Pub Date : 2022-01-01DOI: 10.14744/ejmo.2022.91216
S. Paydas
{"title":"Sarcoid Like Reactıon Mimicking Disease Progression Associated With Nivolumab in A Case Wıth Malignant Mesothelıoma: Is There a Solution For This Dilemma","authors":"S. Paydas","doi":"10.14744/ejmo.2022.91216","DOIUrl":"https://doi.org/10.14744/ejmo.2022.91216","url":null,"abstract":"","PeriodicalId":11831,"journal":{"name":"Eurasian Journal of Medicine and Oncology","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"88288489","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Expression Levels of LINC01296 and LINC00152 in Breast Cancer Tissue: Association with the Use of Oral Contraceptives","authors":"Mostafa Farahani","doi":"10.14744/ejmo.2022.33174","DOIUrl":"https://doi.org/10.14744/ejmo.2022.33174","url":null,"abstract":"DOI: 10.14744/ejmo.2022.33174 EJMO 2022;6(1):83–88 Eurasian Journal of Medicine and Oncology","PeriodicalId":11831,"journal":{"name":"Eurasian Journal of Medicine and Oncology","volume":"36 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"87157908","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2022-01-01DOI: 10.14744/ejmo.2022.37552
Yin-Quan Tang
Objectives: Hepatocellular carcinoma (HCC) is a common liver cancer accounting with high mortality rate owing to metastasis. Anti-metastatic treatment is scant while proposed mechanisms are in excess, yet specific molecular drivers of HCC remain at large. Therefore, our study aims to identify drivers of HCC metastasis using protein-protein interaction (PPI) networks to identify key driver genes associated with HCC metastasis. Methods: From differential expression genes (DEGs) analysis using GSE45114 microarray dataset, four main hub genes that correlated with patient survival were identified. The first hub gene, SERPINC1 had the highest centrality parameter in impeding HCC metastasis, implicating thrombin mediation through thrombin-induced tumor growth and angiogenesis. Results: Our study reveals that thrombin was not differentially expressed, hence, suggesting the involvement of other, less-well studied pathways in impeding metastasis, such as KNG1, PAH, AMBP, and TTR. Findings for CD44 were consistent with existing literature. Meanwhile, FGG and APOA5, both less studied genes in the context cancer metastasis studies, were found to be crucial in impeding HCC metastasis. Conclusion: This study identified four potential proteins (SERPINC1, CD44, FGG and APOA5) to be therapeutic targets or biomarkers and demonstrates the use of PPI networks for understanding HCC metastasis at a more profound level.
{"title":"Network Analysis in the Identification of Genes Conferring Metastatic Potential in Hepatocellular Carcinoma","authors":"Yin-Quan Tang","doi":"10.14744/ejmo.2022.37552","DOIUrl":"https://doi.org/10.14744/ejmo.2022.37552","url":null,"abstract":"Objectives: Hepatocellular carcinoma (HCC) is a common liver cancer accounting with high mortality rate owing to metastasis. Anti-metastatic treatment is scant while proposed mechanisms are in excess, yet specific molecular drivers of HCC remain at large. Therefore, our study aims to identify drivers of HCC metastasis using protein-protein interaction (PPI) networks to identify key driver genes associated with HCC metastasis. Methods: From differential expression genes (DEGs) analysis using GSE45114 microarray dataset, four main hub genes that correlated with patient survival were identified. The first hub gene, SERPINC1 had the highest centrality parameter in impeding HCC metastasis, implicating thrombin mediation through thrombin-induced tumor growth and angiogenesis. Results: Our study reveals that thrombin was not differentially expressed, hence, suggesting the involvement of other, less-well studied pathways in impeding metastasis, such as KNG1, PAH, AMBP, and TTR. Findings for CD44 were consistent with existing literature. Meanwhile, FGG and APOA5, both less studied genes in the context cancer metastasis studies, were found to be crucial in impeding HCC metastasis. Conclusion: This study identified four potential proteins (SERPINC1, CD44, FGG and APOA5) to be therapeutic targets or biomarkers and demonstrates the use of PPI networks for understanding HCC metastasis at a more profound level.","PeriodicalId":11831,"journal":{"name":"Eurasian Journal of Medicine and Oncology","volume":"33 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"81164936","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"The pitfall in diagnosis of an aggressive adrenal mass with prominent hirsutism, a case report","authors":"K. Alexandraki","doi":"10.14744/ejmo.2022.12090","DOIUrl":"https://doi.org/10.14744/ejmo.2022.12090","url":null,"abstract":"DOI: 10.14744/ejmo.2022.12090 EJMO 2022;6(2):186–189","PeriodicalId":11831,"journal":{"name":"Eurasian Journal of Medicine and Oncology","volume":"42 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"91266900","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Recent Advances in Immunotherapy in the Treatment of Gastrointestinal Tract Cancers","authors":"S. Karabulut","doi":"10.14744/ejmo.2022.74316","DOIUrl":"https://doi.org/10.14744/ejmo.2022.74316","url":null,"abstract":"DOI: 10.14744/ejmo.2022.74316 EJMO 2022;6(1):12–15 Eurasian Journal of Medicine and Oncology","PeriodicalId":11831,"journal":{"name":"Eurasian Journal of Medicine and Oncology","volume":"5 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2022-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"87462323","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2021-05-12DOI: 10.21203/RS.3.RS-515612/V1
Arshad Ali, Ayaz Ali, Shafiq Ahmad
Purpose: Alteration in the Glutathione (GSH) and Glutathione S-Transferase (GST) family lead to various disorders including breast cancer. However, the role of GSH and GSTM1 in the onset of breast cancer is still not fully elucidated. Objective: In the present study we observed considerable deficiency in the levels of glutathione and genetic mutation in the GSTM1 enzyme that influence susceptibility to breast cancer metastasis and invasion via EMT pathway. Methods: GSTM1 genotype was identified by multiplex polymerase chain reaction (PCR), RT-PCR and western blotting in breast cancer tissue samples and ANCT samples. The endogenous glutathione levels were determined by HPLC. The tumor metastasis, invasion and EMT biomarkers were determined by RT-PCR and western blot. The relationship between breast cancer, disease progression and histological status were estimated by one way analysis of variance and descriptive statistic. Data were analyzed using OriginPro 2015 statistics software (OriginLab, Northampton, USA). The correlation among different factors was assessed at 95% confidence intervals (CI) using the Mann-Whitney, Kruskal Wallis, and ANOVA test. P<0.05 was considered significant. Results: In present study genotyping analysis of GST investigated that genetic mutation in GSTM1 was detected in breast cancer tissue samples. Moreover, messenger RNA and protein analysis showed that GSTM1 was significant downregulated in tumor tissues (p=0.005, p=0.02) of breast cancer patients. Furthermore, significant reduction in the level of total glutathione level (GSHt P<0.05) was observed among correlation with patient ages, stages and histological grades, of breast cancer patients. Additionally, the result revealed that downregulation of GSTM1 promotes EMT pathway that leads to enhanced the expression of tumor proliferation, invasion and metastasis in breast cancer tissue samples compared with the ANCT samples (P<0.05). Conclusions The present findings suggest that GSTM1 genotype could be a potential biomarker that regulate EMT pathway associated with breast cancer prognosis.
{"title":"Alterations of glutathione and GSTM1 mutations induce tumor metastasis and invasion via EMT pathway in breast cancer patients","authors":"Arshad Ali, Ayaz Ali, Shafiq Ahmad","doi":"10.21203/RS.3.RS-515612/V1","DOIUrl":"https://doi.org/10.21203/RS.3.RS-515612/V1","url":null,"abstract":"\u0000 Purpose: Alteration in the Glutathione (GSH) and Glutathione S-Transferase (GST) family lead to various disorders including breast cancer. However, the role of GSH and GSTM1 in the onset of breast cancer is still not fully elucidated. Objective: In the present study we observed considerable deficiency in the levels of glutathione and genetic mutation in the GSTM1 enzyme that influence susceptibility to breast cancer metastasis and invasion via EMT pathway. Methods: GSTM1 genotype was identified by multiplex polymerase chain reaction (PCR), RT-PCR and western blotting in breast cancer tissue samples and ANCT samples. The endogenous glutathione levels were determined by HPLC. The tumor metastasis, invasion and EMT biomarkers were determined by RT-PCR and western blot. The relationship between breast cancer, disease progression and histological status were estimated by one way analysis of variance and descriptive statistic. Data were analyzed using OriginPro 2015 statistics software (OriginLab, Northampton, USA). The correlation among different factors was assessed at 95% confidence intervals (CI) using the Mann-Whitney, Kruskal Wallis, and ANOVA test. P<0.05 was considered significant. Results: In present study genotyping analysis of GST investigated that genetic mutation in GSTM1 was detected in breast cancer tissue samples. Moreover, messenger RNA and protein analysis showed that GSTM1 was significant downregulated in tumor tissues (p=0.005, p=0.02) of breast cancer patients. Furthermore, significant reduction in the level of total glutathione level (GSHt P<0.05) was observed among correlation with patient ages, stages and histological grades, of breast cancer patients. Additionally, the result revealed that downregulation of GSTM1 promotes EMT pathway that leads to enhanced the expression of tumor proliferation, invasion and metastasis in breast cancer tissue samples compared with the ANCT samples (P<0.05). Conclusions The present findings suggest that GSTM1 genotype could be a potential biomarker that regulate EMT pathway associated with breast cancer prognosis.","PeriodicalId":11831,"journal":{"name":"Eurasian Journal of Medicine and Oncology","volume":"35 1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2021-05-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"77689557","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2021-01-01DOI: 10.14744/ejmo.2021.64251
I. Sabry
Objectives: The World Health Organization declared the novel coronavirus (COVID-19) outbreak a public health emer?gency of international concern on January 30, 2020. Since it was first identified, COVID-19 has infected more than one hundred million people worldwide, with more than two million fatalities. This study focuses on the interpretation of the distribution of COVID-19 in Egypt to develop an effective forecasting model that can be used as a decision-making mechanism to administer health interventions and mitigate the transmission of COVID-19. Methods: A model was developed using the data collected by the Egyptian Ministry of Health and used it to predict possible COVID-19 cases in Egypt. Results: Statistics obtained based on time-series and kinetic model analyses suggest that the total number of CO?VID-19 cases in mainland Egypt could reach 11076 per week (March 1, 2020 through January 24, 2021) and the number of simple regenerations could reach 12. Analysis of the ARIMA (2, 1, 2) and (2, 1, 3) sequences shows a rise in the number of COVID-19 events. Conclusion: The developed forecasting model can help the government and medical personnel plan for the imminent conditions and ensure that healthcare systems are prepared to deal with them.
{"title":"Forecasting COVID-19 Cases in Egypt Using ARIMA-Based Time-Series Analysis","authors":"I. Sabry","doi":"10.14744/ejmo.2021.64251","DOIUrl":"https://doi.org/10.14744/ejmo.2021.64251","url":null,"abstract":"Objectives: The World Health Organization declared the novel coronavirus (COVID-19) outbreak a public health emer?gency of international concern on January 30, 2020. Since it was first identified, COVID-19 has infected more than one hundred million people worldwide, with more than two million fatalities. This study focuses on the interpretation of the distribution of COVID-19 in Egypt to develop an effective forecasting model that can be used as a decision-making mechanism to administer health interventions and mitigate the transmission of COVID-19. Methods: A model was developed using the data collected by the Egyptian Ministry of Health and used it to predict possible COVID-19 cases in Egypt. Results: Statistics obtained based on time-series and kinetic model analyses suggest that the total number of CO?VID-19 cases in mainland Egypt could reach 11076 per week (March 1, 2020 through January 24, 2021) and the number of simple regenerations could reach 12. Analysis of the ARIMA (2, 1, 2) and (2, 1, 3) sequences shows a rise in the number of COVID-19 events. Conclusion: The developed forecasting model can help the government and medical personnel plan for the imminent conditions and ensure that healthcare systems are prepared to deal with them.","PeriodicalId":11831,"journal":{"name":"Eurasian Journal of Medicine and Oncology","volume":"9 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2021-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"89515122","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2021-01-01DOI: 10.14744/ejmo.2021.58534
C. Rita
Several thrombotic complications in patients affected with SARS-CoV-2 have been reported. Single-centre pilot study aimed to analyse the coexistence of antiphospholipid antibodies and thrombotic events on SARS-CoV-2 infected patients. Antiphospholipid antibodies were measured by solid phase enzyme immunoassay. Clinical data were collected from electronic history and clinical records. Over 25 patients studied we report four cases of COVID-19 patients who presented circulating antiphospholipid antibodies and arterial or venous thrombotic events. No patient had a previous history of thrombosis. Two cases presented with pulmonary embolism, one with pulmonary embolism and pulmonary infarction and one with a stroke. All of them showed positive anti-cardiolipin antibodies. One patient died and three were discharged. The presence of antiphospholipid antibodies in these patients might represent an epiphenomenon secondary to the immune stimulation by the virus. It could be reasonable to consider measuring antiphospholipid antibodies as part of the study of a thrombotic event in COVID-19 patients to better understand the impact of these antibodies in the development of thrombotic events and we highlight the value of a periodic determination to define the need of long-term anticoagulant therapy.
{"title":"Dissecting the Thrombotic Events in the Presence of Antiphospholipid Antibodies in COVID-19 Spanish Patients","authors":"C. Rita","doi":"10.14744/ejmo.2021.58534","DOIUrl":"https://doi.org/10.14744/ejmo.2021.58534","url":null,"abstract":"Several thrombotic complications in patients affected with SARS-CoV-2 have been reported. Single-centre pilot study aimed to analyse the coexistence of antiphospholipid antibodies and thrombotic events on SARS-CoV-2 infected patients. Antiphospholipid antibodies were measured by solid phase enzyme immunoassay. Clinical data were collected from electronic history and clinical records. Over 25 patients studied we report four cases of COVID-19 patients who presented circulating antiphospholipid antibodies and arterial or venous thrombotic events. No patient had a previous history of thrombosis. Two cases presented with pulmonary embolism, one with pulmonary embolism and pulmonary infarction and one with a stroke. All of them showed positive anti-cardiolipin antibodies. One patient died and three were discharged. The presence of antiphospholipid antibodies in these patients might represent an epiphenomenon secondary to the immune stimulation by the virus. It could be reasonable to consider measuring antiphospholipid antibodies as part of the study of a thrombotic event in COVID-19 patients to better understand the impact of these antibodies in the development of thrombotic events and we highlight the value of a periodic determination to define the need of long-term anticoagulant therapy.","PeriodicalId":11831,"journal":{"name":"Eurasian Journal of Medicine and Oncology","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2021-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"89922355","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2021-01-01DOI: 10.14744/ejmo.2021.90258
M. Tekindal, H. Yonar, S. Kader
bjectives: Left-censored data, which is commonly seen in clinical studies, are frequently encountered in the litera?ture, especially in the fields of food, environment, microbiology, and biochemistry. In this study, the most appropriate distribution between the negatively skewed distributions for left-censored data in Parametric Inverse Hazard Models was tried to be determined. Methods: Within the scope of the study, firstly, the data were produced uncensored according to different parameters of each distribution. Then, simulation studies were carried out in different censorship rates (15%, 25% and 35%) and various sample sizes (1000, 2000 and 3000) in order to determine the most appropriate distribution. AIC, AICC, HQIC, and CAIC information criteria were employed to compare the distribution performances. Since it was not possible to study simulations of all possible scenarios, scenarios similar to each other were generally preferred over others. Results: In the simulation results, the most appropriate distributions to be used for left-censored data in Parametric Inverse Hazard Models were found as Generalized Inverse Weibull as well as Log-Logistic, Log-Normal, Inverse Normal and Gamma distributions. It was also detected that the Marshal-Olkin distribution revealed a superior performance compared to the Modified Weibull, Generalized Gamma, Gamma, and Flexible Weibull distributions. Log logistics dis?tribution gave the most appropriate result among the analyzed distributions in the examination made with real data application. Conclusion: The use of censored data analysis in evaluations in terms of Covid-19 is quite additive, considering that more statistical evaluation will be needed in the next period of the epidemic. Improved estimates can be obtained with this approach, especially in Covid-19 data analysis.
{"title":"Evaluation of Parametric Method Performance for Left-Censored Data and Recommendation of Using for Covid-19 Data Analysis","authors":"M. Tekindal, H. Yonar, S. Kader","doi":"10.14744/ejmo.2021.90258","DOIUrl":"https://doi.org/10.14744/ejmo.2021.90258","url":null,"abstract":"bjectives: Left-censored data, which is commonly seen in clinical studies, are frequently encountered in the litera?ture, especially in the fields of food, environment, microbiology, and biochemistry. In this study, the most appropriate distribution between the negatively skewed distributions for left-censored data in Parametric Inverse Hazard Models was tried to be determined. Methods: Within the scope of the study, firstly, the data were produced uncensored according to different parameters of each distribution. Then, simulation studies were carried out in different censorship rates (15%, 25% and 35%) and various sample sizes (1000, 2000 and 3000) in order to determine the most appropriate distribution. AIC, AICC, HQIC, and CAIC information criteria were employed to compare the distribution performances. Since it was not possible to study simulations of all possible scenarios, scenarios similar to each other were generally preferred over others. Results: In the simulation results, the most appropriate distributions to be used for left-censored data in Parametric Inverse Hazard Models were found as Generalized Inverse Weibull as well as Log-Logistic, Log-Normal, Inverse Normal and Gamma distributions. It was also detected that the Marshal-Olkin distribution revealed a superior performance compared to the Modified Weibull, Generalized Gamma, Gamma, and Flexible Weibull distributions. Log logistics dis?tribution gave the most appropriate result among the analyzed distributions in the examination made with real data application. Conclusion: The use of censored data analysis in evaluations in terms of Covid-19 is quite additive, considering that more statistical evaluation will be needed in the next period of the epidemic. Improved estimates can be obtained with this approach, especially in Covid-19 data analysis.","PeriodicalId":11831,"journal":{"name":"Eurasian Journal of Medicine and Oncology","volume":"50 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2021-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"74253018","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Pub Date : 2021-01-01DOI: 10.14744/ejmo.2021.52103
A. Warghane, Tejaswini Petkar, Usha Preeyaa, N. Kumari, Lavanya Ranjan
Objectives: The Coronavirus Disease 2019 (COVID-19) caused by SARS-CoV-2 has been the current global pandemic concern. With a high transmission rate, especially through direct contact, this disease spreads from person to person, and this has in turn led to a huge number of infections on a global scale. Methods: In present study, comparative genomic analysis was performed using 151 gene sequences of the viral spike protein retrieved from NCBI and along with its translated nucleotide sequences using MEGAX software. Variation in the nucleotide and amino acid positions were identified. Results: Our analysis revealed that 22 nucleotide variations observed in positions 13, 141, 162, 233, 284, 328, 455, 459, 716, 773, 784, 882, 1686, 1715, 1749, 1841, 2031, 2076, 2383, 2520, 2533, 3300 and 17 amino acid variations observed in position 5, 54, 78, 90, 95, 152, 153, 239, 258, 262, 572, 583, 614, 684, 677, 795 and 845. Further, phylogenetic analysis was used to uncover the patterns of spread of the virus across the affected countries. Although, certain strains showed patterns of transmission within communities, a vast majority revealed an evident mosaic pattern. Conclusion: The data obtained provides a clear understanding of variations in the nucleotide and translated nucleotide sequences, which can be targeted towards drug designing and to study evolutionary analysis.
{"title":"In Silico Characterisation of Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2) based on the Spike Protein Gene","authors":"A. Warghane, Tejaswini Petkar, Usha Preeyaa, N. Kumari, Lavanya Ranjan","doi":"10.14744/ejmo.2021.52103","DOIUrl":"https://doi.org/10.14744/ejmo.2021.52103","url":null,"abstract":"Objectives: The Coronavirus Disease 2019 (COVID-19) caused by SARS-CoV-2 has been the current global pandemic concern. With a high transmission rate, especially through direct contact, this disease spreads from person to person, and this has in turn led to a huge number of infections on a global scale. Methods: In present study, comparative genomic analysis was performed using 151 gene sequences of the viral spike protein retrieved from NCBI and along with its translated nucleotide sequences using MEGAX software. Variation in the nucleotide and amino acid positions were identified. Results: Our analysis revealed that 22 nucleotide variations observed in positions 13, 141, 162, 233, 284, 328, 455, 459, 716, 773, 784, 882, 1686, 1715, 1749, 1841, 2031, 2076, 2383, 2520, 2533, 3300 and 17 amino acid variations observed in position 5, 54, 78, 90, 95, 152, 153, 239, 258, 262, 572, 583, 614, 684, 677, 795 and 845. Further, phylogenetic analysis was used to uncover the patterns of spread of the virus across the affected countries. Although, certain strains showed patterns of transmission within communities, a vast majority revealed an evident mosaic pattern. Conclusion: The data obtained provides a clear understanding of variations in the nucleotide and translated nucleotide sequences, which can be targeted towards drug designing and to study evolutionary analysis.","PeriodicalId":11831,"journal":{"name":"Eurasian Journal of Medicine and Oncology","volume":"2 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2021-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"83226648","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
京公网安备 11010802042870号
京ICP备2023020795号-1
扫码关注我们
求助内容：
应助结果提醒方式：