Evaluation of COVID-19 protease and HIV inhibitors interactions by Tran Linh, Tam Dao Ngoc Hien, Elhadad Heba, Hien Nguyen Minh, Huy Nguyen Tien

“…In this study, we performed a molecular docking of anti-HIV drugs to refine HIV protease inhibitors and nucleotide analogues to target COVID-19. The evaluation was based on docking scores calculated by AutoDock Vina and top binding poses were analyzed. …”
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Whole genome re-sequencing in 437 tobacco germplasms identifies plant height candidate genes by Yanru Song, Yuanheng Wang, Ying Liu, Haozhen Li, Jie Ding, Xingfu Wu, Yongping Li, Fangchan Jiao, Long Yang

“…A total of 2,263,775 high-quality single nucleotide polymorphisms were identified. The analysis of the population genetic structure showed that tobacco germplasm could be divided into 8 clusters. …”
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Stimulation of DNA Glycosylase Activities by XPC Protein Complex: Roles of Protein-Protein Interactions by Yuichiro Shimizu, Yasuhiro Uchimura, Naoshi Dohmae, Hisato Saitoh, Fumio Hanaoka, Kaoru Sugasawa

“…We showed that XPC complex, which is a DNA damage detector for nucleotide excision repair, stimulates activity of thymine DNA glycosylase (TDG) that initiates base excision repair. …”
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Comparison of Classification Algorithms with Wrapper-Based Feature Selection for Predicting Osteoporosis Outcome Based on Genetic Factors in a Taiwanese Women Population by Hsueh-Wei Chang, Yu-Hsien Chiu, Hao-Yun Kao, Cheng-Hong Yang, Wen-Hsien Ho

“…The goal of this study was to compare computational tools with and without feature selection for predicting osteoporosis outcome in Taiwanese women based on genetic factors such as single nucleotide polymorphisms (SNPs). To elucidate relationships between osteoporosis and SNPs in this population, three classification algorithms were applied: multilayer feedforward neural network (MFNN), naive Bayes, and logistic regression. …”
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DNA Polymerase e - More Than a Polymerase by Helmut Pospiech, Juhani E. Syväoja

“…In addition to its role in DNA replication, DNA polymerase e fulfils roles in the DNA synthesis step of nucleotide excision and base excision repair, and has been implicated in recombinational processes in the cell.…”
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Formation and Repair of Tobacco Carcinogen-Derived Bulky DNA Adducts by Bo Hang

“…Several known cellular DNA repair pathways have been known to operate in human cells on specific types of bulky DNA adducts, for example, nucleotide excision repair, base excision repair, and direct reversal involving O6-alkylguanine DNA alkyltransferase or AlkB homologs. …”
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Estimation of the Genetic Substitution Rate of Hanwoo and Holstein Cattle Using Whole Genome Sequencing Data by Young-Sup Lee, Donghyun Shin

“…Next-generation sequencing (NGS) data yields large numbers of single-nucleotide polymorphisms, which can make it feasible to estimate substitution rates. …”
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INTESTINAL MICROBIOME - A LEADING FACTOR IN HUMAN HEALTH AND DISEASES by E. Blum Hubert

“…Based on modern molecular, genetic, epigenetic microbiologic and biochemical studies it is, on the one hand, possible to identify disease-related point mutations and single nucleotide polymorphisms within genome-wide association analyses (GWAS). …”
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EFMDR-Fast: An Application of Empirical Fuzzy Multifactor Dimensionality Reduction for Fast Execution by Sangseob Leem, Taesung Park

“…Multifactor dimensionality reduction (MDR) is a well-known method for the detection of gene-gene interactions by reduction from genotypes of single-nucleotide polymorphism combinations to a binary variable with a value of high risk or low risk. …”
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Bees on the run: Nosema spp. (Microsporidia) in Apis mellifera and related products, Italy by Giovanni Sgroi, Luigi Jacopo D’Auria, Luigi Jacopo D’Auria, Maria Gabriella Lucibelli, Andrea Mancusi, Yolande Thérèsa Rose Proroga, Mauro Esposito, Mauro Esposito, Simona Rea, Daniel Signorelli, Federica Gargano, Nicola D’Alessio, Ranju Ravindran Santhakumari Manoj, Peyman Khademi, Giuseppe Rofrano, Giuseppe Rofrano

“…Whereas all sequences of N. apis were identical to each other, four sequences types of N. ceranae characterized by single nucleotide polymorphisms (SNPs) were identified. The computation of polymorphisms revealed high haplotype diversity (i.e., Hd = 1.000) and low nucleotide diversity (i.e., Pi = 0.00913) of N. ceranae sequence types.DiscussionThis study reveals a high circulation of N. apis and N. ceranae in Southwestern Italy, indicating the need for improved monitoring of these microsporidia to protect bee welfare and bee industry.…”
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The molecular basis of Human FN3K mediated phosphorylation of glycated substrates by Ankur Garg, Kin Fan On, Yang Xiao, Elad Elkayam, Paolo Cifani, Yael David, Leemor Joshua-Tor

“…Here, we determined a series of crystal structures of HsFN3K in the apo-state, and in complex with different nucleotide analogs together with a sugar substrate mimic to reveal the features important for its kinase activity and substrate recognition. …”
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Population Genetic Analysis of Lobelia rhynchopetalum Hemsl. (Campanulaceae) Using DNA Sequences from ITS and Eight Chloroplast DNA Regions by Mulatu Geleta, Tomas Bryngelsson

“…A total of 20 variable sites were obtained, which resulted in 13 unique haplotypes and an overall nucleotide diversity (ND) of 0.281 ± 0.15 and gene diversity (GD) of 0.85 ± 0.04. …”
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Polymorphisms of Homologous Recombination RAD51, RAD51B, XRCC2, and XRCC3 Genes and the Risk of Prostate Cancer by Maria Nowacka-Zawisza, Ewelina Wiśnik, Andrzej Wasilewski, Milena Skowrońska, Ewa Forma, Magdalena Bryś, Waldemar Różański, Wanda M. Krajewska

“…The aim of the present study was to evaluate the relationship between prostate cancer risk and the presence of single nucleotide polymorphisms (SNPs) in the genes involved in HRR, that is, RAD51 (rs1801320 and rs1801321), RAD51B (rs10483813 and rs3784099), XRCC2 (rs3218536), and XRCC3 (rs861539). …”
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The Usage of an SNP-SNP Relationship Matrix for Best Linear Unbiased Prediction (BLUP) Analysis Using a Community-Based Cohort Study by Young-Sup Lee, Hyeon-Jeong Kim, Seoae Cho, Heebal Kim

“…We used three methods: GRM-based prediction (G-BLUP), random marker-based prediction using an identity matrix (so-called single-nucleotide polymorphism [SNP]-BLUP), and SNP-SNP variance-covariance matrix (so-called SNP-GBLUP). …”
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ELOE: A WEB APPLICATION FOR ESTIMATION OF GENE TRANSLATION ELONGATION EFFICIENCY by V. S. Sokolov, B. S. Zuraev, S. A. Lashin, Yu. G. Matushkin

“…It sorts genes in an organism in the order of decreasing theoretical rate of the elongation stage of translation deduced from their nucleotide sequences. The predictions done in this way show a significant correlation with available experimental data on gene expression in various organisms, for instance, S. cerevisiae and H. pylori. …”
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Prediction of Quantitative Traits Using Common Genetic Variants: Application to Body Mass Index by Sunghwan Bae, Sungkyoung Choi, Sung Min Kim, Taesung Park

“…Recently, many disease prediction models based on penalized regression or statistical learning methods were proposed using candidate causal variants from significant single-nucleotide polymorphisms of GWASs. However, there have been only a few systematic studies comparing existing methods. …”
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Autism common variants associated with white matter alterations at birth: cross-sectional fixel-based analyses of 221 European term-born neonates from the developing human connecto... by Hai Le, Alexandra F. Bonthrone, Alena Uus, Daphna Fenchel, Alexandra Lautarescu, Konstantina Dimitrakopoulou, A. David Edwards, Joseph V. Hajnal, Serena J. Counsell, Lucilio Cordero-Grande, Daan Christiaens, Dafnis Batalle, Maximilian Pietsch, Anthony N. Price, Hamel Patel, Charles Curtis, Harriet Cullen, Maria Deprez, Jacques-Donald Tournier

“…Subsequent exploratory enrichment analysis revealed that the autism risk single nucleotide polymorphisms most associated with the imaging phenotype may have roles in neuronal cellular components. …”
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Evolutionary Relationship between Two Firefly Species, Curtos costipennis and C. okinawanus (Coleoptera, Lampyridae), in the Ryukyu Islands of Japan Revealed by the Mitochondrial a... by Masahiko Muraji, Norio Arakaki, Shigeo Tanizaki

“…The phylogenetic relationship, biogeography, and evolutionary history of closely related two firefly species, Curtos costipennis and C. okinawanus, distributed in the Ryukyu Islands of Japan were examined based on nucleotide sequences of mitochondrial (2.2 kb long) and nuclear (1.1-1.2 kb long) DNAs. …”
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A Brief Review on Diagnosis of Foot-and-Mouth Disease of Livestock: Conventional to Molecular Tools by Neeta Longjam, Rajib Deb, A. K. Sarmah, Tilling Tayo, V. B. Awachat, V. K. Saxena

“…Presently FMD diagnosis is being carried out using techniques such as Virus Isolation (VI), Sandwich-ELISA (S-ELISA), Liquid-Phase Blocking ELISA (LPBE), Multiplex-PCR (m-PCR), and indirect ELISA (DIVA), and real time-PCR can be used for detection of antibody against nonstructural proteins. Nucleotide sequencing for serotyping, microarray as well as recombinant antigen-based detection, biosensor, phage display, and nucleic-acid-based diagnostic are on the way for rapid and specific detection of FMDV. …”
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The formation pathway of flavor compounds in steamed Antarctic krill (Euphausia superba) based on untargeted metabolomics by Tingting Yang, Yang Liu, Jing Bai, Yan Fan, Ye Chen, Ping Dong, Xia Yang, Hu Hou

“…Furthermore, metabolic network further linked these shifts to reactions involving amino acids, nucleotide and other compounds during steaming, impacting the overall taste.…”
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