bluuebunny/crossref_metadata_2025_split huggingface dataset:
Systematic comparison of variant calling pipelines of target genome sequencing cross multiple next-generation sequencers
Authors: Feng Baosheng , Lai Juan , Fan Xue , Guo Xin , Liu Yongfeng , Wang Miao , Wu Ping , Zhou Zhiliang , Yan Qin , Sun Lei 
Published: May 2023

Abstract

BackgroundTargeted genomic sequencing (TS) greatly benefits precision oncology by rapidly detecting genetic variations with better accuracy and sensitivity owing to its high sequencing depth. Multiple sequencing platforms and variant calling tools are available for TS, making it excruciating for researchers to choose. Therefore, benchmarking study across different platforms and pipelines available for TS is imperative. In this study, we performed a TSof Reference OncoSpan FFPE (HD832) sample enriched by TSO500 panel using four commercially available sequencers, and analyzed the output 50 datasets using five commonly-used bioinformatics pipelines. We systematically investigated the sequencing quality and variant detection sensitivity, expecting to provide optimal recommendations for future research.ResultsFour sequencing platforms returned highly concordant results in terms of base quality (Q20>94%), sequencing coverage (>97%) and depth (>2000×). Benchmarking revealed good concordance of variant calling across different platforms and pipelines, among which, FASTASeq 300 platform showed the highest sensitivity (100%) in high-confidence variants calling when analyzed by SNVer and VarScan 2 algorithms. Furthermore, this sequencer demonstrated the shortest sequencing time (~21 hr) at the sequencing mode PE150. Through the intersection of 50 datasets generated in this study, we recommended a novel set of variant genes outside the truth set published by HD832, expecting to replenish HD832 for future research of tumor variant diagnosis. Considering the dissimilarity of variant calls across different pipelines for datasets from the same platform, we recommended an integration of multiple tools to improve variant calling sensitivity and accuracy for the cancer genome.ConclusionsIllumina and GeneMind technologies can be used independently or together by public health laboratories performing tumor TS. FASTASeq 300 platform performs better regarding variant detection sensitivity under SNVer and VarScan 2 algorithms along with the shortest turnaround time. Our study provides a standardized target sequencing resource to benchmark new bioinformatics protocols and sequencing platforms.
Effect of nutrient stock solutions on the growth and yield of apical rooted cutting (Solanum tuberosum L.) varieties in a hydroponic system
Authors: Wambugu Winnie Chebet , Opiyo Arnold M. , Kibe Anthony M. 
Published: May 2023

Abstract
There is limited information on adequate application rates of nutrient stock solutions in hydroponic seed potato production systems in Kenya. This has led to low yields of apical rooted cuttings (ARC) potato varieties due to either nutrient deficiencies or toxicities. This study evaluated the effects of varied nutrient stock solution concentrations (NSSC) on the growth and yield of potato apical rooted cuttings varieties. Two greenhouse experiments were conducted at the Climate and Water Smart Agriculture Centre of Egerton University, Kenya. The experiments were laid out in a split-plot of a randomized complete block design, where the main plot comprised three nutrient concentrations, i.e., 75% (N75), 100% (N100) and 125% (N125) of the ADC-Molo’ nutrient formulation. The subplots were allocated the four potato varieties (Shangi, Wanjiku, Nyota and Unica). The results revealed significant (p ≤ 0.05) effects of NSSC application rates on the growth and yield attributes of ARCs. The N125 gave the tallest plants, highest normalised difference vegetation index (NDVI), plant survival rate and fresh and dry matter (DM %) yields of aboveground biomass (AGB) in both experiments. Nyota produced taller plants, and gave higher NDVI values, higher fresh and DM weight of AGB. The highest numbers of minitubers/plant (8.67 to 9.93) as well as yields (9.97-13.08t/ha) were observed under 125% NSSC in both experiments. Nyota variety gave the highest minitubers/plant while Unica gave the highest yield. Therefore, to achieve high growth and yields of ARCs under a hydroponic system, seed potato producers should use 125% of the ADC Molo nutrient formulation.
Utilization of Crumb Rubber as Partial Replament of Fine Aggregate With Crumb Rubber
Authors: REDDY B L NIRANJAN , ARSHAD K , DEVAKI P , FAHEEM S , DHARANI G V 
Published: May 2023

Abstract
Tyre manufacturing is increasing globally as a result of the expansion of the automobile industry, but as landfill space is becoming less and less available, it is becoming increasingly difficult to dispose of the waste tyres. Aggregate and cement are the two primary materials needed in the construction of buildings using concrete. The effectiveness of recycled crumb rubber as a partial replacement for fine particles in concrete mix at various percentages, as well as its impact on concrete parameter like compressive strength, split tensile strength, and flexural strength, were examined in this study.
The waste crumb rubber particles were used to replace fine aggregates in concrete at ratios of 0%, 5%, 10%, 15%, 20%, 25% in M30 grade concrete. Testing was done on the crumb rubber, and after analysing its properties and comparing them to fine aggregate, it was suggested that maximum.
Percentage of rubber crumbs, and after analysing its properties and comparing them to fine aggregate, it was suggested that maximum percentage of rubber crumbs making it best suited for non- structural loading applications.
Viscoelastic and mechanical properties of repair epoxy mortar from modified poly(ethylene terephthalate) waste
Authors: Phetphaisit Chor. Wayakron , Singthong Wanwisa , Hemavibool Saranagon , Ruamcharoen Polphat 
Published: May 2023

Abstract
The idea of sustainable and circular use of difficult to decompose plastics is pursued to add value to other products. New epoxy mortars suitable for construction repair made from epoxy oligomer amine and modified PET waste hardeners mixed with sand were prepared. Three types of carboxyl terminated PET (CTPET) were used as co-hardeners together with an amine to prepare new combination linkage epoxy mortars. Investigation of the viscoelastic properties has shown that the CTPETs affect both the storage modulus at glassy state and the rubbery plateau, which refer to interfacial adhesion between the epoxy matrix and sand aggregates. In addition, the damping behavior and glassy temperature were increased with the addition of CTPET. Furthermore, the combination linkage of ester groups from the CTPET may contribute to the improvement of compressive strength and flexural strength of an epoxy mortar. The results of absorption and flexural change after immersion in solution and interfacial flexural bonding strength with ordinary cement-based material were also investigated.
Outcome domains and measurement instruments of patient- relevant improvement of structure and processes as a new set of outcomes for evaluating and approving digital health applications: systematic review
Authors: Scheibe Madlen , Knapp Andreas , Harst Lorenz , Schmitt Jochen 
Published: May 2023

Abstract
Background: In October 2020, digital health applications (DiGAs) became part of standard care in Germany. For approval, DiGA manufacturers must demonstrate medical benefit or patient-relevant improvement of structure and processes (PISP). PISP refers to an innovative outcome core area in terms of proof of benefits and reimbursement decisions. These are subdivided into 9 outcome domains, including health literacy, facilitating access to care, and coping with illness-related difficulties in everyday life. Their implementation aims at empowering patients, encouraging shared decision-making, and increasing patient-centeredness in healthcare delivery. Given the novelty of PISP, no standardized set of outcomes and outcome measurement instruments currently exists to operationalize the domains. Learning from previous evaluation studies can help operationalize and standardize PISPs for evaluation studies of digital health applications.
Therefore, we investigated the outcomes and outcome measurement instruments, used in controlled trials to assess DiGA-compliant applications, published before the Digital Health Applications Ordinance of April 2020.
Methods: We conducted a systematic review of studies published between 01/2015 and 04/2020, via MEDLINE and Embase, complemented by forward/backward searches. Controlled trials assessing interventions adhering to the definition of DiGA were eligible, if they applied a validated outcome measurement instrument, and if results were presented in German or English. Title-abstract screening, full-text screening, data extraction and qualitative synthesis were conducted independently by two researchers.
Results: Out of 2,671 references identified, 6 studies collecting a total of 48 outcomes were included. 14 outcomes (29.2%) addressed PISP by using 13 different measurement instruments. The outcomes corresponded to 5 of 9 PISP outcome domains with health literacy beeing the most common (7/14, 50.0%).
Conclusions: This review provides an overview of the characteristics of PISPs used in previous evaluation studies of DiGA-compliant applications. It shows which outcomes and validated outcome measurement instruments can be used to measure PISP and where knowledge is still lacking. These results serve as a starting point for operationalizing and standardizing PISPs and help to increase the outcome measurement quality of PISPs.
How do clinicians use electronic health records for respiratory support decisions? A qualitative study in critical care
Authors: Zhang Tianyi , Mosier Jarrod , Subbian Vignesh 
Published: May 2023

Abstract

Background The selection of respiratory support in critical care is complex, and some decisions require information that may be unknown at the time when treatment assignment is necessary. Digital technologies such as electronic health records (EHR) are essential components in critical care medicine to support respiratory support care delivery and the management of patients with respiratory failure. However, there are limited studies on EHR use that enables clinical decisions related to respiratory support. The objective of this study is to understand how critical care physicians seek and use information through EHRs and other means for their decision-making related to respiratory support.Methods Using the socio-technical systems approach, we conducted nine observations with nine different care teams for a total of 35 hours at two intensive care units (ICUs) within a large academic hospital system. We created a journey map to illustrate clinicians’ respiratory support decision-making processes. We identified barriers related to decision-making processes within the ICU socio-technical work context and characterized them based on macro-cognitive functions to derive themes that can capture the decision-making patterns associated with EHR use.Results Our analysis identified three overarching themes that represent clinicians’ use of EHR for their respiratory support decisions: (1) fragmented information and tasks for individual sensemaking; (2) EHR workarounds for collaborative decision-making; and (3) interruptive order entry and order execution. These three themes represent three major sequential stages (i.e., before, during, and after morning rounds) related to clinicians’ respiratory support decision-making processes, and their interaction with EHR significantly varies between stages.Conclusions The findings of the study reflected different EHR use patterns before, during, and after morning rounds for decision-making related to respiratory support. These findings indicated potential opportunities for a diagnostic clinical decision support (CDS) to facilitate respiratory support decisions. Integrating a diagnostic CDS before morning rounds may be useful to clinicians’ information seeking and sensemaking. By doing so, it conforms to clinicians’ EHR use workflow and decision-making processes while mitigating unintended impacts like interruptions.
Real-Time Speech Emotion Recognition Using Deep Learning and Data Augmentation
Authors: Barhoumi Chawki , Ayed Yassine Ben 
Published: May 2023

Abstract

In human-human interactions, detecting emotions is often easy as it can be perceived through facial expressions, body gestures, or speech. However, in human-machine interactions, detecting human emotion can be a challenge. To improve this interaction, the term 'speech emotion recognition' has emerged, with the goal of recognizing emotions solely through vocal intonation. In this work, we propose a speech emotion recognition system based on deep learning approaches and two efficient data augmentation techniques (noise addition and spectrogram shifting). To evaluate the proposed system, we used three different datasets: TESS, EmoDB, and RAVDESS. We employe several algorithms such as Mel Frequency Cepstral Coefficients (MFCC), Zero Crossing Rate (ZCR), Mel spectrograms, Root Mean Square Value (RMS), and chroma to select the most appropriate vocal features that represent speech emotions. To develop our speech emotion recognition system, we use three different deep learning models, including MultiLayer Perceptron (MLP), Convolutional Neural Network (CNN), and a hybrid model that combines CNN with Bidirectional Long-Short Term Memory (Bi-LSTM). By exploring these different approaches, we were able to identify the most effective model for accurately identifying emotional states from speech signals in real-time situation. Overall, our work demonstrates the effectiveness of the proposed deep learning model, specifically based on CNN+BiLSTM, and the used two data augmentation techniques for the proposed real-time speech emotion recognition.
Examining acute pelvic pains among patients in two selected hospitals in in the western Region of Ghana
Authors: Acquaye Rosemary , Gyamfi Abraham 
Published: May 2023

Abstract
The main objective of the study was to examine acute pelvic pains among patients in the Effia-Nkwanta and European hospitals in Takoradi. Descriptive survey was employed for the study. The population of the study comprises all patients who were undergoing pelvic ultrasound at Effia-Nkwanta and European hospitals in Takoradi as part of their management plan for pelvic disease or pain. A purposive sampling technique convenience sampling were used to select 400 patients for the study. Inventory was used as the main instrument for the study for acquisition of data. The study employed the collection of previous pelvic ultrasound reports and reports obtained during the time of the study to obtain the data from the Radiologic Department at select hospitals with the SAL-30 A (Toshiba, Japan) and Philips Clear Vue real time ultrasound machines. Ethical clearance was sought from the UCCIR and research protocol review committee of the imaging board of the allied health sciences of Klintaps University College. Frequencies and percentages were used to analyze data on the research questions. The study found out that females are prone to pelvic pain than males, the most common presenting pathologies that cause pelvic pain are uterine fibroid, PID, Ectopic pregnancy, follicular cyst, BPH, Cystitis, colitis and Appendicitis and the organs that are mostly affected in cases of pelvic pain are uterus, ovaries, prostate, colon and bladder. It was therefore recommended that patients should be educated and encouraged to report to the hospital when there is any sign or symptom of pelvic pain.
TRIPS scale as a predictor of outcomes in newborns requiring medical evacuation: оbservational cohort retrospective study
Authors: Mukhametshin Rustam F. , Kovtun O. P. , Davydova N. S. , Kurganski A. A. 
Published: May 2023

INTRODUCTION: Assessment of the patient’s condition and prediction of outcomes is critically important during pre-transport stabilization and remains the most complex challenges of the activities of transport teams. A significant variety of scales and different requirements for their application indicates that there is no consensus on the choice of a specific scale and predictive tool. OBJECTIVE: To study hospital outcomes in transported newborns, depending on the assessment on the TRIPS scale (Transport Risk Index of Physiological Stability for Newborn Infants). MATERIALS AND METHODS: The оbservational, cohort, retrospective study included data from 604 trips of the transport team to newborns consulted by resuscitation and consultative center from August 1, 2017 to December 31, 2018. The total sample was divided into groups depending on the assessment of the score, followed by a comparison of characteristics and outcomes in these groups. RESULTS: There is a significant difference in birth weight and gestational age between TRIPS groups. An increase in the TRIPS score in transported newborns is associated with an increased risk of death with a maximum relative risk of 21.4 (3.35–136.72) (between 6 and 1 groups). For other outcomes, there are significant differences between groups with minimum and maximum TRIPS scores. CONCLUSIONS: The TRIPS scale allows to stratify newborns requiring inter-hospital transportation by the risk of developing a fatal outcome and complications at the upcoming hospital stage.
The Legal Basis of Information Technology Based Cofinancing Services in Indonesia
Authors: Noor Afif , Maskur Ali 
Published: May 2023

The rapidly growing information technology-based co-financing service (LPBBTI) in Indonesia requires a forceful legal basis for the parties involved in information technology-based financial services. As a rule-of-law country, Indonesia must make the rule of law the commander in chief and guide behavior. This research seeks to find the legal basis of LPBBTI in the laws and regulations of Indonesia, which is carried out by document study and uses a statute approach. The data obtained were then analyzed qualitatively. This research did not find any legal basis for LPBBTI in the law, but there are several laws related to LPBBTI, such as the Civil Code and Law No. 11 of 2008. The legal basis for LPBBTI specifically only exists in the Financial Services Authority Regulation No. 10/POJK.05/2022 and No. 13/POJK.02/2018.Layanan Pendanaan Bersama Berbasis Teknologi Informasi (LPBBTI) yang berkembang pesat di Indonesia memerlukan landasan hukum kuat sebagai panduan para pihak yang terlibat dalam layanan keuangan berbasis teknologi informasi tersebut. Indonesia sebagai penganut negara hukum harus menjadikan hukum sebagi panglima dan pedoman dalam bertingkah laku. Penelitian ini berusaha menemukan landasan hukum LPBBTI dalam peraturan perundang-undangan di Indonesia yang dilakukan dengan studi dokumen dan menggunakan pendekatan statute. Data yang diperoleh kemudian dianalisa secara kualitatif. Penelitian ini tidak menemukan landasan hukum LPBBTI dalam undang-undang tetapi ada beberapa undang-undang yang terkait dengan LPBBTI seperti Kitab Undang-Undang Hukum Perdata dan Undang-Undang No. 11 tahun 2008. Dasar Hukum LPBBTI terdapat dalam Peraturan Otoritas Jasa Keuangan No. 10/POJK.05/2022 dan No. 13/POJK.02/2018.
Comparative Assessment of the Human Capital Impact on the Population Income in the European and Asian Regions of Russia
Authors: Aletdinova A. A. , Koritskiy A. V. , Shadrintseva A. N. 
Published: May 2023

The relevance of the study is explained by the link between economic growth and investment in human capital.The purpose of the study is a comparative analysis of the dynamics of the return of physical and human capital in the European and Asian regions of Russia.Materials and methods. In the article, the authors use the extended Cobb-Douglas production function and conduct a regression spatial analysis based on data of the official Russian statistics.Results. There are estimates of the relationship between the income of the population of regions with the number of employed, with the volume of fixed assets of regions and human capital; the wage fund of the population of regions with the number of employed, with the volume of fixed assets of regions and human capital, the elasticity coefficients are justified. The authors analyzed and interpreted the values of the elasticity coefficients. In particular, the coefficients of elasticity of household income by fixed assets for Asian and European regions tend to decrease; the authors explain this by the low level of investment in the renewal of fixed capital at enterprises. The coefficients of elasticity of income of the population by the number of people employed in the economy of the regions are noticeably higher and tend to increase. At the same time, human capital has a stronger impact on the income of the population than fixed assets and the number of people employed in the economy of the regions. There is a decrease in the influence of human capital on the income of the population in the group of European regions of Russia at the end of the period under review and the relative stability of its returns in the Asian group of regions.Conclusion. The impact of human capital on the income of the population differs significantly in the European and Asian regions of Russia. The authors identified efficiency trends and features of the use of the main factors of production in different groups of regions of the Russian Federation in the period under review. Scientific significance is the generalization of knowledge about the role of human capital in economic development, technology transfer and increasing the investment attractiveness of settlements and regions due to it; obtaining statistically significant models for assessing the economic return of human capital.
Analysis of the Impact of Global Oil Prices On GDP (on the Example of the Azerbaijan Republic)
Authors: Ayyubova N. S. 
Published: May 2023

Purpose of the study. The article analyzes the impact of world oil prices (external and internal factors) on the country’s GDP, considers fluctuations in world oil prices, their impact on the national economy of Azerbaijan and the integrability of these macroeconomic indexes. Materials and methods. The study of the dynamics of the functioning of time series based on the initial data revealed their non-stationarity, which does not allow creating a “qualitative” predictive model. In order to achieve the goals of the study and “improve the quality” of the model being formed, which is used to calculate predictive estimates, appropriate econometric procedures were carried out and the integrability of time series was investigated. In particular, the method of vector error correction model VECM is used. The test is based on the use of cointegration equations between variables, where lag lengths and Granger causality definitions are solved within this model. When forming the VECM model, the hypotheses put forward in the work were tested using econometric tests. The responses of the impulse function to the independent variables of the model were studied by the method of graphical representation based on the values of the model and its residuals.Results. It has been determined that the long-term equilibrium relationship between variables can be considered stable, since after short-term disturbances from shock reactions, stability is restored. The applied method of decomposition of forecast error variances to determine the influence of exogenous variables on the endogenous variable showed that the greatest uncertainty in the forecast for GDP, Azeri_light, Brent and West is given by their own changes during the first trimester of the period under consideration.Conclusion. The results obtained can be useful for identifying real trends in Azerbaijan’s GDP and determining its interdependencies with other macroeconomic variables, for determining its interdependencies with variations in energy prices based on an analysis of the dynamics of the indexes under consideration, for developing recommendations and forming directions for the longterm development of GDP.