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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The conserved wobble uridine tRNA thiolase Ctu1 is required for angiogenesis and embryonic development. by Yangziwei Yu, Chuqiao Wang, Yan Wang, Heng Shi, Huiyuan Hu, Yibin Du, Zhaoli Zhou

“…We employed single-cell RNA sequencing to acquire the transcriptomic atlas from ctu1 and control morphant zebrafish. Comprehensive bioinformatics analysis, including pseudo-time, RNA velocity, cell-cell communication, and gene regulatory network inference revealed that ctu1 deficiency leads to the arrest of cell cycle, and the defects of nerve development and erythrocyte differentiation and the attenuation of several pro-angiogenic signaling pathways, e.g., angpt-tek and dll4-notch. …”
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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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Patients with Epididymo-Orchitis and Meteorological Impact in Taiwan: A Nationwide Population-Based Study by Jui-Ming Liu, Ying-Hsu Chang, Te-Wei Ho, Fung-Wei Chang, See-Tong Pang, Ren-Jun Hsu, Po-Hung Lin

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Systematic review of machine learning applications using nonoptical motion tracking in surgery by Teona Z. Carciumaru, Cadey M. Tang, Mohsen Farsi, Wichor M. Bramer, Jenny Dankelman, Chirag Raman, Clemens M. F. Dirven, Maryam Gholinejad, Dalibor Vasilic

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Pure additive contribution of genetic variants to a risk prediction model using propensity score matching: application to type 2 diabetes by Chanwoo Park, Nan Jiang, Taesung Park

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FTO effects the proliferation, invasion, and glycolytic metabolism of colon cancer by regulating PKM2 by Kongyan Zhang, Fei Zhang, Jiahe Wang

“…However, research on the function of FTO in CRC is scarce. Methods Bioinformatics analysis of TCGA and UALCAN databases was conducted to examine FTO expression in CRC. …”
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Predictors of interferon-gamma release assay results and their association with COVID-19 infection outcomes by S.J.W. Kang, G.W. Eather, F. Qureshi, J.R. Scott

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