Miracle-dz/UniFAR-FTUs huggingface dataset:
Combined Plant and Controller Design Using Batch Bayesian Optimization: A Case Study in Airborne Wind Energy Systems

This paper presents a novel data-driven nested optimization framework that addresses the problem of coupling between plant and controller optimization. This optimization strategy is tailored toward instances where a closed-form expression for the system dynamic response is unobtainable and simulations or experiments are necessary. Specifically, Bayesian optimization, which is a data-driven technique for finding the optimum of an unknown and expensive-to-evaluate objective function, is employed to solve a nested optimization problem. The underlying objective function is modeled by a Gaussian process (GP); then, Bayesian optimization utilizes the predictive uncertainty information from the GP to determine the best subsequent control or plant parameters. The proposed framework differs from the majority of codesign literature where there exists a closed-form model of the system dynamics. Furthermore, we utilize the idea of batch Bayesian optimization at the plant optimization level to generate a set of plant designs at each iteration of the overall optimization process, recognizing that there will exist economies of scale in running multiple experiments in each iteration of the plant design process. We validate the proposed framework for Altaeros' buoyant airborne turbine (BAT). We choose the horizontal stabilizer area, longitudinal center of mass relative to center of buoyancy (plant parameters), and the pitch angle set-point (controller parameter) as our decision variables. Our results demonstrate that these plant and control parameters converge to their respective optimal values within only a few iterations.
Identification of functional transcription factor binding sites using closely related Saccharomyces species

data Supplementary http://www.genome. org/cgi/content/full/gr.3578205/DC1 "Supplemental Research Data" References http://www.genome. org/cgi/content/full/15/5/701#otherarticles Article cited in: http://www.genome. org/cgi/content/full/15/5/701#References This article cites 48 articles, 32 of which can be accessed free at: Open Access Freely available online through the Genome Research Open Access option. service Email alerting click here top right corner of the article or Receive free email alerts when new articles cite this article sign up in the box at the Notes
Intracorporeal Versus Extracorporeal Anastomoses in Laparoscopic Right Hemicolectomy: A Single-Center Experience

Background: Right hemicolectomy is a commonly performed procedure for both benign and malignant diseases of the right colon. However, there is marked technical variation in the anastomosis technique used. In our hospital, both intracorporeal anastomosis (IA) and extracorporeal anastomosis (EA) are performed. Our study aimed to assess and compare the short-term outcomes following laparoscopic right hemicolectomies, particularly in regard to the anastomosis technique. Methods: All consecutive adult (>18 years of age) patients who underwent elective right hemicolectomy from January 2020 to April 2023 at St Richards Hospital, Chichester, University Hospitals Sussex NHS Foundation Trust, UK, were included in our retrospective study. Data, including age at operation, body mass index, American Society of Anesthesiologists (ASA) score, pathology, type of procedure, type of anastomosis, technique of anastomosis, post-operative high-dependency unit (HDU) stay, hospital length of stay, post-operative ileus, anastomotic leak, return to theater, and in-hospital mortality, were extracted. Patients who did not get an ileocolic anastomosis, had a stoma formation, and had an open procedure or conversion to open procedure were excluded. The cases that fulfilled the criteria were shortlisted for analysis. These cases were then divided into two groups: patients who had an IA and those who had an EA. Results: From January 2020 to April 2023, 152 patients underwent right hemicolectomy. A total of 139 patients fulfilled our eligibility criteria and were included in our final analysis. The overall mortality rate was 0.7% (1/139), the return to theater rate was 0.7% (1/139), and no anastomotic leaks were recorded. The overall ileus rate was 16.5% (23/139). The hospital length of stay was significantly longer in the EA group as compared to the IA group (p<0.004). A higher proportion (18.75%, n=21) of the patients had a recorded ileus in the EA group as compared to 7.4% (n=2) in the IA group, but this difference was not statistically significant (p=0.24). Conclusions: We found that the patients who had IA had reduced hospital length of stay. The IA group also had clinically significant reduced rates of post-operative ileus, but this was not statistically significant. However, other short-term outcomes that were measured were similar in both groups.
INSILICO DETERMINATION OF ANTI CANCER ACTIVITY OF PHYTOCHEMICAL FROM CLOVE (Syzygium aromaticum L) SEED

Syzygium aromaticum seed from the family of Myrtaceae is a highly priced natural spice used in preparation of food which have been acclaimed and reported by previous researchers to have anticancer activities potentials. Due to the rising burden of cancer worldwide its severity and fatality coupled with side effects of synthetic drugs calls for an alternative treatment solution. Hence the current research studied the phytocompounds from the seed by extracting and screening the compounds using solvent maceration method and gas chromatography coupled to mass selective detector respectively to extract, identify and quantify the component phytochemicals present in the seed. Site directed multi-ligand docking of the identified compounds was performance on progesterone receptor protein responsible for breast cancer development using the compounds from GCMS results and compared with four standard breast cancer drugs by molecular docking method. The result showed that the alpha cubebene (-7 kcal/mol), Velerena -4, 7- (II) diene (-7.1 kcal/mol), caryophyllene (-7.4 kcal/mol), caryophyllene oxide (-7.4 kcal/mol), dibutyl phthalate have binding affinity close to the standard breast cancer drugs Abemaciclib (-8.3), Anastrozole (-7.2 kcal/mol) and Paclitaxel (-8.8 kcal/mol) and they have better binding affinity than the drug Cyclophasphamide (-5.6 kcal/mol). The result also revealed that some compounds from the GC-MS were found to have a binding affinity closer tothat of thecocrystallized ligand (-10.7 kcal/mol). Other compounds from clove seed showed favourable docking scores in comparison with the drugs as many of the compounds have docking scores of more than (-6 kcal/mol) suggesting that the compounds have anti breast cancer activities since their amino acids showed hydrogen bonding corresponding to that on the binding site
Sarek: A portable workflow for whole-genome sequencing analysis of germline and somatic variants

Summary Whole-genome sequencing (WGS) is a cornerstone of precision medicine, but portable and reproducible open-source workflows for WGS analyses of germline and somatic variants are lacking. We present Sarek, a modular, comprehensive, and easy-to-install workflow, combining a range of software for the identification and annotation of single-nucleotide variants (SNVs), insertion and deletion variants (indels), structural variants, tumor sample heterogeneity, and karyotyping from germline or paired tumor/normal samples. Sarek is implemented in a bioinformatics workflow language (Nextflow) with Docker and Singularity compatible containers, ensuring easy deployment and full reproducibility at any Linux based compute cluster or cloud computing environment. Sarek supports the human reference genomes GRCh37 and GRCh38, and can readily be used both as a core production workflow at sequencing facilities and as a powerful stand-alone tool for individual research groups. Availability Source code and instructions for local installation are available at GitHub (https://github.com/SciLifeLab/Sarek) under the MIT open-source license, and we invite the research community to contribute additional functionality as a collaborative open-source development project.
Economics of the indigenous fishing units at Cochin: a case study

During the last three decades we have witnessed progress in the marine fisheries sector, particularly in the introduction of mechanised fishing crafts, use of synthetic material for gear and development of infrastructure facilities. The traditional fisheries sector, still using indigenous crafts such as catamarans and canoes, has taken advantage of nyion in fabricating their fishing gear. On an average, our annual marine fish production is about 1.3 million tonnes, of which nearlyOO per cent is accounted for by traditional fishing methods from a narrow belt along our coast. In spite of this importance, hardly any serious study has been carried out on the economics of operation of the artisanal fisheries in the country. The present report by Shri A. Noble and Shri V. A. Narayanankutty of this Institute on the economics of the indigenous fishing units at Cochin is a case study on some aspects of the small-scale fisheries of the Cochin area. The study is based on several years data collected by the Institute and is but a small step towards understanding the problems of traditional fisheries. The Institute has programmed to take up similar studies in other regions along our coast. The issue of this Number on the occasion of the Seminar on "The Role of Small-scale Fisheries and Coastal Aquaculture in Integrated Rural Development" is considered timely as it focuses attention on an area needing intensive studies and critical evaluation of available information to assist in coastal rural development. E.
Development and Implementation of Universal Cloud/Radiation Parameterizations in Navy Operational Forecast Models

Abstract : 1. Design a parameterization for translating prognostic cloud attributes (liquid or ice water content, drop size, layer cloud fraction) in NAVGEM to quantities that will become the input stream to an atmospheric radiation code. Examples are optical thickness, single scattering albedo and fractional cloud overlap. 2. Implement a cloud overlap scheme for NAVGEM.
Nutritional and phytochemical screening of Moringa oleifera leaf powder in aqueous and ethanol extract

ABSTRACT Moringa oleifera has gained tremendous popularity in recent time due to its unlimited nutraceutical and functional properties. Present study was intended to investigate bioactive compounds present in Moringa oleifera leaf powder (MoLP). Moringa leaves were plucked, dried, ground, and were preliminarily analyzed for their proximate composition and mineral profile. Standard tests were conducted to evaluate flavonoids, alkaloids, saponins, proteins, amino acids, fats, and oils. Total phenolic content (TPC), total flavonoid content (TFC), total saponins content (TSC), total tannins content (TTC), FRAP assay, and DPPH radical scavenging property was also analyzed. Phytochemical investigation of Moringa oleifera leaf powder and its extract depicted the existence of rich bioactive compounds including amino acids, phenols, flavonoids, and saponins. The study illustrated that the phytochemicals in Moringa oleifera exhibit higher antioxidant activity against free radicals, revealing its strong nutritional worth.
Improving GPT Generated Synthetic Samples with Sampling-Permutation Algorithm

The primary objective of this study is to leverage the capabilities of a large language model (LLM), such as GPT-3, to generate responses from elite individuals who are difficult to access. Similar to the work of Argyle et al. (2023), this study specifically focuses on the domain of multiple-choice questions. To address the issue of instability and hallucinations commonly associated with LLM, a novel algorithm, termed the “sampling-permutation algorithm”, has been developed and implemented. The efficacy of this algorithm is assessed by applying it to questions from the Survey of Russian Elites (Zimmerman, Rivera and Kalinin 2022). No-tably, this study examines the generated responses from synthetic personas representing the Russian President Vladimir Putin and the opposition leader Alexei Navalny by conducting a validation study and exploring the effects of the war context on generated responses. My findings indicate that the proposed approach provides valuable insights, despite the presence of somewhat mixed results.
A novel implantable device for the treatment of obstructive sleep apnea: clinical safety and feasibility

Objective: Many cases of obstructive sleep apnea (OSA) involve collapse of the tongue base and soft palate during sleep, causing occlusion of the upper airway and leading to oxygen desaturation. Existing therapies can be effective, but they are plagued by patient adherence issues and the invasiveness of surgical approaches. A new, minimally invasive implant for OSA has been developed, which is elastic and contracts a few weeks after deployment, stabilizing the surrounding soft tissue. The device has had good outcomes in preclinical testing; this report describes the preliminary feasibility and safety of its implementation in humans. Patients and methods: A prospective, multicenter, single-arm feasibility study was conducted. Subjects were adults with moderate-to-severe OSA who had previously failed or refused conven-tional continuous positive airway pressure treatment. Intraoperative feasibility data, postoperative pain, and safety information were collected for a 30-day postoperative period. Results: Forty subjects participated (37 men, three women; average age of 46.1 years); each received two tongue-base implants and two soft-palate implants. Surgical procedure time averaged 43 minutes. Postsurgical pain resolved readily in most cases; at 30 days post implantation, , 20% of subjects reported pain, which averaged less than two out of ten. Adverse events were generally the mild and expected sequelae of a surgical procedure with general anesthesia and intraoral manipulation. The device was well tolerated. Implant extrusions were reported with soft-palate implants (n = 12), while tongue-base implants required few revisions (n = 2). Quantita-tive and qualitative sleep effectiveness outcomes (including full-night polysomnographic and quality-of-life measures) will be presented in a subsequent report. Conclusion: Implantation of the device was feasible. Although a relatively high rate of extrusions occurred in the now-discontinued palate implants, tongue-base implants were largely stable and well tolerated. The minimally invasive and maintenance-free implant may provide a new alternative to higher morbidity surgical procedures.
Estimating water needs of maize (Zea mays L.) using the dual crop coefficient method in the arid region of northwestern China

Understanding crop water needs is essential for irrigation scheduling and water saving measures in an arid region because of its limited water supply. This study was performed using the dual crop coefficient method to predict seasonal changes in evapotranspiration (ETc) for maize fields in northwestern China in 2004. The reference crop evapotranspiration ET0, an important parameter in simulating the actual crop evapotranspiration (ETc), was estimated using FAO Penman-Monteith equation. The values suggested by FAO-56 were used for the basal crop coefficients (Kcb) after adjustment for the specific climatic condition in the study area. The soil evaporation coefficients (Ke) were determined for the climate, the soil, the maize growing stages, and the irrigation method. Some missing climatic parameters were calculated. The results showed that the ETc values were very low (average value of 1.09 mm day-1) except during irrigation events in the initial stage of crop growth. The ETc value increased during the crop development stage (average value of 3.67 mm day-1) and reached its peak during the mid-season stage (average value of 5.49 mm day-1), then the ETc value declined rapidly during the last crop growth stage (average value of 3.33 mm day-1). In general, the evapotranspiration (ETc) ranged from 0.54 to 7.69 mm day-1 and the total actual ETc was 611.5 mm at the experimental site in the growing season of 2004.
Structural basis of nucleic-acid recognition and double-strand unwinding by the essential neuronal protein Pur-alpha

The neuronal DNA-/RNA-binding protein Pur-alpha is a transcription regulator and core factor for mRNA localization. Pur-alpha-deficient mice die after birth with pleiotropic neuronal defects. Here, we report the crystal structure of the DNA-/RNA-binding domain of Pur-alpha in complex with ssDNA. It reveals base-specific recognition and offers a molecular explanation for the effect of point mutations in the 5q31.3 microdeletion syndrome. Consistent with the crystal structure, biochemical and NMR data indicate that Pur-alpha binds DNA and RNA in the same way, suggesting binding modes for tri- and hexanucleotide-repeat RNAs in two neurodegenerative RNAopathies. Additionally, structure-based in vitro experiments resolved the molecular mechanism of Pur-alpha's unwindase activity. Complementing in vivo analyses in Drosophila demonstrated the importance of a highly conserved phenylalanine for Pur-alpha's unwinding and neuroprotective function. By uncovering the molecular mechanisms of nucleic-acid binding, this study contributes to understanding the cellular role of Pur-alpha and its implications in neurodegenerative diseases. DOI: http://dx.doi. org/10.7554/eLife.11297. 001
UvA-DARE (Digital Academic Sexually explicit Internet material and adolescents' sexual performance orientation: The mediating roles of enjoyment and perceived utility

Little is known about how exposure to sexually explicit Internet material (SEIM) relates to a performance-focused orientation toward sex. Based on a three-wave panel study among adolescents ( N = 1,022), we found that watching SEIM predicted a sexual performance orientation from Wave (W) 2 to W3, but not from W1 to W2. A sexual performance orientation at W2 predicted adolescents ’ exposure to SEIM at W3. The relationship between exposure to SEIM and a sexual performance orientation was explained by a two-step mediation model. The more adolescents were exposed to SEIM at W1, the more they enjoyed consuming this content at W2. In turn, enjoyment of SEIM (W2) predicted adolescents ’ perceived utility of SEIM (W2). This increased perceived utility at W2 predicted a more intense performance orientation towards SEIM at W3. Within this 2-step model, we also found full support for a reciprocal relationship between using SEIM (W1/W2/W3) and enjoyment of SEIM (W1/W2/W3) and partial support for a reciprocal relationship between sexual performance orientation (W2) and perceived utility of SEIM (W3).
Methylphenidate modifies the motion of the circadian clock Lamotrigine in mood disorders and cocaine dependence Cortical glutamate in postpartum depression Low Striatal Dopamine D 2-Type Receptor Availability is Linked to Simulated Drug Choice in Methamphetamine Users

Individuals with drug use disorders seek drugs over other rewarding activities, and exhibit neurochemical deficits related to dopamine, which is involved in value-based learning and decision-making. Thus, a dopaminergic disturbance may underpin drug-biased choice in addiction. Classical drug-choice assessments, which offer drug-consumption opportunities, are inappropriate for addicted individuals seeking treatment or abstaining. Fifteen recently abstinent methamphetamine users and 15 healthy controls completed two laboratory paradigms of “simulated” drug choice (choice for drug-related versus affectively pleasant, unpleasant, and neutral images), and underwent positron emission tomography measurements of dopamine D2type receptor availability, indicated by binding potential (BPND) for [ 18 F]fallypride. Thirteen of the methamphetamine users and 10 controls also underwent [ 11 C]NNC112 PET scans to measure dopamine D1-type receptor availability. Group analyses showed that, compared with controls, methamphetamine users chose to view more methamphetamine-related images on one task, with a similar trend on the second task. Regression analyses showed that, on both tasks, the more methamphetamine users chose to view methamphetamine images, specifically versus pleasant images (the most frequently chosen images across all participants), the lower was their D2-type BPND in the lateral orbitofrontal cortex, an important region in value-based choice. No associations were observed with D2-type BPND in striatal regions, or with D1-type BPND in any region. These results identify a neurochemical correlate for a laboratory drug-seeking paradigm that can be administered to treatment-seeking and abstaining drug-addicted individuals. More broadly, these results refine the central hypothesis that dopamine-system deficits contribute to drug-biased decision-making in addiction, here showing a role for the orbitofrontal cortex. © 2017 Macmillan Publishers Limited. All rights reserved. Moeller SJ 3 for resubmission to Neurospychopharmacology
Vascular basement membranes as pathways for the passage of fluid into and out of the brain Journal Item

Vascular basement membranes as pathways for the passage of fluid into and out of the brain Journal Item How to cite: Morris, Alan W. J.; Sharp, Matthew MacGregor; Albargothy, Nazira J.; Fernandes, Rute; Hawkes, Cheryl A. ; Verma, Ajay; Weller, Roy O. and Carare, Roxana O. (2016). Vascular basement membranes as pathways for the passage of fluid into and out of the brain. Acta Neuropathologica, 131(5) pp. 725–736.
Development of an operational system for monitoring the changes in urban subarea residential housing status: a spatial analytic application of the formulations of neighborhood filtering and neighborhood dynamics

This Dissertation is brought to you for free and open access. It has been accepted for inclusion in Dissertations and Theses by an authorized administrator of PDXScholar. For more information, please contact pdxscholar@pdx.edu. Recommended Citation Mba, Harold Chike, "Development of an operational system for monitoring the changes in urban subarea residential housing status: a spatial analytic application of the formulations of neighborhood filtering and neighborhood dynamics" (1982). Dissertations and Theses. Paper 798.
Screening for Methicillin-Resistant Staphylococcus aureus Colonization Using Sponges

OBJECTIVE Nasal swab culture is the standard method for identifying methicillin-resistant Staphylococcus aureus (MRSA) carriers. However, this method is known to miss a substantial portion of those carrying MRSA elsewhere. We hypothesized that the additional use of a sponge to collect skin culture samples would significantly improve the sensitivity of MRSA detection. DESIGN Hospitalized patients with recent MRSA infection were enrolled and underwent MRSA screening of the forehead, nostrils, pharynx, axilla, and groin with separate swabs and the forehead, axilla, and groin with separate sponges. Staphylococcal cassette chromosome mec (SCCmec) typing was conducted by polymerase chain reaction (PCR). PATIENTS A total of 105 MRSA patients were included in the study. RESULTS At least 1 specimen from 56.2% of the patients grew MRSA. Among patients with at least 1 positive specimen, the detection sensitivities were 79.7% for the swabs and 64.4% for the sponges. Notably, 86.4% were detected by a combination of sponges and nasal swab, and 72.9% were detected by a combination of pharyngeal and nasal swabs, whereas only 50.9% were detected by nasal swab alone (P<0.0001 and P=0.0003, respectively). Most isolates had SCCmec type II (59.9%) and IV (35.7%). No correlation was observed between the SCCmec types and collection sites. CONCLUSION Screening using a sponge significantly improves MRSA detection when used in addition to screening with the standard nasal swab. Infect Control Hosp Epidemiol 2014;36(1): 28–33