Targeting the G-quadruplex as a novel strategy for developing antibiotics against hypervirulent drug-resistant Staphylococcus aureus by Maria Sultan, Maria Razzaq, Joohyun Lee, Shreyasi Das, Shrute Kannappan, Vinod Kumar Subramani, Wanki Yoo, Truc Kim, Hye-Ra Lee, Akhilesh K. Chaurasia, Kyeong Kyu Kim

“…NMM exhibited a minimum inhibitory concentration (MIC) of 5 μM against S. aureus USA300, impacting cell division and the cell wall by repressing the expressions of genes in the division cell wall (dcw) gene cluster. Genome-wide bioinformatics analysis of G4 motifs and their mapping on S. aureus genome, identified the presence of G4-motif in the promoter of mraZ, a conserved master regulator of the dcw cluster regulating the coordinated cell division and cell wall synthesis. …”
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Titin gene mutations enhance radiotherapy efficacy via modulation of tumour immune microenvironment in rectum adenocarcinoma by Hengchang Liu, Jialiang Liu, Xu Guan, Zhixun Zhao, Pu Cheng, Haipeng Chen, Zheng Jiang, Xishan Wang

“…Methods Data on gene expression and mutations in READ were obtained from The Cancer Genome Atlas (TCGA) and International Cancer Genome Consortium (ICGC) databases. Bioinformatics analysis explored the correlation between TTN mutations and immune cell infiltration. …”
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BCL-2 overexpression exosomes promote the proliferation and migration of mesenchymal stem cells in hypoxic environment for skin injury in rats by Ying Wang, Guang Li, Guofeng Li, Yutao Pan, Zhongmin Liu

“…Abstract Objective The direction of this study was to detect and analyze the specific mechanism of anti-apoptosis in mesenchymal stem cells (MSCs) cells caused by high expression of BCL2. Methods Bioinformatics was completed in Link omics. GO analysis and KEGG analysis were carried out, and the grope tool of Link omics database was used to evaluate PPI information and other core path analysis information. …”
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Linking obesity-associated genotype to child language development: the role of early-life neurology-related proteomics and brain myelinationResearch in context by Jian Huang, Jinyi Che, Michelle Z.L. Kee, Ai Peng Tan, Evelyn C. Law, Patricia Pelufo Silveira, Irina Pokhvisneva, Sachin Patel, Keith M. Godfrey, Lourdes Mary Daniel, Kok Hian Tan, Yap Seng Chong, Shiao-Yng Chan, Johan G. Eriksson, Dennis Wang, Jonathan Yinhao Huang

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MLLT11 siRNA Inhibits the Migration and Promotes the Apoptosis of MDA-MB-231 Breast Cancer Cells by Xiangrong Liu, Wenqi Bai, Jianrong Li, Jinfeng Ma, Yan Liu, Zhixiang Wang, Linjie Hu, Zheng Li, Dimitri Papukashvili, Nino Rcheulishvili, Fusheng Wang, Xiaoqing Lu

“…The current study aimed to predict the genes associated with the recurrence and metastasis of breast cancer and to validate their effect on MDA-MB-231 cells. Through the bioinformatics analysis, the transcription factor 7 cofactor (MLLT11) as the target gene was obtained. …”
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Could Proteomic Research Deliver the Next Generation of Treatments for Pneumococcal Meningitis? by U. R. Goonetilleke, S. A. Ward, S. B. Gordon

“…Using proteomic techniques and bioinformatics, the protein content of cerebrospinal fluid can be examined in great detail. …”
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Dysregulation of REST and its target genes impacts the fate of neural progenitor cells in down syndrome by Tan Huang, Sharida Fakurazi, Pike-See Cheah, King-Hwa Ling

“…This study aims to elucidate the role of REST in DS-derived NPCs using bioinformatics analyses and laboratory validations. We identified and validated vital REST-targeted DEGs: CD44, TGFB1, FN1, ITGB1, and COL1A1. …”
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On some integral inequalities of Grüss type involving the generalized fractional Saigo k-integral operator by Akhtar Abbas, Shahid Mubeen, Aziz Khan, Thabet Abdeljawad

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Comparative analysis of regression algorithms for drug response prediction using GDSC dataset by Soojung Ha, Juho Park, Kyuri Jo

“…Conclusion This study can help bioinformatics researchers design data processing steps and select algorithms for drug response prediction, and develop a new drug response prediction model based on the GDSC or other high-throughput sequencing datasets.…”
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Author Correction: Considerations in the search for epistasis by Marleen Balvert, Johnathan Cooper-Knock, Julian Stamp, Ross P. Byrne, Soufane Mourragui, Juami van Gils, Stefania Benonisdottir, Johannes Schlüter, Kevin Kenna, Sanne Abeln, Alfredo Iacoangeli, Joséphine T. Daub, Brian L. Browning, Gizem Taş, Jiajing Hu, Yan Wang, Elham Alhathli, Calum Harvey, Luna Pianesi, Sara C. Schulte, Jorge González-Domínguez, Erik Garrisson, Lorentz workshop on epistasis, Michael P. Snyder, Alexander Schönhuth, Letitia M. F. Sng, Natalie A. Twine

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Heterologous Expression and Transglycosylation of Acarviosyltransferase by XUE Zhenglian, WANG Yuqing, LI Chuang, LI Dandan, ZHU Sibao, LI Xiangfei

“…SE50 genome and heterologously expressed in Escherichia coli. Bioinformatics analysis showed that the conserved domains of ATase, the expression product of acbD, were highly similar to those of cyclodextrin glycosyltransferase, which belongs to the glycoside hydrolase 13 (GH13) family, and ATase possessed a signal peptide and a transmembrane domain. …”
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A conserved class of viral RNA structures regulates translation reinitiation through dynamic ribosome interactions by Madeline E. Sherlock, Conner J. Langeberg, Katherine E. Segar, Jeffrey S. Kieft

“…In some cases, structures located upstream of the first stop codon within these viral RNAs bind the ribosome, inhibiting ribosome recycling and inducing reinitiation. We used bioinformatics methods to identify new examples of viral reinitiation-stimulating RNAs and experimentally verified their secondary structure and function. …”
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Combination of Oxalobacter Formigenes and Veillonella Parvula in Gastrointestinal Microbiota Related to Bile-Acid Metabolism as a Biomarker for Hypertensive Nephropathy by Xin Li, Li Wang, Shaojun Ma, Shaohui Lin, Chunyan Wang, Haiya Wang

“…The subjects of this research were divided into three groups, healthy control group, hypertension group, and hypertensive nephropathy group. Sequencing, bioinformatics, and statistical analysis were performed on the 16S rRNA gene of the subjects’ stool samples. …”
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Clove and Thyme Essential Oils: From Molecular Docking to Food ApplicationA Study of Their Preservative Properties in Buttermilk by Mohamed Raafat Atteya, Ramy M Romeilah, Khaled M. A. Ramadan, Hossam S. El-Beltagi, Ahmed Maher Gaber, Sallah A. Al Hashedi, Nada Ali AboZaid, Mohamed A. A. Mahmoud, Rania Youssef, Rasha A. Mohamed, Eslam S.A. Bendary

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AutoPVPrimer: A comprehensive AI-Enhanced pipeline for efficient plant virus primer design and assessment. by Abozar Ghorbani, Mahsa Rostami, Elham Ashrafi-Dehkordi, Pietro Hiram Guzzi

“…Future developments aim to extend compatibility and incorporate user feedback to consolidate AutoPVPrimer as an innovative contribution to the bioinformatics toolbox and a promising resource for the advancement of plant virology research.…”
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Major Histocompatibility Complex Genes as Therapeutic Opportunity for Immune Cold Molecular Cancer Subtypes by Paweł Karpiński, Łukasz Łaczmański, Maria M. Sąsiadek

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HairSplitter: haplotype assembly from long, noisy reads by Faure, Roland, Lavenier, Dominique, Flot, Jean-François

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hsa_circWDR37_016 Regulates Hypoxia-Induced Proliferation of Pulmonary Arterial Smooth Muscle Cells by Shan-Shan Li, Shuang Liang, Yao Long, Xu Chen, Xin Jin

“…As evidenced by flow cytometry, 5-ethynyl-2′-deoxyuridine (EdU) incorporation, wound healing, and Tunel assay, silencing of endogenous circWDR37 attenuated proliferation and cell-cycle progression in hypoxia-exposed human PASMCs in vitro. Furthermore, bioinformatics and Luciferase assay showed that circWDR37 directly sponged hsa-miR-138-5p (miR-138) and was involved in the immunoregulatory and inflammatory processes of PAH. …”
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Sitagliptin: a potential drug for the treatment of COVID-19? by Bardaweel Sanaa K., Hajjo Rima, Sabbah Dima A.

“…Possible interaction of SARS-CoV-2 with DPP4 peptidase may partly contribute to the viral pathogenesis. An integrative bioinformatics approach starting with mining the biomedical literature for high confidence DPP4-protein/gene associations followed by functional analysis using network analysis and pathway enrichment was adopted. …”
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Noninteger Derivative Order Analysis on Plane Wave Reflection from Electro-Magneto-Thermo-Microstretch Medium with a Gravity Field within the Three-Phase Lag Model by S. H. Elhag, Fatimah S. Bayones, A. A. Kilany, S. M. Abo-Dahab, Emad A.-B. Abdel-Salam, M. Elsagheer, A. M. Abd-Alla

“…The main goal for this study is investigating the fractional order impact and the applications related to the orders, especially in biology, medicine, and bioinformatics, besides the integer order considering an external effect, such as electromagnetic, gravity, and phase lags in a microstretch medium. …”
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