gebhart/patrepeval huggingface dataset:
Prandial lactate infusion inhibits spontaneous feeding in rats (2000)

To investigate the acute effects of lactate on spontaneous feeding, we infused lactate in the hepatic portal vein (0.5, 1.0, and 1.5 mmol lactate/meal) or in the vena cava (1.0 and 1.5 mmol lactate/meal) of ad libitum-fed rats during their first spontaneous nocturnal meal. Infusions (5 min, 0.1 ml/min) were remotely controlled, and a computerized feeding system recorded meal patterns. In separate crossover tests, meal size decreased independent of the infusion route after 1.0 and 1.5 mmol but not after 0.5 mmol lactate. The subsequent intermeal interval (IMI) tended to decrease only after vena cava infusion of 1.0 mmol lactate. The size of the second nocturnal meal increased after the 1.0 mmol lactate infusion. Hepatic portal infusion of 1.5 mmol lactate increased the satiety ratio [subsequent IMI (min)/meal size (g)] by 175%, which was higher than the insignificant 43% increase after vena cava infusion. Hepatic portal infusion of 1.5 mmol lactate also increased systemic plasma lactate but not glucose concentration at 1 min after the end of infusion. The results are consistent with the idea that meal-induced increases in circulating lactate play a role in the control of meal size (satiation). Moreover, the results suggest that lactate also contributes to postprandial satiety and that the liver is involved in this effect. The exact mechanisms of lactate's inhibitory effects on feeding and the site(s) where lactate acts to terminate meals remain to be identified.
CHARGE TRANSFER COMPLEXES OF PHEOPHYTIN a WITH NITROAROMATICS. ELECTRON TRANSFER FROM EXCITED SINGLET OF PHEOPHYTIN a TO NITROAROMATICS (1984)

Abstract— The interaction of pheophytin a (Pheo) with seven nitroaromatic acceptors of varying ring sizes and electron acceptor abilities has been studied both in the ground and excited states. The ground state association constants ( K ) of the 1: 1 complexes of donor (Pheo) and acceptors were found to increase with increasing electron affinities of the different acceptors. All the nitroaromatic compounds efficiently quench the singlet emission of Pheo and the quenching follows the Stern‐Volmer (SV) relationship. The SV constants ( K sv ) for different quenchers follow the same order as that of the K values. The reduction potential of Pheo + /Pheo * obtained from the quenching data agrees well with the theoretically predicted value. A charge transfer interaction between the singlet excited state of Pheo and the nitroaromatics is suggested from the dependence of quenching rate constants on the electron affinities of the acceptors.
Gene expression map of the Arabidopsis shoot apical meristem stem cell niche (2009)

Despite the central importance of stem cells in plant growth and development, the molecular signatures associated with them have not been revealed. Shoot apical meristems (SAMs) harbor a small set of stem cells located at the tip of each plant and they are surrounded by several million differentiating cells. This imposes a major limitation in isolating pure populations of stem cells for genomic analyses. We have developed a system to isolate pure populations of distinct cell types of the SAMs, including stem cells. We have used this system to profile gene expression from 4 different cell samples of SAMs. The cell sample-specific gene expression profiling has resulted in a high-resolution gene expression map to reveal gene expression networks specific to individual spatial domains of SAMs. We demonstrate that the cell sample-specific expression profiling is sensitive in identifying rare transcripts expressed in a few specific subsets of cells of SAMs. Our extensive RNA in situ analysis reveals that the expression map can be used as a predictive tool in analyzing the spatial expression patterns of genes and it has led to the identification of unique gene expression patterns within the SAMs. Furthermore, our work reveals an enrichment of DNA repair and chromatin modification pathways in stem cells suggesting that maintenance of genome stability and flexible chromatin may be crucial for stem cell function. The gene expression map should guide future reverse genetics experiments, high-resolution analyses of cell-cell communication networks and epigenetic modifications.
Multiresolution using principal component analysis (2002)

This paper proposes principal component analysis (PCA) to find adaptive bases for multiresolution. An input image is decomposed into components (compressed images) which are uncorrelated and have maximum l/sub 2/ energy. With only minor modification, a single layer linear network using the generalized Hebbian algorithm (GHA) is used for multiresolution PCA. The decomposition has been successfully applied to face classification. Good results with biological signals have also been reported.
Perspectives on router buffer sizing (2009)

The past few years have witnessed a lot of debate on how large Internet router buffers should be. The widely believed rule-of-thumb used by router manufacturers today mandates a buffer size equal to the delay-bandwidth product. This rule was first challenged by researchers in 2004 who argued that if there are a large number of long-lived TCP connections flowing through a router, then the buffer size needed is equal to the delay-bandwidth product divided by the square root of the number of long-lived TCP flows. The publication of this result has since reinvigorated interest in the buffer sizing problem with numerous other papers exploring this topic in further detail - ranging from papers questioning the applicability of this result to proposing alternate schemes to developing new congestion control algorithms, etc. This paper provides a synopsis of the recently proposed buffer sizing strategies and broadly classifies them according to their desired objective: link utilisation, and per-flow performance. We discuss the pros and cons of these different approaches. These prior works study buffer sizing purely in the context of TCP. Subsequently, we present arguments that take into account both real-time and TCP traffic. We also report on the performance studies of various high-speed TCP variants and experimental results for networks with limited buffers. We conclude this paper by outlining some interesting avenues for further research.
The purified myxoma virus gamma interferon receptor homolog M-T7 interacts with the heparin-binding domains of chemokines (1997)

The myxoma virus T7 protein M-T7 is a functional soluble gamma interferon receptor homolog that has previously been shown to bind gamma interferon and inhibit its antiviral activities in a species-specific manner, but gene knockout analysis has suggested a further role for M-T7 in blocking leukocyte influx into infected lesions. We purified M-T7 to apparent homogeneity and showed that M-T7 is an N-linked glycoprotein that appears to be a stable homotrimer with a molecular mass of approximately 113 kDa in solution. M-T7, in addition to forming inhibitory complexes with rabbit gamma interferon, was also shown to bind to human interleukin-8, a prototypic member of the chemokine superfamily. Moreover, M-T7 was able to interact promiscuously with all members of the CXC, CC, and C chemokine subfamilies tested. Binding of human RANTES to M-T7 can be competed by rabbit gamma interferon and also by cold RANTES competitor with a 50% inhibitory concentration of 900 nM. Although M-T7 retains binding to a number of interleukin-8 N-terminal (ELR) deletion mutants, binding to mutants containing deletions in the C-terminal heparin-binding domain of interleukin-8 is abrogated. Furthermore, heparin effectively competes the interaction of M-T7 with the chemokine RANTES but not with rabbit gamma interferon. We propose that this novel M-T7 interaction with members of the chemokine superfamily may be facilitated through the conserved heparin-binding domains found in a wide spectrum of chemokines and that M-T7 may function by modulating chemokine-glycosaminoglycan interactions in virus-infected tissues.
Antisense inhibition of Engrailed genes in mouse embryos reveals roles for these genes in craniofacial and neural tube development (1995)

The roles of engrailed-1 (En-1) and engrailed-2 (En-2) have been investigated during gastrulation and neurulation in mouse embryos. Using antisense oligonucleotides and murine whole embryo culture, early somite embryos were injected with antisense phosphorothioated oligonucleotides directed against En-1 or En-2 transcripts and then grown in vitro for 48 hr. Inhibition of En-1 by antisense targeting during this period resulted in embryos with craniofacial abnormalities, specifically loss of mid- and hindbrain tissue and hypoplasia in associated neural crest derived areas such as the face and first and second pharyngeal arches. In addition, En-1 appeared to be essential in early patterning of the neural tube. Embryos removed from culture as early as 8 hr following injection exhibited undulations in the presumptive spinal cord. Histological analysis of the affected neural tubes at 48 hr showed disrupted cytoarchitecture and in some cases, apparent dorsal-ventral duplication of the neural tube and underlying notochord. Using S100 beta as a notochord marker, embryos removed from culture at 8 or 12 hr following injection exhibited loss of S100 beta expression in the notochord region subjacent to affected neural tube segments, suggesting that S100 beta, or other notochordal genes, may be downstream components of the En-1 regulatory cascade. Furthermore, antisense inhibition of En-1 induced caudal dysgenesis, suggesting disruption in primitive streak function. Antisense targeting of En-2 expression of early somite stages produced few alterations in development, although approximately one third of the embryos exhibited a series of lateral folds in the spinal cord at the level of the forelimb-bud.(ABSTRACT TRUNCATED AT 250 WORDS)
S-adenosylmethionine levels in psychiatric and neurological disorders: a review (1994)

Intravenous or oral administration of SAMe thus represents a possible treatment for these neurological and metabolic disorders.
Identification of the crossover site during FLP-mediated recombination in the Saccharomyces cerevisiae plasmid 2 microns circle. (1986)

The FLP protein of the Saccharomyces cerevisiae plasmid 2 microns circle catalyzes site-specific recombination between two repeated segments present on the plasmid. In this paper we present results of experiments we performed to define more precisely the features of the FLP recognition target site, which we propose to designate FRT, and to determine the actual recombination crossover point in vivo. We found that essential sequences for the recombination event are limited to an 8-base-pair core sequence and two 13-base-pair repeated units immediately flanking it. This is the region identified as the FLP binding site in vitro and at which FLP protein promotes specific single-strand cleavages (B. J. Andrews, G. A. Proteau, L. G. Beatty, and P. D. Sadowski, Cell 40:795-803, 1985; J. F. Senecoff, R. C. Bruckner, and M. M. Cox, Proc. Natl. Acad. Sci. USA 82:7270-7274, 1985). Mutations within the core domain can be suppressed by the presence of the identical mutation in the chromatid with which it recombines. However, mutations outside the core are not similarly suppressed. We found that strand exchange during FLP recombination occurs most of the time within the core region, proceeding through a heteroduplex intermediate. Finally, we found that most FLP-mediated events are reciprocal exchanges and that FLP-catalyzed gene conversions occur at low frequency. The low level of gene conversion associated with FLP recombination suggests that it proceeds by a breakage-joining reaction and that the two events are concerted.
Learning semantic string transformations from examples (2012)

We address the problem of performing semantic transformations on strings, which may represent a variety of data types (or their combination) such as a column in a relational table, time, date, currency, etc. Unlike syntactic transformations, which are based on regular expressions and which interpret a string as a sequence of characters, semantic transformations additionally require exploiting the semantics of the data type represented by the string, which may be encoded as a database of relational tables. Manually performing such transformations on a large collection of strings is error prone and cumbersome, while programmatic solutions are beyond the skill-set of end-users. We present a programming by example technology that allows end-users to automate such repetitive tasks. We describe an expressive transformation language for semantic manipulation that combines table lookup operations and syntactic manipulations. We then present a synthesis algorithm that can learn all transformations in the language that are consistent with the user-provided set of input-output examples. We have implemented this technology as an add-in for the Microsoft Excel Spreadsheet system and have evaluated it successfully over several benchmarks picked from various Excel help-forums.
SWIFT: Software Implemented Fault Tolerance (2005)

To improve performance and reduce power, processor designers employ advances that shrink feature sizes, lower voltage levels, reduce noise margins, and increase clock rates. However, these advances make processors more susceptible to transient faults that can affect correctness. While reliable systems typically employ hardware techniques to address soft-errors, software techniques can provide a lower-cost and more flexible alternative. This paper presents a novel, software-only, transient-fault-detection technique, called SWIFT. SWIFT efficiently manages redundancy by reclaiming unused instruction-level resources present during the execution of most programs. SWIFT also provides a high level of protection and performance with an enhanced control-flow checking mechanism. We evaluate an implementation of SWIFT on an Itanium 2 which demonstrates exceptional fault coverage with a reasonable performance cost. Compared to the best known single-threaded approach utilizing an ECC memory system, SWIFT demonstrates a 51% average speedup.
Latency-Associated Viral Interleukin-10 (IL-10) Encoded by Human Cytomegalovirus Modulates Cellular IL-10 and CCL8 Secretion during Latent Infection through Changes in the Cellular MicroRNA hsa-miR-92a (2014)

HCMV latency causes significant morbidity and mortality in immunocompromised individuals, yet HCMV is carried silently (latently) in 50 to 90% of the population. Understanding how HCMV maintains infection for the lifetime of an infected individual is critical for the treatment of immunocompromised individuals suffering with disease as a result of HCMV. In this study, we analyze one of the proteins that are expressed during the "latent" phase of HCMV, LAcmvIL-10, and find that the expression of the gene modulates the microenvironment of the infected cell, leading to evasion of the immune system.
Human telomerase contains evolutionarily conserved catalytic and structural subunits (1997)

We have cloned and characterized a human gene encoding TP2 (telomerase-associated protein 2), a protein with similarity to reverse transcriptases and the catalytic telomerase subunits from Saccharomyces cerevisiae and Euplotes aediculatus. Indirect immunofluorescence revealed that TP2 was localized to the nucleus. Using antibodies to endogenous and epitope-tagged TP2, we found that TP2 was associated specifically with human telomerase activity and the recently identified telomerase-associated protein TP1. Mutation of conserved residues within the reverse transcriptase domain of TP2 severely reduced associated telomerase activity. These results suggest that telomerase is an evolutionarily conserved multisubunit complex composed of both structural and catalytic subunits.
Genetic variants influencing effectiveness of weight loss strategies (2009)

Body weight excess has an increasingly high prevalence in the world. Obesity is a complex disease of multifactorial origin with a polygenic condition affected by environmental factors. Weight loss is a primary strategy to treat obesity and its morbidities. Weight changes through life depend on the interaction of environmental, behavioral and genetic factors. Interindividual variation of weight loss in response to different types of interventions (behavioral, caloric restriction, exercise, drug or surgery) has been observed. In this article, currently available data on the role of candidate gene polymorphisms in weight loss are reviewed. Even though control of weight loss by genotype was described in twin and family studies, it is premature to recommend use of genotyping in the design of therapeutic diets or drug treatment. Future studies will have to be large in order to assess the effects of multiple polymorphisms, and will have to control factors other than diet.
Signalling pathways involved in multisite phosphorylation of the transcription factor ATF‐2 (2004)

The multisite phosphorylation of the transcription factor ATF-2 was investigated using transformed embryonic fibroblasts from wild-type mice and mice deficient in c-Jun N-terminal kinases (JNK)1 and 2, and in the presence and absence of inhibitors of p38 mitogen-activated protein kinase (p38 MAPK) and the classical MAP kinase cascade. In wild-type cells, p38 MAPK and extracellular signal-regulated protein kinase (ERK)1/2 were not rate limiting for the phosphorylation of Thr69, Thr71 or Ser90. In JNK-deficient cells, p38 MAPK substituted for JNK partially in the phosphorylation of Thr69 and p38 MAPK or ERK1/2 in the phosphorylation of Thr71. JNK was the only MAP kinase that phosphorylated Ser90 under the conditions examined.
DNA Variation at the Invertase Locus invGE/GF Is Associated With Tuber Quality Traits in Populations of Potato Breeding Clones (2005)

Starch and sugar content of potato tubers are quantitative traits, which are models for the candidate gene approach for identifying the molecular basis of quantitative trait loci (QTL) in noninbred plants. Starch and sugar content are also important for the quality of processed products such as potato chips and French fries. A high content of the reducing sugars glucose and fructose results in inferior chip quality. Tuber starch content affects nutritional quality. Functional and genetic models suggest that genes encoding invertases control, among other things, tuber sugar content. The invGE/GF locus on potato chromosome IX consists of duplicated invertase genes invGE and invGF and colocalizes with cold-sweetening QTL Sug9. DNA variation at invGE/GF was analyzed in 188 tetraploid potato cultivars, which have been assessed for chip quality and tuber starch content. Two closely correlated invertase alleles, invGE-f and invGF-d, were associated with better chip quality in three breeding populations. Allele invGF-b was associated with lower tuber starch content. The potato invertase gene invGE is orthologous to the tomato invertase gene Lin5, which is causal for the fruit-sugar-yield QTL Brix9-2-5, suggesting that natural variation of sugar yield in tomato fruits and sugar content of potato tubers is controlled by functional variants of orthologous invertase genes.
A novel approach to systematically implement the universal definition of myocardial infarction: insights from the CHAMPION PLATFORM trial (2013)

Systematic, strict implementation of the universal MI definition with emphasis on baseline assessment may enhance discrimination in detecting PCI-MI and may allow for more rigorous assessment of interventions in patients undergoing early PCI.
Leukocyte Adhesion Deficiency: An Inherited Defect In The Mac-1, LFA-1, And p150,95 Glycoproteins (1987)

Leukocyte adhesion deficiency (LAD) is a recently recognized autosomal-recessive trait characterized by recurrent bacterial infections, impaired pus formation and wound healing, and abnormalities in a wide spectrum of adherence-dependent functions of granulocytes, monocytes, and lymphoid cells. Features of this disease are attributable to deficiency (or absence) of cell surface expression of a family of functionally and structurally related glycoproteins. These include Mac-1 (complement receptor type 3), lymphocyte function-associated antigen-1 (LFA-1), and p150,95. Defective biosynthesis of the beta chain shared by each molecule (comprised of alpha 1 beta 1 complexes) represents the fundamental molecular basis of this disease. Recognition of the molecular pathogenesis of this disorder has allowed rich insights into the role of cellular adherence reactions in inflammation and host defense.
Thermal Conductivity of High-Strength Polyethylene Fiber and Applications for Cryogenic Use (2011)

The local temperature rise of the tape is one of instabilities of the conduction-cooled high temperature superconducting (HTS) coils. To prevent the HTS tape from locally raising a temperature, high thermal conductive fiber reinforced plastic was applied to coil bobbin or spacer for heat drain from HTS tape. The thermal conductivity of ramie fibers increases by increasing orientation of molecular chains with drawing in water, and decreases by chain scission with γ -rays irradiation or by bridge points in molecular chains with vapor-phase-formaldehyde treatments. Thermal conductivity of high strength ultra-high-molecular-weight (UHMW) polyethylene (PE) fiber increases lineally in proportion to tensile modulus and decreases by molecular chain scissions with γ -rays irradiation. This result suggested the contribution of the long extended molecular chains due to high molecular weight on the high thermal conductivity of high strength UHMW PE fiber. Thermal conductivity of high strength UHMW PE fiber reinforced plastics in parallel to fiber direction is proportional to the cross sectional ratio of reinforcement oriented in the conduction direction. Heat drain effect of high strength UHMW PE fiber reinforced plastic from HTS tape is higher than that of glass fiber reinforced plastic (GFRP) and lower than that of aluminum nitride (AlN). In the case of HTS coil, the thermal stability wound on coil bobbin made of high strength UHMW PE fiber reinforced plastic is good as that of AlN, and better than that of GFRP.
The Glucocorticoid Receptor Binds to a Sequence Overlapping the TATA Box of the Human Osteocalcin Promoter: a Potential Mechanism for Negative Regulation (1991)

Expression of the human osteocalcin promoter is negatively regulated by glucocorticoids in vivo. In vitro DNase I and exonuclease III footprinting analysis showed binding of purified glucocorticoid receptor in close proximity to and overlapping with the TATA box of the osteocalcin gene. These results imply competition or interference with binding of the TATA box-binding transcription factor IID as a mechanism of repression of this gene by glucocorticoids. In support of this notion, point mutation analysis of the receptor binding site indicated that flanking nucleotides and not the TATA box motif per se were important for receptor interaction. Moreover, DNA binding competition assays showed specific binding of the receptor only to the TATA box region of the osteocalcin gene and not to the corresponding region of an immunoglobulin heavy-chain promoter.