gebhart/patrepeval huggingface dataset:
Turnover Mechanisms of the Stable Yeast PGK1 mRNA (1995)

The first step in the decay of several yeast mRNAs is the shortening of the poly(A) tail, which for the MFA2 transcript triggers decapping and 5'-to-3' degradation. To understand the basis for differences in mRNA decay rates, it is important to determine if deadenylation-dependent decapping is specific to the unstable MFA2 transcript or is a general mechanism of mRNA degradation. To this end, we analyzed the turnover of the stable PGK1 mRNA by monitoring the decay of a pulse of newly synthesized transcripts while using two strategies to trap decay intermediates. First, we used strains deleted for the XRN1 gene, which encodes a major 5'-to-3' exonuclease in Saccharomyces cerevisiae. In xrn1 delta cells, PGK1 transcripts lacking the 5' cap structure and a few nucleotides at the 5' end were detected after deadenylation. Second, we inserted into the PGK1 5' untranslated region strong RNA secondary structures, which can slow exonucleolytic digestion and thereby trap decay intermediates. These secondary structures led to the accumulation of PGK1 mRNA fragments, following deadenylation, trimmed from the 5' end to the site of the secondary structure. The insertion of strong secondary structures into the 5' untranslated region also inhibited translation of the mRNA and greatly stimulated the decay of the PGK1 transcripts, suggesting that translation of the PGK1 mRNA is required for its normally slow rate of decay. These results suggest that one mechanism of degradation of the PGK1 transcript is deadenylation followed by decapping and subsequent 5'-to-3' exonucleolytic degradation. In addition, by blocking the 5'-to-3' degradation process, we observed PGK1 mRNA fragments that are consistent with a 3'-to-5' pathway of mRNA turnover that is slightly slower than the decapping/5'-to-3' decay pathway. These observations indicate that there are multiple mechanisms by which an individual transcript can be degraded following deadenylation.
Biotechnological production of the European corn borer sex pheromone in the yeast Yarrowia lipolytica (2021)

The European corn borer (ECB) Ostrinia nubilalis is a widespread pest of cereals, particularly maize. Mating disruption with the sex pheromone is a potentially attractive method for managing this pest; however, chemical synthesis of pheromones requires expensive starting materials and catalysts and generates hazardous waste. The goal of this study was to develop a biotechnological method for the production of ECB sex pheromone. Our approach was to engineer the oleaginous yeast Yarrowia lipolytica to produce (Z)-11-tetradecenol (Z11-14:OH), which can then be chemically acetylated to (Z)-11-tetradecenyl acetate (Z11-14:OAc), the main pheromone component of the Z-race of O. nubilalis. First, a C14 platform strain with increased biosynthesis of myristoyl-CoA was obtained by introducing a point mutation into the α-subunit of fatty acid synthase, replacing isoleucine 1220 with phenylalanine (Fas2p<sup>I1220F</sup> ). The intracellular accumulation of myristic acid increased 8.4-fold. Next, fatty acyl-CoA desaturases (FAD) and fatty acyl-CoA reductases (FAR) from nine different species of Lepidoptera were screened in the C14 platform strain, individually and in combinations. A titer of 29.2 ± 1.6 mg L<sup>-1</sup> Z11-14:OH was reached in small-scale cultivation with an optimal combination of a FAD (Lbo_PPTQ) from Lobesia botrana and FAR (HarFAR) from Helicoverpa armigera. When the second copies of FAD and FAR genes were introduced, the titer improved 2.1-fold. The native FAS1 gene's overexpression led to a further 1.5-fold titer increase, reaching 93.9 ± 11.7 mg L<sup>-1</sup> in small-scale cultivation. When the same engineered strain was cultivated in controlled 1 L bioreactors in fed-batch mode, 188.1 ± 13.4 mg L<sup>-1</sup> of Z11-14:OH was obtained. Fatty alcohols were extracted from the biomass and chemically acetylated to obtain Z11-14:OAc. Electroantennogram experiments showed that males of the Z-race of O. nubilalis were responsive to biologically-derived pheromone blend. Behavioral bioassays in a wind tunnel revealed attraction of male O. nubilalis, although full precopulatory behavior was observed less often than for the chemically synthesized pheromone blend. The study paves the way for the production of ECB pheromone by fermentation.
A new functional approach to the surgical management of pierre robin syndrome: Experimental and clinical report (1976)

A functional and simple surgical method for treating the respiratory distress of the neonate affected by Pierre Robin syndrome is described. The base of the tongue is placed in an anterior position via a buried wire suture tied around the body of the hyoid. The method proposed in this paper fulfills the following: 1. It is physiologic since the infant is able to suckle and maintain its nutrition by preserving the function of the mobile portion of the tongue for deglutition. 2. Maintenance of the "pushing" action of the tongue stimulates growth of the mandible. 3. The anchoring wire is not exposed in the oral cavity and the risk of tissue breakdown and infection is eliminated. 4. This technique utilizes the stronger fibrous portion of the mid-tongue rather than muscle which "gives" more readily under pressure. 5. The shortest distance from the base of the tongue to the mid-hyoid provides the best mechanical advantage. 6. The suture, if need be, may be tightened at subsequent periods of time. Under Ketamin (Ketalan) anesthesia the tip of the tongue was held in the forward position. An 18 gauge stainless steel wire was inserted via a large curved needle through the midline of the posterior-most portion at the base of the tongue. The needle was directed anteriorly and inferiorly to emerge below the mid point of the inferior border of the hyoid bone. The opposite end of the wire was then tunneled submucosally to the anterior portion of the base of the tongue at foramen caecum, and directed inferiorly to emerge above the superior border of the mid-portion of the hyoid bone. Through a small skin incision opposite the body of the hyoid bone, both free ends of the wire were tied under tension around the body of the hyoid while pulling the base of the tongue forward. The skin incision was closed with a single nylon suture. A prosthetic obturator was used to close the cleft palate. The outcome was satisfactory with no morbidity.
Surface-Plasmon-Mediated Single-Molecule Fluorescence Through a Thin Metallic Film (2005)

We demonstrate that fluorescence of single molecules in the nanometric vicinity of a thin gold film can be effectively excited and detected through the film with an epi-illumination scanning confocal microscope. A full theoretical treatment of the fluorescence signal indicates that both excitation and emission are surface-plasmon mediated. Remarkably, the number of photons detectable from chromophores perpendicular to the interface is enhanced by the presence of the metal.
Investigation of tunnel field-effect transistors as a capacitor-less memory cell (2014)

In this work, we report experimental results on the use of tunnel field-effect transistors as capacitorless dynamic random access memory cells, implemented as double-gate fully depleted silicon-on-insulator devices. The devices have an asymmetric design, with a partial overlap of the top gate (LG) and with a total overlap of the back gate over the channel region (LG + LIN). A potential well is created by biasing the back gate (VBG) in accumulation, while the front gate (VFG) is in inversion. Holes from the p+ source are injected by the forward-biased p+ i junction and stored in the electrically induced potential well.
Identification of specific targets for the gut mucosal defense factor intestinal alkaline phosphatase (2010)

Intestinal alkaline phosphatase (IAP) is a small intestinal brush border enzyme that has been shown to function as a gut mucosal defense factor, but its precise mechanism of action remains unclear. We investigated the effects of IAP on specific bacteria and bacterial components to determine its molecular targets. Purulent fluid from a cecal ligation and puncture model, specific live and heat-killed bacteria (Escherichia coli, Salmonella typhimurium, and Listeria monocytogenes), and a variety of proinflammatory ligands (LPS, CpG DNA, Pam-3-Cys, flagellin, and TNF) were incubated with or without calf IAP (cIAP). Phosphate release was determined by using a malachite green assay. The various fluids were applied to target cells (THP-1, parent HT-29, and IAP-expressing HT-29 cells) and IL-8 secretion measured by ELISA. cIAP inhibited IL-8 induction by purulent fluid in THP-1 cells by >35% (P < 0.005). HT29-IAP cells had a reduced IL-8 response specifically to gram-negative bacteria; >90% reduction compared with parent cells (P < 0.005). cIAP had no effect on live bacteria but attenuated IL-8 induction by heat-killed bacteria by >40% (P < 0.005). cIAP exposure to LPS and CpG DNA caused phosphate release and reduced IL-8 in cell culture by >50% (P < 0.005). Flagellin exposure to cIAP also resulted in reduced IL-8 secretion by >40% (P < 0.005). In contrast, cIAP had no effect on TNF or Pam-3-Cys. The mechanism of IAP action appears to be through dephosphorylation of specific bacterial components, including LPS, CpG DNA, and flagellin, and not on live bacteria themselves. IAP likely targets these bacterially derived molecules in its role as a gut mucosal defense factor.
Pregnancy-associated genes contribute to antiluteolytic mechanisms in ovine corpus luteum (2013)

The hypothesis that ovine luteal gene expression differs due to pregnancy status and day of estrous cycle was tested. RNA was isolated from corpora lutea (CL) on days 12 and 14 of the estrous cycle (NP) or pregnancy (P) and analyzed with the Affymetrix bovine microarray. RNA also was isolated from luteal cells on day 10 of estrous cycle that were cultured for 24 h with luteolytic hormones (OXT and PGF) and secretory products of the conceptus (IFNT and PGE2). Differential gene expression (>1.5-fold, P < 0.05) was confirmed using semiquantitative real-time PCR. Serum progesterone concentrations decreased from day 12 to day 15 in NP ewes (P < 0.05) reflecting luteolysis and remained >1.7 ng/ml in P ewes reflecting rescue of the CL. Early luteolysis (days 12-14) was associated with differential expression of 683 genes in the CL, including upregulation of SERPINE1 and THBS1. Pregnancy on day 12 (55 genes) and 14 (734 genes) also was associated with differential expression of genes in the CL, many of which were ISGs (i.e., ISG15, MX1) that were induced when culturing luteal cells with IFNT, but not PGE2. Finally, many genes, such as PTX3, IL6, VEGF, and LHR, were stabilized during pregnancy and downregulated during the estrous cycle and in response to culture of luteal cells with luteolytic hormones. In conclusion, pregnancy circumvents luteolytic pathways and activates or stabilizes genes associated with interferon, chemokine, cell adhesion, cytoskeletal, and angiogenic pathways in the CL.
Entrepreneurship development training programmes in India (1990)

It has been argued by David McClelland that the levels of growth which a country attains are explained by the presence or absence of a 'need for achievement' ('n Ach') in the population. Since this need for achievement can be developed and reinforced, growth can be accelerated by influencing the behaviour and supply of a country's entrepreneurs. One can debate the issue raised by van Arkady that 'theories that emphasize deep-seated psychological or cultural characteristics do not seem particularly relevant for policy, as these variables are unlikely to be subject to policy influence over any useful time horizon.' Indian entrepreneurship development training programmes (EDTPs), being the first and most widely replicated, have the potential to exemplify McClelland's theory and to demonstrate effective ways of enhancing entrepreneurship through policy intervention.The objective of this paper is to present a synoptic view of EDTPs in India. It focuses on training processes and procedures as they currently exist and offers some suggestions for their improvement. The first section discusses the evolution and scope of the Indian EDTPs, and the specialized agencies which conduct them. The second section describes the Indian EDTP package, followed by an evaluation. A limitation of this paper is that it does not address the debate on the comparative efficiency of the 'training-alone approach' vis-à-vis the 'training-plus approach'. Another limitation is that it is based on the author's observations rather than rigorous scientific evaluation. Unfortunately, the vast literature on Indian EDTPs does not include any scientific evaluation.
Plasma cytokine levels in necrotizing enterocolitis (1994)

Plasma concentrations of tumour necrosis factor (TNF) and interleukin-6 (IL-6) were measured by ELISA in samples taken from 24 infants with necrotizing enterocolitis (NEC) between 0 and 306 h from diagnosis. TNF was detected (> 10 pg/ml) in 71% samples with a mean of 48 pg/ml (95% CI 42 to 55 pg/ml) and did not vary with either time from diagnosis or severity of disease. IL-6 was raised during the first 48 h with a significant difference between stage II (mean 127 pg/ml, 95% CI 10 to 329 pg/ml) and stage III (mean 3127 pg/ml, 95% CI 1809 to 4445 pg/ml, p = 0.001). Postoperative plasma IL-6 concentration fell to similar levels seen in stage II (mean 150 pg/ml, 95% CI 37 to 283 pg/ml, p = 0.79). We conclude that plasma concentration of IL-6 rather than TNF reflects the clinical severity of necrotizing enterocolitis and that the relative level of these cytokines has important implications for the use of anti-cytokine therapy in NEC.
Recursive data mining for masquerade detection and author identification (2005)

In this paper, a novel recursive data mining method based on the simple but powerful model of cognition called a conceptor is introduced and applied to computer security. The method recursively mines a string of symbols by finding frequent patterns, encoding them with unique symbols and rewriting the string using this new coding. We apply this technique to two related but important problems in computer security: (i) masquerade detection to prevent a security attack in which an intruder impersonates a legitimate user to gain access to the resources, and (ii) author identification, in which anonymous or disputed computer session needs to be attributed to one of a set of potential authors. Many methods based on automata theory, hidden Markov models, Bayesian models or even matching algorithms from bioinformatics have been proposed to solve the masquerading detection problem but less work has been done on the author identification. We used recursive data mining to characterize the structure and high-level symbols in user signatures and the monitored sessions. We used one-class SVM to measure the similarity of these two characterizations. We applied weighting prediction scheme to author identification. On the SEA dataset that we used in our experiments, the results were very promising.
Monte Carlo calculation of hydrodynamic properties of linear and cyclic polymers in good solvents (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTMonte Carlo calculation of hydrodynamic properties of linear and cyclic polymers in good solventsJ. M. Garcia Bernal, M. M. Tirado, J. J. Freire, and J. Garcia de la TorreCite this: Macromolecules 1991, 24, 2, 593–598Publication Date (Print):January 1, 1991Publication History Published online1 May 2002Published inissue 1 January 1991https://pubs.acs.org/doi/10.1021/ma00002a038https://doi.org/10.1021/ma00002a038research-articleACS PublicationsRequest reuse permissionsArticle Views315Altmetric-Citations58LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Declarative programming of graphical interfaces by visual examples (1992)

Graphical user interfaces (GUI) provide intuitive and easy means for users to communicate with computers. However, construction of GUI software requires complex programming that is far from being intuitive. Because of the “semantic gap” between the textual application program and its graphical interface, the programmer himself must conceptually maintain the correspondence between the textual programming and the graphical image of the resulting interface. Instead, we propose a programming environment based on the programming by visual example (PBVE) scheme, which allows the GUI designers to “program” visual interfaces for their applications by “drawing” the example visualization of application data with a direct manipulation interface. Our system, TRIP3, realizes this with (1) the bi-directional translation model between the (abstract) application data and the pictorial data of the GUI, and (2) the ability to generate mapping rules for the translation from example application data and its corresponding example visualization. The latter is made possible by the use of generalization of visual examples, where the system is able to automatically generate generalized mapping rules from a given set of examples.
A study on data augmentation of reverberant speech for robust speech recognition (2017)

The environmental robustness of DNN-based acoustic models can be significantly improved by using multi-condition training data. However, as data collection is a costly proposition, simulation of the desired conditions is a frequently adopted strategy. In this paper we detail a data augmentation approach for far-field ASR. We examine the impact of using simulated room impulse responses (RIRs), as real RIRs can be difficult to acquire, and also the effect of adding point-source noises. We find that the performance gap between using simulated and real RIRs can be eliminated when point-source noises are added. Further we show that the trained acoustic models not only perform well in the distant-talking scenario but also provide better results in the close-talking scenario. We evaluate our approach on several LVCSR tasks which can adequately represent both scenarios.
Hand gesture recognition and virtual game control based on 3D accelerometer and EMG sensors (2009)

This paper describes a novel hand gesture recognition system that utilizes both multi-channel surface electromyogram (EMG) sensors and 3D accelerometer (ACC) to realize user-friendly interaction between human and computers. Signal segments of meaningful gestures are determined from the continuous EMG signal inputs. Multi-stream Hidden Markov Models consisting of EMG and ACC streams are utilized as decision fusion method to recognize hand gestures. This paper also presents a virtual Rubik's Cube game that is controlled by the hand gestures and is used for evaluating the performance of our hand gesture recognition system. For a set of 18 kinds of gestures, each trained with 10 repetitions, the average recognition accuracy was about 91.7% in real application. The proposed method facilitates intelligent and natural control based on gesture interaction.
Nanocomposite Materials for Optical Applications (1997)

A substantial amount of work has been carried out in the area of nanocomposite materials for optical applications. Composites are typically constructed by embedding an optically functional phase into a processable, transparent matrix material. By doing so, the optical properties can be utilized in more technologically important forms such as films and fibers. This review covers many areas of optical composite research to date. Composites with second- and third-order nonlinearities and laser amplification properties are discussed with examples from the recent literature. Other composites, including transparent magnets, may be made using similar structures. The principles used to construct these composites may have important technological applications soon and are therefore summarized in this review.
Antidiabetes and Anti‐Obesity Activity of Lagerstroemia speciosa (2007)

The leaves of Lagerstroemia speciosa (Lythraceae), a Southeast Asian tree more commonly known as banaba, have been traditionally consumed in various forms by Philippinos for treatment of diabetes and kidney related diseases. In the 1990s, the popularity of this herbal medicine began to attract the attention of scientists worldwide. Since then, researchers have conducted numerous in vitro and in vivo studies that consistently confirmed the antidiabetic activity of banaba. Scientists have identified different components of banaba to be responsible for its activity. Using tumor cells as a cell model, corosolic acid was isolated from the methanol extract of banaba and shown to be an active compound. More recently, a different cell model and the focus on the water soluble fraction of the extract led to the discovery of other compounds. The ellagitannin Lagerstroemin was identified as an effective component of the banaba extract responsible for the activity. In a different approach, using 3T3-L1 adipocytes as a cell model and a glucose uptake assay as the functional screening method, Chen et al. showed that the banaba water extract exhibited an insulin-like glucose transport inducing activity. Coupling HPLC fractionation with a glucose uptake assay, gallotannins were identified in the banaba extract as components responsible for the activity, not corosolic acid. Penta-O-galloyl-glucopyranose (PGG) was identified as the most potent gallotannin. A comparison of published data with results obtained for PGG indicates that PGG has a significantly higher glucose transport stimulatory activity than Lagerstroemin. Chen et al. have also shown that PGG exhibits anti-adipogenic properties in addition to stimulating the glucose uptake in adipocytes. The combination of glucose uptake and anti-adipogenesis activity is not found in the current insulin mimetic drugs and may indicate a great therapeutic potential of PGG.
Epigenetic reprogramming and induced pluripotency (2009)

The cloning of animals from adult cells has demonstrated that the developmental state of adult cells can be reprogrammed into that of embryonic cells by uncharacterized factors within the oocyte. More recently, transcription factors have been identified that can induce pluripotency in somatic cells without the use of oocytes, generating induced pluripotent stem (iPS) cells. iPS cells provide a unique platform to dissect the molecular mechanisms that underlie epigenetic reprogramming. Moreover, iPS cells can teach us about principles of normal development and disease, and might ultimately facilitate the treatment of patients by custom-tailored cell therapy.