Review
Immunology
Victor E. Nava, Pin-Yu Perera, Nirbhay Kumar, Maneesh Jain
Summary: Noncoding RNAs (ncRNAs) are RNA molecules that are not translated into protein but can convey information encoded in their DNA. Research on the exact function of ncRNAs is challenging but understanding their importance holds great potential for basic and translational research as well as therapeutic progress.
Article
Multidisciplinary Sciences
Deisy Morselli Gysi, Albert-Laszlo Barabasi
Summary: Combining interactions mediated by noncoding RNAs (ncRNAs) with protein-protein interactions (PPI) improves the identification of disease modules and reveals previously undetectable disease relationships and comorbidity patterns.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Obstetrics & Gynecology
Zhaojuan Chen, Lan Liu, Xia Xi, Martina Burn, Cengiz Karakaya, Amanda N. Kallen
Summary: The research identified the potential role of the H19 gene in the pathogenesis of hyperandrogenemia in PCOS, suggesting that dysregulation of H19 may disrupt androgen production through effects on CYP17 and testosterone synthesis.
REPRODUCTIVE SCIENCES
(2022)
Article
Biochemical Research Methods
Zi-Ang Shen, Tao Luo, Yuan-Ke Zhou, Han Yu, Pu-Feng Du
Summary: This study developed a GNN-based method called NPI-GNN for predicting ncRNA-protein interactions, achieving comparable performance to state-of-the-art methods and showing greater robustness.
BRIEFINGS IN BIOINFORMATICS
(2021)
Review
Biochemistry & Molecular Biology
Xiyin Wang, Luca Parodi, Shannon M. M. Hawkins
Summary: Endometriosis is a chronic gynecologic disease without a cure, requiring improved therapies and noninvasive diagnostic tests. Research suggests that long noncoding RNAs and circular long noncoding RNAs play significant roles in the expression and function of endometriosis.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Oncology
Feiya Li, Burton B. Yang
Summary: The roles of ncRNAs in invadopodia functions and their potential value in anticancer therapy are still in the research stage, but they have shown significant promise.
FRONTIERS IN ONCOLOGY
(2021)
Review
Cell Biology
Tristan Cardon, Isabelle Fournier, Michel Salzet
Summary: Glioblastoma, the most common brain cancer in adults, has a median survival time of 15 months with near total resection, radiotherapy, and temozolomide treatment. Research has shown that variations in non-coding ribonucleic acid expression play a role in tumor processes, potentially impacting protein-protein interactions and signaling pathways in glioblastoma.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Medicine, General & Internal
Sizhe Liu, Mingsan Miao, Le Kang
Summary: This study conducted a pan-cancer analysis for MAD2L1 prognosis and expression using The Cancer Genome Atlas and Genotype-Tissue Expression data. The results showed that MAD2L1 may act as an oncogene in hepatocellular carcinoma and is regulated by non-coding ribonucleic acids. High expression of MAD2L1 is closely associated with poor prognosis and tumor infiltration.
Article
Biochemistry & Molecular Biology
Tim Nicholson-Shaw, Jens Lykke-Andersen
Summary: This article introduces a bioinformatics pipeline called Tailer, which can quantify and analyze the modification information of RNA 3 ' ends. Tailer can effectively process data from different sequencing experiments and provide statistically significant modification targets and data graphs. It has been shown to accurately and reproducibly recapitulate key findings, making it a useful and easy-to-use tool.
Article
Biochemistry & Molecular Biology
Elena Gargaun, Sestina Falcone, Guilhem Sole, Julien Durigneux, Andoni Urtizberea, Jean Marie Cuisset, Sofia Benkhelifa-Ziyyat, Laura Julien, Anne Boland, Florian Sandron, Vincent Meyer, Jean Francois Deleuze, David Salgado, Jean-Pierre Desvignes, Christophe Beroud, Anatole Chessel, Alexia Blesius, Martin Krahn, Nicolas Levy, France Leturcq, France Pietri-Rouxel
Summary: This study found that long noncoding RNAs play important roles in Duchenne and Becker muscular dystrophy, particularly in regulating myocyte proliferation and differentiation with potential therapeutic implications. The research suggests that lncRNA44s2 may serve as an accelerator in muscle differentiation process and is associated with a favorable clinical phenotype.
Article
Cell Biology
Alexander B. Coley, Ashlyn N. Stahly, Mohan Kasukurthi, Addison A. Barchie, Sam B. Hutcheson, Dominika Houserova, Yulong Huang, Brianna C. Watters, Valeria M. King, Meghan A. Dean, Justin T. Roberts, Jeffrey D. DeMeis, Krisha Amin, Cameron H. McInnis, Noel L. Godang, Ryan M. Wright, David F. Haider, Neha B. Piracha, Cana L. Brown, Zohaib M. Ijaz, Shengyu Li, Yaguang Xi, Oliver G. McDonald, Jingshan Huang, Glen M. Borchert
Summary: This study identified differentially expressed snoRNA fragments in prostate cancer patients and found that two specific fragments, sdRNA-D19b and -A24, play important roles in promoting proliferation, migration, and chemotherapeutic resistance in prostate cancer. The targets of sdRNA-D19b and sdRNA-A24 were identified as tumor suppressor genes CD44 and CDK12, respectively.
Article
Multidisciplinary Sciences
Dhenugen Logeswaran, Yang Li, Khadiza Akhter, Joshua D. Podlevsky, Tamara L. Olson, Katherine Forsberg, Julian J-L Chen
Summary: A previously unknown messenger RNA-derived biogenesis pathway for telomerase RNA has been discovered in the basidiomycete fungus Ustilago maydis. This pathway involves the processing of a larger RNA precursor, which possesses mRNA characteristics, to produce a mature telomerase RNA. This finding expands our understanding of telomerase biogenesis mechanisms.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Cell Biology
Wei Tang, Zong-Duo Guo, Wei-Na Chai, Dong-Lin Du, Xiao-Min Yang, Lang Cao, Hong Chen, Chao Zhou, Chong-Jie Cheng, Xiao-Chuan Sun, Zhi-Jian Huang, Jian-Jun Zhong
Summary: miR-491-5p downregulation promotes neovascularization and improves neurological function recovery after traumatic brain injury through the hypoxia-inducible factor-1 alpha/vascular endothelial growth factor signaling pathway.
NEURAL REGENERATION RESEARCH
(2022)
Editorial Material
Oncology
Barbara Pardini, Mihnea P. Dragomir
Summary: The study by Zagorac et al. unveils a novel molecular mechanism in breast cancer involving SOX2, EZH2, and the long noncoding RNA SCIRT. Upregulation of SCIRT may lead to the dedifferentiation of TICs into a less tumorigenic phenotype and offer new therapeutic opportunities.
Article
Cell Biology
Yuhao Zhang, Xiuchao Geng, Jianglong Xu, Qiang Li, Liangchao Hao, Zhaomu Zeng, Menglin Xiao, Jia Song, Fulin Liu, Chuan Fang, Hong Wang
Summary: This study systematically characterized the N6-methyladenosine modification pattern of circular RNAs in glioblastoma, identifying potential roles of N6-methyladenosine-modified circRNAs in the development of GBM. Through comprehensive RNA methylation sequencing and bioinformatics analysis, key molecules associated with N6-methyladenosine-mediated GBM progression were identified for further investigation.
JOURNAL OF CELLULAR AND MOLECULAR MEDICINE
(2021)
Article
Nutrition & Dietetics
Ya-Mei Hu, Yuan-Chin Hsiung, Man-Hui Pai, Sung-Ling Yeh
JOURNAL OF PARENTERAL AND ENTERAL NUTRITION
(2018)
Meeting Abstract
Biophysics
Vibhuti Wadhwa, Amanda J. Bird, Mark P. Foster
BIOPHYSICAL JOURNAL
(2018)
Article
Genetics & Heredity
Jinyu Wang, Haitao Zhang, Mohammed Al Shibar, Belinda Willard, Alo Ray, Kurt W. Runge
Article
Biochemistry & Molecular Biology
Jinyu Wang, Jessica R. Eisenstatt, Julien Audry, Kristen Cornelius, Matthew Shaughnessy, Kathleen L. Berkner, Kurt W. Runge
MOLECULAR AND CELLULAR BIOLOGY
(2018)
Article
Hematology
Mark A. Rishavy, Kevin W. Hallgren, Haitao Zhang, Kurt W. Runge, Kathleen L. Berkner
JOURNAL OF THROMBOSIS AND HAEMOSTASIS
(2019)
Article
Biochemistry & Molecular Biology
Ya-Mei Hu, Derek M. Boehm, Hak Chung, Stevin Wilson, Amanda J. Bird
JOURNAL OF BIOLOGICAL CHEMISTRY
(2019)
Article
Biochemistry & Molecular Biology
Stevin Wilson, Yi-Hsuan Liu, Carlos Cardona-Soto, Vibhuti Wadhwa, Mark P. Foster, Amanda J. Bird
MOLECULAR MICROBIOLOGY
(2019)
Article
Genetics & Heredity
Hiroyuki Irie, Io Yamamoto, Yusuke Tarumoto, Sanki Tashiro, Kurt W. Runge, Fuyuki Ishikawa
Review
Biochemistry & Molecular Biology
Amanda J. Bird, Stevin Wilson
CURRENT OPINION IN CHEMICAL BIOLOGY
(2020)
Review
Food Science & Technology
Siqiong Zhong, Amanda Bird, Rachel E. Kopec
Summary: Chlorophyll is responsible for the green color of plant leaves and can be consumed through green vegetables. Metallo-chlorophyll derivatives have the ability to deliver essential metals and bind toxins, primarily during digestion. There are still gaps in understanding the metabolism and bioactivity of metal and toxin-binding properties of this family of molecules.
MOLECULAR NUTRITION & FOOD RESEARCH
(2021)
Review
Biochemistry & Molecular Biology
Kathleen L. Berkner, Kurt W. Runge
Summary: This article discusses the characteristics and functions of vitamin K-dependent proteins, as well as the process of vitamin K cycle. Vitamin K-dependent proteins play important roles in hemostasis and other physiological activities, and disruption of carboxylation may lead to diseases.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Multidisciplinary Sciences
Thomas C. Westbrook, Xiangnan Guan, Eva Rodansky, Diana Flores, Chia Jen Liu, Aaron M. Udager, Radhika A. Patel, Michael C. Haffner, Ya-Mei Hu, Duanchen Sun, Tomasz M. Beer, Adam Foye, Rahul Aggarwal, David A. Quigley, Jack F. Youngren, Charles J. Ryan, Martin Gleave, Yuzhuo Wang, Jiaoti Huang, Ilsa Coleman, Colm Morrissey, Peter S. Nelson, Christopher P. Evans, Primo Lara, Robert E. Reiter, Owen Witte, Matthew Rettig, Christopher K. Wong, Alana S. Weinstein, Vlado Uzunangelov, Josh M. Stuart, George Thomas, Felix Y. Feng, Eric J. Small, Joel A. Yates, Zheng Xia, Joshi J. Alumkal
Summary: This study analyzed the transcriptomes of patient tumor biopsies before and during enzalutamide treatment, and identified a gene expression program associated with lineage plasticity risk and poor outcomes. The findings suggest that tumors harboring this gene expression program may be at particular risk for resistance mediated by lineage plasticity.
NATURE COMMUNICATIONS
(2022)
Article
Medicine, Research & Experimental
Anbarasu Kumaraswamy, Zhi Duan, Diana Flores, Chao Zhang, Archana Sehrawat, Ya-Mei Hu, Olivia A. Swaim, Eva Rodansky, William K. Storck, Joshua A. Kuleape, Karan Bedi, Rahul Mannan, Xiao-Ming Wang, Aaron Udager, Visweswaran Ravikumar, Armand Bankhead III, Ilsa Coleman, John K. Lee, Colm Morrissey, Peter S. Nelson, Arul M. Chinnaiyan, Arvin Rao, Zheng Xia, Joel A. Yates, Joshi J. Alumkal
Summary: LSD1 is highly upregulated in NEPC and its inhibition reduces NEPC cell survival and tumor growth, suggesting it may be a promising treatment strategy for NEPC.
Article
Hematology
Mark A. Rishavy, Kevin W. Hallgren, Lee A. Wilson, James M. Hiznay, Kurt W. Runge, Kathleen L. Berkner
Summary: This study reveals the essentiality of processivity to VKD protein function and explains the mechanism of disease caused by disrupted processivity through the study of GGCX mutants.