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A bioinformatics approach to characterize a hypothetical protein Q6S8D9_SARS of SARS-CoV

  • Md Foyzur Rahman;Rubait Hasan;Mohammad Shahangir Biswas;Jamiatul Husna Shathi;Md Faruk Hossain;Aoulia Yeasmin;Mohammad Zakerin Abedin;Md Tofazzal Hossain
    • Genomics & Informatics
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    • v.21 no.1
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    • pp.3.1-3.10
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    • 2023
  • Characterization as well as prediction of the secondary and tertiary structure of hypothetical proteins from their amino acid sequences uploaded in databases by in silico approach are the critical issues in computational biology. Severe acute respiratory syndrome-associated coronavirus (SARS-CoV), which is responsible for pneumonia alike diseases, possesses a wide range of proteins of which many are still uncharacterized. The current study was conducted to reveal the physicochemical characteristics and structures of an uncharacterized protein Q6S8D9_SARS of SARS-CoV. Following the common flowchart of characterizing a hypothetical protein, several sophisticated computerized tools e.g., ExPASy Protparam, CD Search, SOPMA, PSIPRED, HHpred, etc. were employed to discover the functions and structures of Q6S8D9_SARS. After delineating the secondary and tertiary structures of the protein, some quality evaluating tools e.g., PROCHECK, ProSA-web etc. were performed to assess the structures and later the active site was identified also by CASTp v.3.0. The protein contains more negatively charged residues than positively charged residues and a high aliphatic index value which make the protein more stable. The 2D and 3D structures modeled by several bioinformatics tools ensured that the proteins had domain in it which indicated it was functional protein having the ability to trouble host antiviral inflammatory cytokine and interferon production pathways. Moreover, active site was found in the protein where ligand could bind. The study was aimed to unveil the features and structures of an uncharacterized protein of SARS-CoV which can be a therapeutic target for development of vaccines against the virus. Further research are needed to accomplish the task.

Trends in FTA Research of Domestic and International Journal using Paper Abstract Data (초록데이터를 활용한 국내외 FTA 연구동향: 2000-2020)

  • Hee-Young Yoon;Il-Youp Kwak
    • Korea Trade Review
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    • v.45 no.5
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    • pp.37-53
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    • 2020
  • This study aims to provide the implications of research development by comparing domestic and international studies conducted on the subject of FTA. To this end, among the papers written during the period from 2000 to July 23, 2020, papers whose title is searched by FTA (Free Trade Agreement) were selected as research data. In the case of domestic research, 1,944 searches from the Korean Citation Index (KCI) and 970 from the Web of Science and SCOPUS were selected for international research, and the research trend was analyzed through keywords and abstracts. Frequency analysis and word embedding (Word2vec) were used to analyze the data and visualized using t-SNE and Scattertext. The results of the analysis are as follows. First, in the top 30 keywords of domestic and international research, 16 out of 30 were found to be the same. In domestic research, many studies have been conducted to analyze the outcomes or expected effects of countries that have concluded or discussed FTAs with Korea, on the other hand there are diverse range of study subjects in international research. Second, in the word embedding analysis, t-SNE was used to visually represent the research connection of the top 60 keywords. Finally, Scattertext was used to visually indicate which keywords were frequently used in studies from 2000 to 2010, and from 2011 to 2020. This study is the first to draw implications for academic development through abstract and keyword analysis by applying various text mining approaches to the FTA related research papers. Further in-depth research is needed, including collecting a variety of FTA related text data, comparing and analyzing FTA studies in different countries.

Impact of Humectants on Physicochemical and Functional Properties of Jerky: A Meta-Analysis

  • Shine Htet Aung;Ki-Chang Nam
    • Food Science of Animal Resources
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    • v.44 no.2
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    • pp.464-482
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    • 2024
  • This study aimed to determine the effects of humectants on moisture content, water activity, tenderness, color, microbiological analysis, protein denaturation, and oxidation of jerky. A thorough search for papers published in scientific journals that examined the impacts of humectants on jerky was carried out using Web of Science, Google Scholar, PubMed, and Science Direct. Only 14 studies matched inclusion requirements. They were used in the meta-analysis to synthesise quantitative findings. In the current investigation, jerky produced with beef, poultry, goat, or pork was used. The standardised mean difference (SMD) between treatments with humectants and controls was examined to investigate the effects of humectants using random-effects models. Heterogeneity was investigated using meta-regression. A subgroup analysis was carried out for significant factors. Results revealed that the addition of humectants had no significant impact on water activity, pH, fat, ash, CIE L*, or CIE a* (p>0.05). However, humectant addition significantly increased moisture (SMD=1.28, p<0.05), CIE b* (SMD=1.67, p<0.05), and overall acceptability (SMD=1.73, p<0.05). It significantly decreased metmyoglobin (SMD=-0.96, p<0.05), shear force (SMD=-0.84, p<0.05), and protein (SMD=-1.61, p<0.05). However, it was difficult to get a firm conclusion about how humectants affected the myofibrillar fragmentation index, total plate count, and 2-thiobarbituric acid-reactive substances because there were fewer than ten studies. To sum up, the proper use of humectants in jerky demands careful attention to both type and quantity, needing a delicate balancing act with other contributing factors.

Factors Related to Emotional Leadership in Nurses Manager: Systematic Review and Meta-Analysis (간호관리자의 감성리더십 관련 변인: 체계적 문헌 고찰 및 메타분석)

  • Jang, Se Young;Park, Chan Mi;Yang, Eun Hee
    • Journal of Korean Academy of Nursing
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    • v.54 no.2
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    • pp.119-138
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    • 2024
  • Purpose: This study aimed to identify research trends related to emotional leadership among nurse managers by conducting a systematic literature review and meta-analysis. This study sought to derive insights that could contribute to improving emotional leadership in nursing practice. Methods: A systematic review and meta-analysis were conducted according to the Preferred Reporting Items for Systematic Reviews and Meta-Analysis (PRISMA) and Meta-Analysis Of Observational Studies in Epidemiology (MOOSE) guidelines. Databases including PubMed, Cumulative Index to Nursing and Allied Health Literature, Scopus, Web of Science, Research Information Sharing Service, Koreanstudies Information Service System, Korean Medical Database, KoreaMed, ScienceON, and DBpia were searched to obtain papers published in English and Korean. Literature searches and screenings were conducted for the period December 1, 2023 to December 17, 2023. The effect size correlation (ESr) was calculated for each variable and the meta-analysis was performed using the statistical software SPSS 29.0, R 4.3.1. Results: Twenty-five (four personal, six job, and fifteen organizational) relevant variables were identified through the systematic review. The results of the meta-analysis showed that the total overall effect size was ESr = .33. Job satisfaction (ESr = .40) and leader-member exchange (ESr = .75) had the largest effect size among the job and organizational-related factors. Conclusion: Emotional leadership helps promote positive changes within organizations, improves organizational effectiveness, and increases member engagement and satisfaction. Therefore, it is considered an important strategic factor in improving organizational performance.

Surgical Treatment for Primary Lymphedema: A Systematic Review of the Literature

  • Miguel Angel Gaxiola-Garcia;Joseph M. Escandon;Oscar J. Manrique;Kristin A. Skinner;Beatriz Hatsue Kushida-Contreras
    • Archives of Plastic Surgery
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    • v.51 no.2
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    • pp.212-233
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    • 2024
  • This is a retrospective review of surgical management for primary lymphedema. Data were extracted from 55 articles from PubMed MEDLINE, Web of Science, SCOPUS, and Cochrane Central Register of Controlled Trials between the database inception and December 2022 to evaluate the outcomes of lymphaticovenous anastomosis (LVA) and vascularized lymph node transfer (VLNT), and outcomes of soft tissue extirpative procedures such as suction-assisted lipectomy (SAL) and extensive soft tissue excision. Data from 485 patients were compiled; these were treated with LVA (n = 177), VLNT (n = 82), SAL (n = 102), and excisional procedures (n = 124). Improvement of the lower extremity lymphedema index, the quality of life (QoL), and lymphedema symptoms were reported in most studies. LVA and VLNT led to symptomatic relief and improved QoL, reaching up to 90 and 61% average circumference reduction, respectively. Cellulitis reduction was reported in 25 and 40% of LVA and VLNT papers, respectively. The extirpative procedures, used mainly in patients with advanced disease, also led to clinical improvement from the volume reduction, as well as reduced incidence of cellulitis, although with poor cosmetic results; 87.5% of these reports recommended postoperative compression garments. The overall complication rates were 1% for LVA, 13% for VLNT, 11% for SAL, and 46% for extirpative procedures. Altogether, only one paper lacked some kind of improvement. Primary lymphedema is amenable to surgical treatment; the currently performed procedures have effectively improved symptoms and QoL in this population. Complication rates are related to the invasiveness of the chosen procedure.

Therapeutic Effects of Acupuncture for Shoulder Impingement Syndrome: A Systematic Review and Meta-Analysis (어깨충돌증후군에 대한 침치료의 효과: 체계적 문헌고찰 및 메타분석)

  • Jeong Hoon Ahn;Gun Hee Bae;Byung-Jun Kim;In-Hwa Park;In Heo;Yun-Yeop Cha
    • Journal of Korean Medicine Rehabilitation
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    • v.34 no.1
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    • pp.83-95
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    • 2024
  • Objectives This review was conducted to evaluate the therapeutic effects of manual acupuncture (MA) for shoulder impingement syndrome (SIS). Methods We searched 12 electronic databases (DBpia, Korean studies Information Service System [KISS], Oriental Medicine Advanced Searching Integrated System [OASIS], Research Information Sharing Service [RISS], China National Knowledge Infrastructure [CNKI], CINAHL, Clinical Key, Cochrane Library, Embase, JAMA, PubMed, Web of Science) to find randomized-controlled clinical trials (RCTs) investigating therapeutic effects of MA for treating SIS. Shoulder Pain and Disability Index scores and numeric pain rating scale or visual analogue scale were analyzed as the main evaluation criteria. Results Among 181 studies, 169 were screened and only 12 RCTs were eligible in our review. Finally, 11 RCTs could be statistically analyzed. MA was more effective than sham treatment and physical therapy in terms of reducing pain (p=0.003, p=0.0007 each). Electroacupuncture (EA) showed more significant effect than physical therapy (PT) for improving shoulder pain (p<0.00001) and shoulder functionality (p<0.00001). Conclusions These results suggest that MA and EA could be superior option for treating SIS than sham treatment or PT. However this review has its limitations due to the small sample size and lack of well-designed RCTs that were included in the study. Further well-designed RCTs are necessary to provide high-level evidence.

Efficacy, immunogenicity, and safety of COVID-19 vaccines in individuals with liver cirrhosis: a rapid review and meta-analysis

  • Faranak Salajegheh;Mohammad Rezaei Zadeh Rukerd;Mohsen Nakhaie;Zohreh-Al-Sadat Ghoreshi;Javad Charostad;Nasir Arefinia
    • Clinical and Experimental Vaccine Research
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    • v.13 no.2
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    • pp.83-90
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    • 2024
  • The emergence of coronavirus disease 2019 (COVID-19) vaccines has been a remarkable advancement. However, the efficacy, immunogenicity, and safety of these vaccines in individuals with liver cirrhosis require careful evaluation due to their compromised immune status and potential interactions with underlying liver disease. The present study aimed to evaluate the safety and efficacy of COVID-19 vaccines in liver cirrhosis patients. In the present study, we searched international databases, including Google Scholar, PubMed, Scopus, Embase, and Web of Science. The search strategy was carried out by using keywords and MeSH (Medical Subject Headings) terms. STATA ver. 15.0 (Stata Corp., USA) was used to analyze the data statistically. The analysis was performed using the randomeffects model. We also used the chi-square test and I2 index to calculate heterogeneity among studies. For evaluating publication bias, Begg's funnel plots and Egger's tests were used. A total of 4,831 liver cirrhosis patients with COVID-19 were examined from 11 studies. The rate of hospitalization in the patients with liver cirrhosis was 17.6% (95% confidence interval [CI], 9%-44%). The rate of fever in the patients with liver cirrhosis was 4.5% (95% CI, 0.9%-8.1%). The rate of positive neutralizing antibodies in the patients with liver cirrhosis was 82.5% (95% CI, 69.8%-95.1%). Also, the rates of seroconversion after the second vaccination in patients with liver cirrhosis and the control group were 96.6% (95% CI, 92.0%-99.0%), and 99.7% (95% CI, 99.0%-100.0%), respectively. COVID-19 vaccines have demonstrated promising efficacy, immunogenicity, and safety profiles in individuals with liver cirrhosis, providing crucial protection against COVID-19-related complications.

Evaluation of near-realtime weekly root-zone Soil Moisture Index (SMI) for the extreme climate monitoring web-service across East Asia (동아시아 이상기후 감시 서비스를 위한 지면모형 기반 준실시간 토양수분지수평가)

  • Chun, Jong Ahn;Lee, Eunjeong;Kim, Daeha;Kim, Seon Tae;Lee, Woo-Seop
    • Journal of Korea Water Resources Association
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    • v.53 no.6
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    • pp.409-416
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    • 2020
  • An extreme climate monitoring is essential to the reduction of socioeconomic damages from extreme events. The objective of this study was to produce the near-realtime weekly root-zone Soil Moisture Index (SMI) on the basis of soil moisture using the Noah 3.3 Land Surface Model (LSM) for potentially monitoring extreme drought events. The Yangtze basin was selected to evaluate the Noah LSM performance for the East Asia region (15-60°N, 70-150°E) and the evapotranspiration (ET) and sensible heat flux (SH) were compared with ET and SH from FluxNet and with ET from FluxCom, Global Land Evaporation Amsterdam Model (GLEAM), ERA-5, and Generalized Complementary Relationship (GCR). For the ET, the coefficients of determination (R2) were higher than 0.96, while the R2 value for the SH was 0.71 with slightly lower than those. A time series of the weekly root-zone SMI revealed that the regions with Extreme drought had been expanded from the northern part of East China to the entire East China between July to October 2019. The trend analysis of the number of extreme drought events showed that extreme drought events in spring had reduced in South Korea over the past 20 years, while those in fall had a tendency to increase. It is concluded that this study can be useful to reduce the socioeconomic damages resulted from climate extremes by comprehensively characterizing extreme drought events.

A Study on the Correlation Analysis of EEG and Vibraimage due to Auditory and Olfactory Stimulation (청각 및 후각자극에 의한 뇌파(EEG)와 진동이미지기술의 상관성 분석에 관한 연구)

  • Kim, Jung-Min;Kim, Myung-Ho
    • Journal of the Korea Academia-Industrial cooperation Society
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    • v.16 no.6
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    • pp.4291-4297
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    • 2015
  • EEG has been used to measure the emotion of amenity and discomfort in the interior space. EEG is limited to the experiment, because it is a equipment of contact type. However, Vibraimage can measure the emotion with a web camera. Because Vibraimage is a equipment of non-contact type, it is more suitable for the interior space than EEG. Therefor, it tries to find a correlation variable between EEG and Vibraimage to measure the human emotions. In this study, it were analyzed correlation of EEG and vibraimage due to variation of loudness 60[dB], 90[dB] and rosemary, jasmine scents. Check the health status of subjects who were selected 3 male students, and the period of this experiment was about months. The condition of the environmental test room was in temperature 25[$^{\circ}C$], relative humidity 50[RH%], air current speed 0.02[m/s] and illuminance 1000[lux]. It were analyzed correlation of twenty-three index of EEG(absolute ${\theta}$, relative ${\theta}$, absolute $S{\alpha}$, relative $S{\alpha}$, absolute ${\alpha}$, relative ${\alpha}$, absolute ${\beta}$, relative ${\beta}$, absolute $\gamma$, relative $\gamma$, absolute $F{\alpha}$, relative $F{\alpha}$, absolute SMR, relative SMR, $SMR/{\theta}$, $SMR+M{\beta}/{\theta}$, absolute $H{\beta}$, relative $H{\beta}$, $H{\beta}/{\alpha}$, absolute $M{\beta}$, relative $M{\beta}$, SEF50, ASEF50) and ten index of Vibraimage(Aggression, Stress, Tension/Anxiety, Suspect, Balance, Charm, Energy, Self regulation, Inhibition, Neuroticism). As a result, I was found that relative ${\gamma}$ index of EEG and neuroticism index of Vibraimage have a high correlation as (${\pm}$).414 and (${\pm}$).424.

A Web-based Internet Program for Nutritional Counseling and Diet management of Patient with Diabetes Mellitus (당뇨병 환자의 웹기반 식사관리 및 영양상담 프로그램)

  • 한지숙;정지혜
    • Journal of the Korean Society of Food Science and Nutrition
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    • v.33 no.1
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    • pp.114-122
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    • 2004
  • The purpose of this study was to develop a web-based internet program for nutritional counseling and diet management of patient with diabetes mellitus. The program consisted of four parts according to their functions and contents. The first part explained the metabolism of glucose and mechanism of insulin and insulin receptor expressed by flash 6.0, and defined the diabetes mellitus. The second part is to assess the general health status such as body weight, obesity index, basal metabolic rate and total energy requirement by the input of age, sex, height, weight and degree of activity. This part also provides tlne patient with menu lists and one day menu suitable to his weight and activity, and offers the information for food selection, snacks, convenience foods, dine-out, behavioral modification, cooking methods, food exchange lists, dietary education using buffet, and information on energy and nutrients of foods and drinks, and top 20 foods classified by nutrients. The third part is designed to investigate dietary history of patient, that is, to find out his inappropriate dietary habit and give him some suggestions for appropriate dietary behavior. This part also offers on-line counseling, follow-up management and frequently asked questions. The fourth part is evaluating their energy and nutrients intake by comparing with recommended dietary allowance for Koreans or standardized data for patient with diabetes mellitus. In this part, it is also analyzing energy and nutrients of food consumed by food group and meals, and evaluating the status of nutrient intake. These results are finally displayed as tabular forms and graphical forms on the computer screen. Therefore it is expected that the web-based internet program developed in this study will play a role in their health promotion as widely using by diabetic patients.