Article
Biochemical Research Methods
Ju Li, Congcong Zhang, Yang Shi, Qing Li, Na Li, Yong Mi
Summary: This study identified differentially expressed lncRNAs and mRNAs in OSCC, with up-regulated and down-regulated lncRNAs during progression. A co-expression network involving 692 mRNAs and 2193 edges was constructed, showing associations with various biological processes and pathways related to cancer progression. Certain lncRNAs were found to be associated with immune response, calcium ion transport, and other processes, potentially impacting the overall survival time in OSCC patients.
CURRENT BIOINFORMATICS
(2021)
Article
Biochemical Research Methods
Mingxuan Yang, Liangtao Zhao, Xuchang Hu, Haijun Feng, Xuewen Kang
Summary: This study identified differentially expressed mRNAs and lncRNAs in osteosarcoma cells after anti-TWEAK treatment, revealing key proteins and lncRNAs involved in the process. Bioinformatics analysis showed that the identified genes and lncRNAs were associated with various pathways related to cancer progression, providing valuable insights for potential therapeutic targets.
CURRENT BIOINFORMATICS
(2021)
Article
Immunology
Jian-Xiong Wang, Xu Zhao, Sheng-Qian Xu
Summary: This study identified three novel upregulated lncRNAs in AS and proposed a new lncRNA-RBPmRNA interaction that may regulate adaptive immune response.
JOURNAL OF INFLAMMATION RESEARCH
(2022)
Article
Genetics & Heredity
Xiuhui Zhao, Junning Ye, Xunkai Lin, Huiwen Xue, Xian Zou, Guangbin Liu, Ming Deng, Baoli Sun, Yongqing Guo, Dewu Liu, Yaokun Li
Summary: Meat yield and quality in livestock are influenced by the expression of different messenger RNAs (mRNAs) and long non-coding RNAs (lncRNAs). In this study, the longissimus dorsi (LD) muscles of Leizhou black goats at different ages were analyzed using high-throughput RNA sequencing. The differentially expressed genes were enriched in biological processes and pathways related to cellular energy metabolism. Three lncRNAs were found to potentially interact with the METTL11B gene and participate in the methylation of goat muscle proteins. These findings provide valuable insights for future studies on postnatal meat development in goat muscles.
Article
Plant Sciences
Masoumeh Ahmadi Khoei, Marzieh Karimi, Roya Karamian, Sahand Amini, Aboozar Soorni
Summary: This study revealed potential lncRNAs in soybean involved in response to nematodes, predicted nematode-related target genes, and highlighted the enrichment of stress responses in both data sets. Additionally, lncRNAs were proposed to be involved in microRNA-mediated regulation of gene expression in soybean upon nematode infection.
FRONTIERS IN PLANT SCIENCE
(2021)
Review
Biochemistry & Molecular Biology
Ali Gholami, Khosro Farhadi, Fatemeh Sayyadipour, Masoud Soleimani, Fakhredin Saba
Summary: This review summarizes the role of lncRNAs in lymphomas and their potential clinical value. It has been found that lncRNAs play a critical role in lymphoma carcinogenesis by affecting apoptosis, cell proliferation, invasion, and response to chemotherapy.
Article
Biochemical Research Methods
Shuzhen Kuang, Yanzhang Wei, Liangjiang Wang
Summary: This study introduces a novel machine learning approach (XGEP) for predicting essential genes and candidate lncRNAs in cancer cells, using relevant features from the TCGA transcriptome dataset to achieve significantly higher prediction performance of human essential genes in pan-cancer dataset, as well as superior performance in identifying essential genes in cancer-type-specific datasets.
Article
Biotechnology & Applied Microbiology
Houri Razavi, Ali Katanforosh
Summary: This study constructed a STAD lncRNA-mRNA network and found that the high degree nodes were associated with overall survival and had been confirmed in other cancers. Through mapping lncRNAs to GO terms and cancer hallmarks, the potential associations between lncRNAs and hallmarks were predicted and confirmed through literature review. Furthermore, a lncRNA signature was developed to classify STAD patients into high and low-risk subgroups with significantly different survival outcomes.
Article
Biochemistry & Molecular Biology
Wenjing Zhang, Chun Wei, Ling Wang
Summary: Osteoarthritis (OA) is a degenerative joint disorder that impairs patients' quality of life. This study aimed to identify diagnostic biomarkers for early detection and prevention of OA. Differential expression analysis was performed on a dataset from the Gene Expression Omnibus database, resulting in the identification of differentially expressed lncRNAs (DE-lncRNAs), mRNAs (DE-mRNAs), and circRNAs (DE-circRNAs) in OA samples compared to normal samples. Functional analysis and network construction were conducted to identify hub genes and construct ceRNA networks related to OA. Thirteen hub genes were identified and validated. The study provides a theoretical basis for further research on OA.
MOLECULAR BIOTECHNOLOGY
(2023)
Article
Biology
Meng Zhang, Jian Zhao, Jing Wu, Yulan Wang, Minhui Zhuang, Lingxiao Zou, Renlong Mao, Bin Jiang, Jingjing Liu, Xiaofeng Song
Summary: This article investigates the translation mechanisms of long non-coding RNAs (LncRNAs) and discovers that translatable LncRNAs have more protein-coding related features and more stable secondary structures. Based on this, the researchers developed a computational tool called TransLncPred for predicting translatable LncRNAs.
COMPUTERS IN BIOLOGY AND MEDICINE
(2023)
Article
Medical Laboratory Technology
Hamza Malik Okuyan, Mehmet A. Begen
Summary: Osteoarthritis (OA) is a common joint disease that affects older adults worldwide. Long non-coding ribonucleic acids (lncRNAs) have emerged as important molecules in understanding the pathogenesis of OA. Research has shown that lncRNAs play a role in the pathological processes of OA and their altered expressions make them attractive for diagnosing and treating OA.
CLINICA CHIMICA ACTA
(2022)
Article
Plant Sciences
Shuai Yu, Zhichao Zhang, Jing Li, Yanbin Zhu, Yanzhe Yin, Xiaoyu Zhang, Yuxin Dai, Ao Zhang, Cong Li, Yanshu Zhu, Jinjuan Fan, Yanye Ruan, Xiaomei Dong
Summary: This study identified and characterized lncRNAs in sunflower endosperm, revealing their important roles in seed development processes. The study also revealed a negative correlation between lncRNA expression and DNA methylation levels, and proposed that maternal demethylation may induce the paternal bias expression of imprinted lncRNAs in sunflower endosperm.
Article
Biology
Chun-Yan Cui, Xiao Liu, Ming-Hui Peng, Qing Liu, Ying Zhang
Summary: The study identified key genes and signaling pathways related to neuropathic pain using bioinformatics technology, providing potential targets for the targeted therapy of neuropathic pain.
COMPUTERS IN BIOLOGY AND MEDICINE
(2022)
Article
Plant Sciences
Lingling Wang, Jingyi Wang, Hui Chen, Bin Hu
Summary: This study identified and characterized lncRNAs in Hevea brasiliensis by integrating transcriptome datasets from multiple tissues. The results showed that rubber lncRNAs have distinctive features such as longer exon, lower expression levels and GC content, and more tissue specificity compared to mRNAs. Thousands of tissue-specific lncRNAs were discovered in rubber tissues, and the functional enrichment analysis indicated their potential roles in tissue-specific functions.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Endocrinology & Metabolism
Mengsha Yin, Yao Wang, Xinhua Ren, Mingyue Han, Shanshan Li, Ruishuang Liang, Guixia Wang, Xiaokun Gang
Summary: This study identified key genes and pathways in adrenocortical carcinoma (ACC) through analysis of gene expression profiles. These findings have important implications for understanding the pathogenesis of ACC, as well as for diagnosis and targeted treatment options.
FRONTIERS IN ENDOCRINOLOGY
(2023)
Review
Oncology
Chengcheng He, Bo Luo, Nan Jiang, Yu Liang, Yancheng He, Jingyuan Zeng, Jiajia Liu, Xiaoli Zheng
LEUKEMIA & LYMPHOMA
(2019)
Article
Infectious Diseases
Yao Liu, Hong Zhang, Xinzhuo Zhang, Nan Jiang, Zhikun Zhang, Jinping Zhang, Baoli Zhu, Guangxi Wang, Kelei Zhao, Yingshun Zhou
DIAGNOSTIC MICROBIOLOGY AND INFECTIOUS DISEASE
(2019)
Article
Infectious Diseases
Nan Jiang, Xinzhuo Zhang, Yingshun Zhou, Zhikun Zhang, Xiaoli Zheng
JOURNAL OF GLOBAL ANTIMICROBIAL RESISTANCE
(2019)
Article
Biochemistry & Molecular Biology
Penggao Dai, Yancheng He, Guosong Luo, Jiaqi Deng, Nan Jiang, Tingting Fang, Yujuan Li, Ying Cheng
JOURNAL OF CELLULAR BIOCHEMISTRY
(2019)
Article
Biochemistry & Molecular Biology
Chengcheng He, Yingchun Zhang, Hongwei Luo, Bo Luo, Yancheng He, Nan Jiang, Yu Liang, Jingyuan Zeng, Yujiao Luo, Yujun Xian, Jiajia Liu, Xiaoli Zheng
Article
Biochemistry & Molecular Biology
Yu Liang, Jingyuan Zeng, Bo Luo, Wei Li, Yancheng He, Wenjing Zhao, Nan Hu, Nan Jiang, Yujiao Luo, Yujun Xian, Jiajia Liu, Xiaoli Zheng
MOLECULAR IMMUNOLOGY
(2020)
Article
Integrative & Complementary Medicine
Fahsai Kantawong, Chanakarn Saisuwan, Pirakorn Soeratanapant, Phenphichar Wanachantararak, Jiang Nan, Jianming Wu, Young-Tae Chang
Summary: This study investigated the potential neuroregenerative effects of Gynura divaricata for the prevention of diabetic neuropathy, finding that the water extract of GD may have an inductive effect for neural regeneration. These results suggest that GD could be used as functional food and supplementation for the prevention or treatment of diabetic neuropathy.
EVIDENCE-BASED COMPLEMENTARY AND ALTERNATIVE MEDICINE
(2021)
Article
Pharmacology & Pharmacy
Nan Jiang, Hong Li, Yueshan Sun, Jing Zeng, Fei Yang, Fahsai Kantawong, Jianming Wu
Summary: The study explored the anti-HCC effects of Sanguisorba Officinalis and its potential therapeutic mechanisms through multi-target and multi-pathway regulation, primarily targeting cell proliferation and survival pathways such as EGFR/MAPK and EGFR/PI3K/AKT/NF kappa B.
FRONTIERS IN PHARMACOLOGY
(2021)
Article
Genetics & Heredity
Nan Jiang, Xinzhuo Zhang, Dalian Qin, Jing Yang, Anguo Wu, Long Wang, Yueshan Sun, Hong Li, Xin Shen, Jing Lin, Fahsai Kantawong, Jianming Wu
Summary: This study identified key candidate prognostic genes involved in HCC development and potential small-molecule drugs using bioinformatics methods. The crucial gene signatures related to HCC progression and prognosis were validated, with the cell cycle pathway being enriched with these genes. Several candidate small-molecule drugs were also identified, offering insights into novel therapeutic approaches for HCC.
FRONTIERS IN GENETICS
(2021)
Article
Genetics & Heredity
Hongwei Luo, Yingchun Zhang, Nan Hu, Yancheng He, Chengcheng He
Summary: This study established a prognostic model of a 12-RBP signature that showed high prediction accuracy for stratifying the risk of AML patients. The model outperformed cytogenetics and provided valuable insights into the role of RBPs in AML, potentially laying the foundation for future treatment strategies.
FRONTIERS IN GENETICS
(2021)
Article
Oncology
Hongwei Luo, Que Zhang, Xiangchu Liu, Yue Luo, Xing Jiang, Chao Wang, Bin Chen, Qiming He, Yingchun Zhang, Ou Shu, Penggao Dai, Chengcheng He
Summary: In this study, two cuproptosis-related molecular subtypes were identified in colon cancer, which can predict clinicopathological features, prognosis, tumor microenvironment activity, and immune-infiltrating cells. A risk model was developed and its predictive ability was verified, providing guidance for individualized treatment regimens for colon cancer patients.
FRONTIERS IN ONCOLOGY
(2023)