Research Journal of Biotechnology最新文献_第7页

Development of machine learning models for post-operative recurrence prediction in lung cancer patients 肺癌患者术后复发预测的机器学习模型的发展

Research Journal of Biotechnology Pub Date : 2023-09-15 DOI: 10.25303/1810rjbt2270234

Dhayanitha Ranganathan Dhakshinamoorthy, Muthu Kumar Thirunavukkarasu, Shanthi Veerappapillai, Ramanathan Karuppasamy

引用次数: 0

Identification of microRNA and protein interaction networks in human ovarian cancer 人卵巢癌中microRNA和蛋白相互作用网络的鉴定

Research Journal of Biotechnology Pub Date : 2023-09-15 DOI: 10.25303/1810rjbt1480153

Nirmaladevi Ponnusamy, Keerthana Ganapathi, Rajkumar Sanjana Sri, Asma Ul Husna, Mohanapriya Arumugam

{"title":"Identification of microRNA and protein interaction networks in human ovarian cancer","authors":"Nirmaladevi Ponnusamy, Keerthana Ganapathi, Rajkumar Sanjana Sri, Asma Ul Husna, Mohanapriya Arumugam","doi":"10.25303/1810rjbt1480153","DOIUrl":"https://doi.org/10.25303/1810rjbt1480153","url":null,"abstract":"Ovarian cancer is one of the deadliest tumors in women, with a high mortality rate brought on by the lack of early detection. In this work, our main aim is to find promising biomarkers and pertinent mechanisms. GSE36668 was chosen from the Gene Expression Omnibus (GEO) to identify the differentially expressed genes (DEGs) using the GEO2R tool. To forecast gene ontology (GO) and pathway enrichment, online tools from ToppGene, FunRich and DAVID were employed. The protein-protein interaction (PPI) network is built via STRING v.11.5 and Cytoscape v.3.9.1. Following the detection of the hub genes, a Kaplan-Meire plotter was used to conduct additional validation survival analyses. A total of 1556 DEGs were identified using GEO2R, out of which 697 were upregulated and 859 were downregulated. According to GO analysis, DEGs were much more common in the online tools DAVID and ToppGene for cell adhesion, axoneme assembly and cilium assembly in the biological processs whereas cell surface is an essential component of the plasma membrane and extracellular matrix in the cellular component. In contrast, the plasma membranes are present in DAVID and FunRich. The DEGs are mostly linked to the MAPK, PI3K-Akt and RAP1 signaling pathways in KEGG and in the Reactome pathway, they are involved in cell-cell communication, cell and cell-cell junction organization The PPI network construct was used to find the gene clusters and to identify the hub genes MAPK1, CDH1, CBL and CCND1 by Cytoscape. The survival analysis of this hub gene CBL showed high expression in ovarian cancer which led to fewer survival chances. According to this study, ovarian cancer biomarkers are crucial to understand the molecular causes of the disease.","PeriodicalId":21091,"journal":{"name":"Research Journal of Biotechnology","volume":"44 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135486152","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}

引用次数: 0

Anti-cancer effects of the bioactive compounds of Prunus dulcis against ovarian cancer cell lines (PA-1) 桃李生物活性物质对卵巢癌细胞系PA-1的抗癌作用

Research Journal of Biotechnology Pub Date : 2023-09-15 DOI: 10.25303/1810rjbt041047

R. Rakshanaa, Aashmi P.L. Jemima, Amin Sheikh Rahul, D. Vishnudas, Kingsley J. Danie

引用次数: 0

Biodegradation of Glyphosate in Aqueous Medium by Strain JAN3 Aspergillus tubingensis isolated from Agricultural Soil 农业土壤中分离菌株JAN3对草甘膦的生物降解研究

Research Journal of Biotechnology Pub Date : 2023-09-15 DOI: 10.25303/1810rjbt1200126

Nancy Kwatra, Nehalika Ramchandani, Jayanthi Abraham

{"title":"Biodegradation of Glyphosate in Aqueous Medium by Strain JAN3 Aspergillus tubingensis isolated from Agricultural Soil","authors":"Nancy Kwatra, Nehalika Ramchandani, Jayanthi Abraham","doi":"10.25303/1810rjbt1200126","DOIUrl":"https://doi.org/10.25303/1810rjbt1200126","url":null,"abstract":"The use of glyphosate has raised a major concern among researchers around the world because of its adverse effects and toxic nature. In the present study, the enrichment technique was used to isolate the strain JAN3 Aspergillus tubingensis from agricultural soil. The ability of the isolate to utilize glyphosate as the sole carbon and energy source was evaluated using HPLC and FTIR. The results revealed that the strain JAN3 could mineralize 96% of glyphosate within 5 days of incubation. The infrared spectrum of standard glyphosate when compared to degradation by strain Aspergillus tubingensis showed the absence of peak for major functional groups which could be due to the breakdown of the compound into simpler structures. IR spectra of the degraded sample showed the presence of an aldehyde group and carboxylic acid which confirmed that glyphosate was mineralized by the strain JAN3. The degradation results were further fitted into different kinetic models and the results showed that the reaction followed pseudo first order kinetics. The extracellular enzymatic activity was analysed during glyphosate degradation. The results of the study highlight that the strain Aspergillus tubingensis may have the potential to mineralize high concentrations of the herbicide in the contaminated areas.","PeriodicalId":21091,"journal":{"name":"Research Journal of Biotechnology","volume":"16 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135486285","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}

引用次数: 0

Identification of differentially expressed hub genes in Alzheimer’s disease using microarray dataset 利用微阵列数据集鉴定阿尔茨海默病中差异表达的中枢基因

Research Journal of Biotechnology Pub Date : 2023-09-15 DOI: 10.25303/1810rjbt077086

Sampath Kumar Vijayasarathy, Shanthi Veerappapillai

{"title":"Identification of differentially expressed hub genes in Alzheimer’s disease using microarray dataset","authors":"Sampath Kumar Vijayasarathy, Shanthi Veerappapillai","doi":"10.25303/1810rjbt077086","DOIUrl":"https://doi.org/10.25303/1810rjbt077086","url":null,"abstract":"An important factor that leads to the progression of Alzheimer’s disease is the amyloid-β peptide. Improper degradation of such molecules accompanied by reduced synaptic signaling contributes to the disease. Thus, a critical understanding of proteins interacting in peptide degradation, synaptic transmission and cognition is important to understand the disease progression. In this study, a dataset from public databases was taken and differential gene expression analysis was implemented along with network construction and gene ontology. This gives us more insights into the various biological parameters that are affected and their genetic basis to understand the disease. With a cut-off in adj P-value and log 2-fold change, differentially expressed (DEG) were identified using R. The enrichment analysis resulted in three hub genes which are SST, GFAP and GABRD. These genes have been found to dysregulate crucial processes in Alzheimer’s disease etiology. These three genes are the main drivers of disease and targeting them could essentially reduce disease progression. These could also be used as markers to identify the disease and can be used in diagnostics.","PeriodicalId":21091,"journal":{"name":"Research Journal of Biotechnology","volume":"65 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135486395","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}

引用次数: 0

SARS-CoV-2 Screening on the Multiplex Real-Time RT-PCR Gene Cycle Threshold - A Machine Learning Approach 基于多重实时RT-PCR基因周期阈值的SARS-CoV-2筛选——一种机器学习方法

Research Journal of Biotechnology Pub Date : 2023-09-15 DOI: 10.25303/1810rjbt1830190

Sekaran Karthik, R. Gnanasambandan, Iyyadurai Ramya, G. Karthik, Priya Doss C. George

{"title":"SARS-CoV-2 Screening on the Multiplex Real-Time RT-PCR Gene Cycle Threshold - A Machine Learning Approach","authors":"Sekaran Karthik, R. Gnanasambandan, Iyyadurai Ramya, G. Karthik, Priya Doss C. George","doi":"10.25303/1810rjbt1830190","DOIUrl":"https://doi.org/10.25303/1810rjbt1830190","url":null,"abstract":"Early diagnosis of the lethal SARS-CoV-2 virus determines a patient’s survival rate. Highly transmissible novel coronavirus prevention is possible with effective, rapid diagnostic strategies. The reverse transcription polymerase chain reaction (RT-PCR), a globally adopted SARS-CoV-2 detection technique, provides better diagnosis results. The output of the RT-PCR test produces the amplified gene scores of ORF1a/b, S, N, E and RdRp. This study intends to evaluate the performance of the RT-PCR-based COVID-19 diagnosis using machine learning models. The confirmatory genes ORF1b, E and RdRp and their cycle threshold (Ct) values are the main parameters used to build the machine learning model for SARS-CoV-2 screening. The real-time dataset collected from the Indian Council of Medical Research (ICMR) database containing missing, redundant information is processed and eliminated. Statistical interpretations are performed with demographic information to understand the dynamics of the disease prevalence in India. Binary classification models delivered promising results in discriminating the samples of two classes. The models were examined further to scrutinize their performance via evaluation metrics such as balanced accuracy, f1-score, ROC curve, precision and recall. This algorithmic assessment exhibits a better outcome on the RT-PCR-based SARS-CoV-2 disease diagnosis.","PeriodicalId":21091,"journal":{"name":"Research Journal of Biotechnology","volume":"44 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135486397","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}

引用次数: 0

Bacterial bioremediation of textile effluent dyes contaminated sites 纺织废水染料污染场地的细菌生物修复

Research Journal of Biotechnology Pub Date : 2023-09-15 DOI: 10.25303/1810rjbt1270138

K. Sakthishabarish, T. Karthika, S.N. Sandhya, A. Yazhini, Krishnan Kannabiran

{"title":"Bacterial bioremediation of textile effluent dyes contaminated sites","authors":"K. Sakthishabarish, T. Karthika, S.N. Sandhya, A. Yazhini, Krishnan Kannabiran","doi":"10.25303/1810rjbt1270138","DOIUrl":"https://doi.org/10.25303/1810rjbt1270138","url":null,"abstract":"Water and soil pollution caused by industrial effluent has become an alarming threat to environmental safety. This is mainly because of the direct discharge of textile effluents into the water bodies, without any pre-treatments. To resolve this, microbial bioremediation is used for the effective removal of the dyes and toxic compounds present in textile effluents. The textile dye-degrading isolates (3A, 4A, 5B and 6B) were isolated from the soil samples collected at the dye contaminated sites. Synthetic textile dyes, Brill Red 3BN and Blue SE2R obtained from the textile dyeing units were used as positive control for this study. The genus of the dye degrading isolates was identified by morphological and biochemical characterization. Based on the results, the isolates were belonged to the genus Pseudomonas. All four strains are producing both pyomelanin (brown) and pyoverdine (green) pigments during their growth. Maximum tolerance concentration (MTC) test, growth kinetics, decolorization and degradation studies were performed to analyze the dye degrading potential of isolates. Strain 3A and 6B showed more than 80% of decolorization up to 2500 ppm dye mix within 5 days of incubation. Isolates used textile dye as their sole carbon source for their growth and development. The biodegraded dye was analysed by GC-MS to measure the dye degrading ability of isolates.","PeriodicalId":21091,"journal":{"name":"Research Journal of Biotechnology","volume":"14 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135486148","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}

引用次数: 0

Antioxidant properties of zinc oxide nanoparticles synthesised from Syzygium cumini seed extract 茴香籽提取物合成氧化锌纳米颗粒的抗氧化性能

Research Journal of Biotechnology Pub Date : 2023-09-15 DOI: 10.25303/1810rjbt087091

Aanchal Pandey, Sakshi Digraskar, Saakshi Lakhwani, Asha Devi S.

引用次数: 0

Bioactivity of Natural Polymers against Clinical Pathogens 天然聚合物对临床病原体的生物活性研究

Research Journal of Biotechnology Pub Date : 2023-09-15 DOI: 10.25303/1810rjbt2350240

Nancy Kwatra, Soumya Nair, Jayanthi Abraham

{"title":"Bioactivity of Natural Polymers against Clinical Pathogens","authors":"Nancy Kwatra, Soumya Nair, Jayanthi Abraham","doi":"10.25303/1810rjbt2350240","DOIUrl":"https://doi.org/10.25303/1810rjbt2350240","url":null,"abstract":"Antibiotic resistance by microorganisms is a growing global concern in the medical field. Due to the rampant of medicines, bacterial strains are evolving with new resistance mechanisms the threaten the ability to treat common infectious diseases. The majority of human infections are caused due to the quorum sensing activity of the clinical pathogens, thereby, reducing the effects of antibiotics to combat the prevailing problem. In healthcare, the development of effective strategies to counter antibiotic resistance and microbial biofilm is an urgent priority. The use of specific or potent antimicrobial systems can help to combat, eradicate, or mitigate infections. The polymers are effectively and extensively used in this field due to their inherent properties. The aim of the present study was to analyze the antimicrobial and antibiofilm effects of four natural polymers (chitin, cellulose, chitosan and polyvinylpyrrolidone) against clinical pathogens. The minimum inhibitory concentration of the test polymers was elucidated. Based on the results obtained, it can be concluded that the natural polymers were effective against the clinical strains at varying concentrations. Furthermore, the results highlight the advantage of using natural polymers as a strategy to combat antibiotic resistance and antibiofilm activity in various medical and biotechnological applications.","PeriodicalId":21091,"journal":{"name":"Research Journal of Biotechnology","volume":"15 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2023-09-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135486572","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}

引用次数: 0

Altered Circadian Rhythm of genes involved in Human Senescence: An Interactome Analysis 参与人类衰老的基因的昼夜节律改变:相互作用组分析

Research Journal of Biotechnology Pub Date : 2023-09-15 DOI: 10.25303/1810rjbt2160226

Adrija Aich, Ashish Kumar, Kavitha Thirumurugan

引用次数: 0