Cuproptosis genes in predicting the occurrence of allergic rhinitis and pharmacological treatment. by Ting Yi

“…<h4>Conclusion</h4>Our study analyzed allergic rhinitis and cuproptosis related genes by the bioinformatics approach and predicted 1,5-isoquinolinediol and gefitinib as potentially useful drugs for treating AR patients in the future.…”
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Carboxypeptidase B1 in dialyzed chronic kidney disease patients by Matej Stančík, Marián Grendár, Marián Mokáň

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A study on the codon usage bias of arenavirus common genes by Pablo Daniel Thomas, María Florencia Ferrer, Mauricio J. Lozano, Ricardo Martín Gómez

“…The codon usage bias between the different genera has not yet been studied comparatively.MethodsWe retrieved the arenavirus genome sequences from public databases and used bioinformatics tools to compare the codon usage bias between the different genera for the GPC, NP and L proteins, common to all arenaviruses.Results and discussionHartmaniviruses show a larger codon usage bias, which can be partially explained by mutational bias. …”
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Two Novel 30K Proteins Overexpressed in Baculovirus System and Their Antiapoptotic Effect in Insect and Mammalian Cells by Wei Yu, Qing Li, Yuhua Yao, Yanping Quan, Yaozhou Zhang

“…In this study, two new silkworm genes, referred to as Slp (NM 001126256) and Lsp-t (NM 001043443), were analyzed by a bioinformatics approach according to the sequences of 30K proteins previously reported in the silkworm. …”
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Differential Intestinal Mucosa Transcriptomic Biomarkers for Crohn’s Disease and Ulcerative Colitis by Maria Dobre, Elena Milanesi, Teodora Ecaterina Mănuc, Dorel Eugen Arsene, Cristian George Ţieranu, Carlo Maj, Gabriel Becheanu, Mircea Mănuc

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Optimizing mycelial growth of Trametes versicolor HBB 7328 for enzyme production and green energy by Nikita Goyat, Rajeev Kumar Kapoor, Baljeet Singh Saharan, Prexha Kapoor, Deepika Dhanda

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Application of Next-Generation Sequencing Technology Based on Single Gene Locus in Species Identification of Mixed Meat Products by Xinmei Liu, Zhiyang Liu, Yiyu Cheng, Haijing Wu, Wei Shen, Yan Liu, Qiushi Feng, Jun Yang

“…The sequencing results of NGS were analyzed using a self-designed bioinformatics program. The fragments with similar sequences were classified and compared with the database to determine their species. …”
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Physicochemical and structural properties of starches from non-traditional sources in China by Yang Jingyi, Chagam Koteswara Reddy, Zhili Fan, Baojun Xu

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Improving the quality of barley transcriptome <i>de novo</i> assembling by using a hybrid approach for lines with varying spike and stem coloration by N. A. Shmakov

“…Through years of transcriptomic research, the bioinformatics community has developed a number of assembler programs for transcriptome reconstruction from short reads of RNA-seq libraries. …”
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Identification of G-quadruplex-forming Sequences in Nucleocapsid Gene of SARS-CoV-2 Variants of Concern: An In Silico Analysis by Saeedeh Ghazaey Zidanloo

“…Here, we have analyzed putative G-quadruplex sequences (PQSs) in the Nucleocapsid gene of SARS-CoV2 and its variants of concern using a bioinformatics tool. The results showed that the number, position, and G-scores of PQSs were similar in Wuhan-hu-1 and Alpha, Beta, and Gamma variants. …”
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Study of the role of transmembrane emp24 domain-containing protein 2 in oral squamous cell carcinoma by RUAN Zhao-wei, JIAO Xue-feng, XIAO Gao-tian, CHEN Jin-ling, LI Jun, LV Shu-ying

“…Abstract Objective This study aimed to investigate the role of transmembrane emp24 domain-containing protein 2 (TMED2) in oral squamous cell carcinoma (OSCC). Methodology A bioinformatics analysis was first conducted to explore TMED2 expression in OSCC and its relation with overall survival. …”
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Expression Patterns of ERF Genes Underlying Abiotic Stresses in Di-Haploid Populus simonii × P. nigra by Shengji Wang, Wenjing Yao, Hairong Wei, Tingbo Jiang, Boru Zhou

“…176 ERF genes from Populus were identified by bioinformatics analysis, 13 of these in di-haploid Populus simonii × P. nigra were investigate by real-time RT-PCR, the results demonstrated that 13 ERF genes were highly responsive to salt stress, drought stress and ABA treatment, and all were expressed in root, stem, and leaf tissues, whereas their expression levels were markedly different in the various tissues. …”
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Identification and Validation of B‑Cell Epitopes on the VP1 Protein of Parvovirus B19 through Molecular Docking and Dynamics Simulation by Reuben Kuruvilla Thomas, Ambritha Balasundaram, Gracy Fathima, Sathish Sankar, Dicky John Davis G, Mageshbabu Ramamoorthy, Nithiyanandan Saravanan, Swati Kumari, Sudhabharathi Reju, Ramya Barani, Sribal Selvarajan, Krishnasamy Kaveri, John Fletcher, Jason T. Blackard, George Priya Doss C, Padma Srikanth

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Unveiling novel biomarkers for platinum chemoresistance in ovarian cancer by Wang Caixia, Peng Changsheng, Xie Chuan

“…Through the analysis of three GEO datasets (GSE114206, GSE51373, and GSE63885) utilizing bioinformatics methodologies, we identified two specific genes, MFAP4 and EFEMP1. …”
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Metagenomic Insights into Pigeon Gut Microbiota Characteristics and Antibiotic-Resistant Genes by Wei Dai, Haicong Zhu, Junhong Chen, Hui Chen, Dingzhen Dai, Jian Wu

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Cloning, expression pattern analysis, and vector construction of the BvNAC40 gene in sugar beet by FAN Ziqi, SUN Yaqing, LI Ningning, ZHANG Shaoying, LI Guolong

“…[Methods] BvNAC40 gene was cloned using the PCR method, and its protein structure was analyzed by bioinformatics methods. Subcellular localization was observed with green fluorescent protein (GFP). …”
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Increased cardiac myosin super-relaxation as an energy saving mechanism in hibernating grizzly bears by Robbert J. Van der Pijl, Weikang Ma, Christopher T.A. Lewis, Line Haar, Amalie Buhl, Gerrie P. Farman, Marcus Rhodehamel, Vivek P. Jani, O Lynne Nelson, Chengxin Zhang, Henk Granzier, Julien Ochala

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Overexpression of PLCG2 and TMEM38A inhibit tumor progression in clear cell renal cell carcinoma by Yiqiao Zhao, Liang Yang, Xiaojie Bai, Lu Du, Huan Lai, Yiyang Liu, Ping Chen, Michael E. DiSanto, Xinhua Zhang

“…In our study, we used bioinformatics methods to select four putative target genes associated with EMT and prognosis and developed a nomogram model which could accurately predicting 5-year patient survival rates. …”
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Novel bacteriophages targeting wheat phyllosphere bacteria carry DNA modifications and single-strand breaks by Peter Erdmann Dougherty, Maja Schmidt Pedersen, Laura Milena Forero-Junco, Alexander Byth Carstens, Jos M. Raaijmakers, Leise Riber, Lars Hestbjerg Hansen

“…In Pseudomonas phage Rembedalsseter we find evidence of 13 motif-associated single-stranded DNA breaks. A bioinformatics search revealed that 60 related Pseudomonas phages are enriched in the same motif, suggesting these single-stranded nicks may be widely distributed in this family of phages. …”
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miRNA-Disease Association Prediction with Collaborative Matrix Factorization by Zhen Shen, You-Hua Zhang, Kyungsook Han, Asoke K. Nandi, Barry Honig, De-Shuang Huang

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