Plac8 regulates the fibrogenic ability of cardiac fibroblasts in mice with myocardial infarction by Ting Fu, Jianping Gong, Lei Xu, Ningning Ji

“…This study explored the role of Placenta specific 8 (Plac8) in MI on the basis of single-cell RNA-Seq (scRNA-Seq) data (GSE136088) and micro-array data (GSE153485). Through bioinformatics analysis, Plac8 was finally identified as a key gene related to fibroblasts. …”
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CircRNA TUBA1C promotes proliferation and glucose metabolism, and blocks apoptosis of osteosarcoma cells through sponging miR-143-3p by Yi-Bing Liu, Wen-Hao Dai, Jun-Jie Chang, Kang Wei

“…Furthermore, we discovered that miR-143-3p played a reverse role to circTUBA1C in OS cells. Bioinformatics analysis, RNA pull-down assay, and luciferase assay demonstrated that circTUBA1C acted as a sponge for miR-143-3p, blocking its expression in OS cells. …”
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The Role of the Key Differentially Mutated Gene FGFR3 in the Immune Microenvironment of Bladder Cancer by Jun Jiang, Yan Zhan, Jun Li

“…In this work, we downloaded the RNA-seq expression profiles and somatic mutation data of 433 bladder cancer cases from The Cancer Genome Atlas (TCGA) and then employed a comprehensive bioinformatics approach to evaluate them. Firstly, the expression profiles were used to predict the scores and then the content of immune and stromal cells via the estimate package in R software. …”
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Clinical Significance of NKD Inhibitor of WNT Signaling Pathway 1 (NKD1) in Glioblastoma by Lijun Li, Ruiying Gao, Weizhong Huangfu, Fang Zhang, Ruixia Wang

“…Immune cell enrichment in glioblastoma and its correlation with NKD1 level was finally assessed using bioinformatics analyses. Results. NKD1 shows a lower expression level in glioblastoma compared to that in the normal brain or other glioma subtypes, which is independently correlated to a worse prognosis in both the TCGA cohort and our retrospective cohort. …”
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The Potential Impact of HNRNPA2B1 on Human Cancers Prognosis and Immune Microenvironment by Tao Huang, Gang Zhu, Fan Chen

“…We further validated the bioinformatic findings using immunohistochemistry techniques. …”
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Deoxycholic Acid Could Induce Apoptosis and Trigger Gastric Carcinogenesis on Gastric Epithelial Cells by Quantitative Proteomic Analysis by Yanyan Shi, Ying Wei, Ting Zhang, Jing Zhang, Ye Wang, Shigang Ding

“…Using liquid chromatographic/tandem mass spectrometric (LC-MS/MS) methods, 134 upregulated proteins and 214 downregulated proteins were identified in the bile acid treated GES-1 cells. Bioinformatics analysis revealed the interactions and signaling networks of these differentially expressed proteins. …”
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Pulse protein quality and derived bioactive peptides by Matthew G. Nosworthy, Matthew G. Nosworthy, Bianyun Yu, L. Irina Zaharia, Gerardo Medina, Nii Patterson

“…Additionally, the use of proteomics platforms, such as mass spectrometry, in combination with bioinformatics tools, enables the identification and characterization of bioactive peptides in pulse crops. …”
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A Method for Detecting Overlapping Protein Complexes Based on an Adaptive Improved FCM Clustering Algorithm by Caixia Wang, Rongquan Wang, Kaiying Jiang

“…The protein complex has attracted significant attention in bioinformatics as a critical substance in life activities. …”
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Systematic functional analysis and potential application of a serine protease from cold-adapted Planococcus bacterium by Weijun Leng, Xiaoyun Wu, Xianghui Qi, Hongying Liu, Li Yuan, Ruichang Gao

“…In this study, a gene encoding serine protease (PmSpr288) from cold-adapted bacterium, namely Planococcus maritimus XJ11, was cloned and overexpressed in Escherichia coli BL21 (DE3). Bioinformatics analysis revealed that PmSpr288 belongs to serine protease S8 superfamily with a classical catalytic triad comprised by the Asp49, His86 and Ser251. …”
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Long noncoding RNA DHRS4 antisense RNA 1 suppresses osteosarcoma cell proliferation and promotes apoptosis through a competitive endogenous RNA mechanism by Zhouzhou Tang, Zhihao Li, Guofeng Wu, Jianjun Li, Jianye Tan, Lixin Zhu

“…The potential mechanism of DHRS4-AS1 was examined through bioinformatics analysis and rescue experiments. DHRS4-AS1 was downregulated in OS cell lines. …”
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Integrated gene expression and alternative splicing analysis in human and mouse models of Rett syndrome by Silvia Gioiosa, Silvia Gasparini, Carlo Presutti, Arianna Rinaldi, Tiziana Castrignanò, Cecilia Mannironi

“…Human and mouse dysregulated genes are involved in two main functional categories: cell-extracellular matrix adhesion regulation and synaptic functions, the first category more significantly enriched in human datasets. Our extensive bioinformatics study indicates, for the first time, a significant dysregulation of AS in human RTT datasets, suggesting the crucial contribution of altered RNA processing to the pathophysiology of RTT.…”
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Explicit iteration of an unbounded solution of turbulent flow model involving ψ-Riemann–Liouville fractional derivatives by Sabri T.M. Thabet, Imed Kedim, Bahaaeldin Abdalla, Thabet Abdeljawad

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Design of Epitope-Based Peptide Vaccine against Pseudomonas aeruginosa Fructose Bisphosphate Aldolase Protein Using Immunoinformatics by Mustafa Elhag, Ruaa Mohamed Alaagib, Nagla Mohamed Ahmed, Mustafa Abubaker, Esraa Musa Haroun, Sahar Obi Abd Albagi, Mohammed A. Hassan

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Lawsonia intracellularis T3SS effector LI0758, an Rce1 ortholog, activates MAPK and NF-κB signaling in mammalian cells by Yuanxiu Zhong, Yiyun Duan, Fenju Lai, Jinhua Zhang, Yimin Dai

“…In this study, we identify that LI0758 can be secreted by the Yersinia T3SS, which suppresses yeast growth and activates mitogen-activated protein kinase (MAPK) and nuclear factor-kappa B (NF-κB) signaling pathway in mammalian cells. Bioinformatics analyses indicate that LI0758 is an ortholog of Rce1, a eukaryotic CAAX protein endoprotease, sharing a similar subcellular localization on the endoplasmic reticulum (ER). …”
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Corrigendum: Mathematical modeling in autoimmune diseases: from theory to clinical application by Yaroslav Ugolkov, Yaroslav Ugolkov, Yaroslav Ugolkov, Antonina Nikitich, Antonina Nikitich, Cristina Leon, Gabriel Helmlinger, Kirill Peskov, Kirill Peskov, Kirill Peskov, Kirill Peskov, Victor Sokolov, Victor Sokolov, Alina Volkova, Alina Volkova

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Molecular insights into the unique properties of the blood‐circulating proteasome by Yegor Leushkin, David Morgenstern, Shifra Ben‐Dor, Rebecca Haffner‐Krausz, Katharina Zittlau, Gili Ben‐Nissan, Michal Sharon

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Antioxidant peptides encrypted in flaxseed proteome: An in silico assessment by Dawei Ji, Chibuike C. Udenigwe, Dominic Agyei

“…Keywords: Bioactive peptides, Antioxidant peptides, Flaxseed proteins, Bioinformatics…”
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Bilateral acute macular neuroretinopathy following influenza A infection by Charles W. Ryan, Rajesh C. Rao

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miR-21 promotes cervical cancer by regulating NTF3 by Yishan Chen, Caiwu Su, Yuke Cai, Lina Ke, Yaxiong Huang

“…Abstract This study explores the influence of miR-21 and its interaction with the target gene Neurotrophin-3 (NTF3) in cervical cancer (CC). We employed bioinformatics tools, including DIANA, Targetscan, miRDB, and miRDIP, to predict the target genes of miR-21. …”
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Evaluating the Cassandra NoSQL Database Approach for Genomic Data Persistency by Rodrigo Aniceto, Rene Xavier, Valeria Guimarães, Fernanda Hondo, Maristela Holanda, Maria Emilia Walter, Sérgio Lifschitz

“…Rapid advances in high-throughput sequencing techniques have created interesting computational challenges in bioinformatics. One of them refers to management of massive amounts of data generated by automatic sequencers. …”
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