory effects of currently used SRIF analogs and suggest that drugs acting potently and preferentially on SSTR1 might be useful for medical treatment of NFA.
Characterisation of spinifex (Triodia pungens) resin and fibres (2009)

Spinifex grasses have been largely ignored as a sustainable resource despite their widespread distribution throughout Australia. This project involves an in-depth study of the structure and properties of both the leaf and resinous components of various spinifex species and an investigation into the preparation and properties of Spinifex-based composite materials.
Time-Resolved Laser-Induced Incandescence Measurements for the EPA Heavy-Duty Federal Test Procedure (2005)

Laser-induced incandescence (LII) is a promising new diagnostic for measuring the volume fraction of elemental carbon in engine exhaust. The technique is considerably more precise and sensitive than conventional measurement procedures, and can be applied either with or without dilution. However, LII has been slow to gain acceptance because of presumed complexity of use and high initial cost. In this paper we demonstrate a prototype LII system that offers turn-key operation and long-term cost that is highly competitive with other techniques because of very low labor costs. The LII system ran unattended for 7.5 weeks, logging 1078 heavy-duty diesel engine tests during 24/7 operation of a dilution tunnel facility. Among the tests logged were 363 FTP steady-state mode tests and 250 FTP transient tests for which gravimetric measurements of total particulate matter (PM) were obtained. Of these tests, removal of the filter-based volatile matter using supercritical fluid extraction was performed on 142 and 147 of the tests, respectively. The correlation between the time-integrated LII signals and the dry gravimetric measurements for the steady-state mode tests is used to calibrate the LII measurements in mass units. This calibration is then used to evaluate the correlation between the LII and dry gravimetric measurements for the transient tests. Finally, time-resolved LII measurements for the steady-state mode tests are presented to illustrate three forms of unsteadiness that would seem undesirable.
Correction: Two distinct colonic CD14+ subsets characterized by single-cell RNA profiling in Crohn's disease (2019)

An amendment to this paper has been published and can be accessed via a link at the top of the paper.
Hepatic and glucagon-like peptide-1–mediated reversal of diabetes by glucagon receptor antisense oligonucleotide inhibitors (2004)

Uncontrolled hepatic glucose production contributes significantly to hyperglycemia in patients with type 2 diabetes. Hyperglucagonemia is implicated in the etiology of this condition; however, effective therapies to block glucagon signaling and thereby regulate glucose metabolism do not exist. To determine the extent to which blocking glucagon action would reverse hyperglycemia, we targeted the glucagon receptor (GCGR) in rodent models of type 2 diabetes using 2-methoxyethyl-modified phosphorothioate-antisense oligonucleotide (ASO) inhibitors. Treatment with GCGR ASOs decreased GCGR expression, normalized blood glucose, improved glucose tolerance, and preserved insulin secretion. Importantly, in addition to decreasing expression of cAMP-regulated genes in liver and preventing glucagon-mediated hepatic glucose production, GCGR inhibition increased serum concentrations of active glucagon-like peptide-1 (GLP-1) and insulin levels in pancreatic islets. Together, these studies identify a novel mechanism whereby GCGR inhibitors reverse the diabetes phenotype by the dual action of decreasing hepatic glucose production and improving pancreatic cell function.
mBLAST: Keeping up with the Sequencing Explosion for (Meta) Genome Analysis (2013)

Recent advances in next-generation sequencing technologies require alignment algorithms and software that can keep pace with heightened data production. Standard algorithms, especially protein similarity searches, represent significant bottlenecks in analysis pipelines. For metagenomic approaches in particular, it is now often necessary to search hundreds of millions of sequence reads against large databases. Here we describe mBLAST, an accelerated search algorithm for translated and/or protein alignments to large datasets based on the Basic Local Alignment Search Tool (BLAST) and retaining the high sensitivity of BLAST. The mBLAST algorithms achieve substantial speed up over the National Center for Biotechnology Information (NCBI) programs BLASTX, TBLASTX and BLASTP for large datasets, allowing analysis within reasonable timeframes on standard computer architectures. In this article, the impact of mBLAST is demonstrated with sequences originating from the microbiota of healthy humans from the Human Microbiome Project. mBLAST is designed as a plug-in replacement for BLAST for any study that involves short-read sequences and includes high-throughput analysis. The mBLAST software is freely available to academic users at www.multicorewareinc.com.
Formation of polyion complexes between polycarboxylic acids and polycations carrying charges in the chain backbone (1974)

Abstract The formation of polyion complexes in aqueous medium between polycations carrying charges in the chain backbone and poly(carboxylic acid)s, such as poly(methacrylic acid) (PMAA), poly(carboxylic acid) (PAA), and poly(itaconic acid) (PIA), were studied. It was found that polycations formed more stable complexes than their corresponding low molecular weight cations and that in addition to the chain length, dissociation constants and the hydrophobicity dominated the ability of the formation of a polyion complex. The compositions of the complexes between polycation and polycarboxylic acid were defined mainly by the degree of dissociation (α′) of the poly(carboxylic acid). From these results it is concluded that the complexes are formed by the cooperative interactions between two polymer chains which have charges of opposite sign and the structures of polyion complexes can accept reversible states like loops, ladders, and their intermediate shapes.
Aberrant mural cell recruitment to lymphatic vessels and impaired lymphatic drainage in a murine model of pulmonary fibrosis (2012)

Pulmonary fibrosis is a progressive disease with unknown etiology that is characterized by extensive remodeling of the lung parenchyma, ultimately resulting in respiratory failure. Lymphatic vessels have been implicated with the development of pulmonary fibrosis, but the role of the lymphatic vasculature in the pathogenesis of pulmonary fibrosis remains enigmatic. Here we show in a murine model of pulmonary fibrosis that lymphatic vessels exhibit ectopic mural coverage and that this occurs early during the disease. The abnormal lymphatic vascular patterning in fibrotic lungs was driven by expression of platelet-derived growth factor B (PDGF-B) in lymphatic endothelial cells and signaling through platelet-derived growth factor receptor (PDGFR)-β in associated mural cells. Because of impaired lymphatic drainage, aberrant mural cell coverage fostered the accumulation of fibrogenic molecules and the attraction of fibroblasts to the perilymphatic space. Pharmacologic inhibition of the PDGF-B/PDGFR-β signaling axis disrupted the association of mural cells and lymphatic vessels, improved lymphatic drainage of the lung, and prevented the attraction of fibroblasts to the perilymphatic space. Our results implicate aberrant mural cell recruitment to lymphatic vessels in the pathogenesis of pulmonary fibrosis and that the drainage capacity of pulmonary lymphatics is a critical mediator of fibroproliferative changes.
Influence of Generator Damping on Peak Power and Variance of Power for a Direct Drive Wave Energy Converter (2007)

The first full-scale offshore prototype of a novel wave energy converter system has been launched off the Swedish west coast. The concept is based on a point absorber directly coupled to a linear generator located on the ocean floor. The wave energy converter is part of a research project that will study the electrical system of 10 units forming a small farm of wave power plants as they are linked and connected to an electric grid. A full scale farm will consist of a large number of interconnected units. The chosen direct drive system reduces the mechanical complexity of the converter but has repercussions on the electrical system. The output from the generator will vary with the speed of the point absorber, leading to large fluctuations of power on the second scale. This has implications on both the individual generator and on the system as a whole. The hydrodynamic behavior of the point absorber depends, to a large extent, on the damping of the generator. The damping, in turn, can be controlled remotely by changing the load resistance. It has previously been shown that this has a large influence on the power absorbed by the wave energy converter. This paper investigates the peak power, the translator speed and the variance of the power at different sea states and for different levels of damping. The peak power has an impact on the design of the generator and the required ability, for a single unit, to handle electrical overloads. The speed of the translator is directly proportional to its momentum. It is thus important for the design of the end stop. The variance of the power of one unit will have an impact on the farm system behavior. The study is based on two and a half months of experimental measurements on the prototype wave energy converter and a wave measurement buoy. The aim is to analyze whether load control strategies may influence the dimensioning criteria for the electrical system and the generator. The results are compared with previously investigated relationships between absorbed mean power and load resistance as a function of sea state. In the study it was found that the maximum power is approximately proportional to the average power while maximum translator speed and standard deviation decrease as the damping factor is increased.
Mutations in LRRK2 potentiate age-related impairment of autophagic flux (2015)

Autophagy is thought to play a pivotal role in the pathophysiology of Parkinson's disease, but little is known about how genes linked to PD affect autophagy in the context of aging. We generated lines of C. elegans expressing reporters for the autophagosome and lysosome expressed only in dopaminergic neurons, and examined autophagy throughout the lifespan in nematode lines expressing LRRK2 and α-synuclein. Dopamine neurons exhibit a progressive loss of autophagic function with aging. G2019S LRRK2 inhibited autophagy and accelerated the age-related loss of autophagic function, while WT LRRK2 improved autophagy throughout the life-span. Expressing α-synuclein with G2019S or WT LRRK2 caused age-related synergistic inhibition of autophagy and increase in degeneration of dopaminergic neurons. The presence of α-synuclein particularly accentuated age-related inhibition of autophagy by G2019S LRRK2. This work indicates that LRRK2 exhibits a selective, age-linked deleterious interaction with α-synuclein that promotes neurodegeneration.
5G millimeter wave cellular system capacity with fully digital beamforming (2017)

Due to heavy reliance of millimeter-wave (mmWave) wireless systems on directional links, Beamforming (BF) with high-dimensional arrays is essential for cellular systems in these frequencies. How to perform the array processing in a power efficient manner is a fundamental challenge. Analog and hybrid BF require fewer analog-to-digital converters (ADCs), but can only communicate in a small number of directions at a time, limiting directional search, spatial multiplexing and control signaling. Digital BF enables flexible spatial processing, but must be operated at a low quantization resolution to stay within reasonable power levels. This paper presents a simple additive white Gaussian noise (AWGN) model to assess the effect of low-resolution quantization of cellular system capacity. Simulations with this model reveal that at moderate resolutions (3-4 bits per ADC), there is negligible loss in downlink cellular capacity from quantization. In essence, the low-resolution ADCs limit the high SNR, where cellular systems typically do not operate. The findings suggest that low-resolution fully digital BF architectures can be power efficient, offer greatly enhanced control plane functionality and comparable data plane performance to analog BF.
Development of a Novel, Highly Efficient Halide‐Catalyzed Sulfenylation of Indoles. (2006)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 leading journals. To access a ChemInform Abstract, please click on HTML or PDF.
Localization of an Arg-Gly-Asp Recognition Site Within an Integrin Adhesion Receptor (1988)

Many adhesive interactions are mediated by Arg-Gly-Asp (RGD) sequences within adhesive proteins. Such RGD sequences are frequently recognized by structurally related heterodimers that are members of the integrin family of adhesion receptors. A region was found in the platelet RGD receptor, gpIIb/IIIa, to which an RGD peptide becomes chemically cross-linked. This region corresponds to residues 109 to 171 of gpIIIa. This segment is conserved among the beta subunits of the integrins (76 percent identity of sequence), indicating that it may play a role in the adhesive functions of this family of receptors.
A modular digital VLSI flow for high-productivity SoC design (2018)

A high-productivity digital VLSI flow for designing complex SoCs is presented. The flow includes high-level synthesis tools, an object-oriented library of synthesizable SystemC and C++ components, and a modular VLSI physical design approach based on fine-grained globally asynchronous locally synchronous (GALS) clocking. The flow was demonstrated on a 16nm FinFET testchip targeting machine learning and computer vision.
Silicon Photonics Technology for Terabit-scale Optical I/O (Invited) (2021)

Summary form only given, as follows. The complete presentation was not made available for publication as part of the conference proceedings. We discuss imec&#x0027;s Silicon Photonics interposer technology targeting Tb/s/mm2-scale Optical I/O interconnects for next-generation datacenter network switches and HPC/AI systems. We will cover recent progress in active photonic components, including high-speed Si ring modulators and GeSi electroabsorption modulators. We will also discuss the integration of high-speed Through-Si Via&#x0027;s (TSV) implemented in this platform, and illustrate how flip-chip integration with FinFET CMOS through Cu micro-bumps can enable ultra-low power Tb/s/mm2 transceivers.
STUDIES OF PATHWAYS OF GLUCOSE METABOLISM OF ENDOCRINE TISSUES (1960)

Pathways of glucose oxidation using glucose-1-C14 and glucose-6-C14 have been studied in vitro in adrenal, ovary, testis, pituitary and parathyroid slices. The results indicate the existence of an active hexose monophosphate pathway in all endocrine glands studied. Although in similar experiments TSH in vitro was capable of stimulating glucose oxidation in thyroid (1), no effects of FSH, LH, chorionic gonadotrophin or anterior pituitary powder were observed in ovary or testis. Neither ACTH nor 3′5′ cyclic adenosine monophosphate inhibited glucose oxidation in slices of adrenal cortex. Possible causes for this absence of inhibition are discussed in light of the recent work by Haynes on the mechanism of action of ACTH (6). The hexose monophosphatc pathway for glucose metabolism in endocrine tissue is a source of TPNH, and this cofactor may be of importance in the regulation of hormone production.
Persistent ascites after liver transplantation: Etiology, treatment and impact on survival (2013)

Persistent ascites after liver transplantation is rare, but is associated with reduced 1-year survival. The underlying mechanisms are diverse, abdominal bacterial infection being the most common cause. The majority of cases can be successfully treated.
Change in vision-related quality of life and influencing factors in Asians receiving treatment for neovascular age-related macular degeneration (2017)

Nearly half of patients undergoing treatment for nAMD reported a 2-line improvement in vision which was, in turn, associated with substantial positive increases in Reading Scores. Improvements in Mobility and Emotional Scores appear to be driven by factors other than visual acuity.