Article
Oncology
Morgane Le Bras, Noah Gorelick, Sylvain Pautet, Betty Tyler, Stephane Manenti, Nicolas Skuli, Stefania Millevoi, Anne Cammas
Summary: This study investigates the molecular mechanisms underlying protein synthesis deregulation in glioblastoma (GBM) and its impact on tumor progression and resistance to therapy. The results reveal the crucial role of RNA-binding proteins hnRNP H/F in controlling protein synthesis in GBM through overlapping mechanisms. Furthermore, hnRNP H/F are shown to potentiate cellular processes that contribute to the aggressive and resistant phenotype of GBMs, indicating their potential as therapeutic targets.
Review
Biochemistry & Molecular Biology
Eleonora A. Braga, Marina V. Fridman, Alexey M. Burdennyy, Vitaly I. Loginov, Alexey A. Dmitriev, Irina V. Pronina, Sergey G. Morozov
Summary: Long non-coding RNAs (lncRNAs) play a crucial role in the pathogenesis of non-small-cell lung cancer (NSCLC), primarily through competing binding with microRNAs (miRNAs). However, other mechanisms involving RNA-binding proteins (RBPs) that increase the stability of target mRNAs, and potential involvement of lncRNAs in m6A modification, have also been reported. Analysis of target proteins using the DAVID database and protein interactions using the STRING website revealed that JAK-STAT and Hippo signaling pathways, cytokine pathways, VEGFA-VEGFR2 pathway, cell cycle regulation, and neovascularization are the most relevant pathways affected by lncRNAs in NSCLC.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Myeongwoo Jung, Eunbyul Ji, Hoin Kang, Chongtae Kim, Seungyeon Ryu, Sukyoung Han, Seongho Cha, Eun Kyung Lee
Summary: Dysregulation of gene expression is critical for cancer progression. This study identified miR-195-5p as a novel regulator governing hnRNP A1 expression, which plays a role in enhancing the migration and invasion of liver cancer cells. miR-195-5p interferes with hnRNP A1-mediated cell migration by targeting hnRNP A1.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2023)
Article
Multidisciplinary Sciences
Sarju J. Patel, Olga Protchenko, Minoo Shakoury-Elizeh, Ethan Baratz, Shyamalagauri Jadhav, Caroline C. Philpott
Summary: The multifunctional adaptor protein PCBP1 coordinates single-stranded nucleic acids and iron-glutathione complexes, with separate activities controlling cell cycle progression and DNA damage suppression while maintaining cell viability. Amino acid residues required for iron coordination on each structural domain of PCBP1 were identified, confirming their essential function in binding target proteins. The coevolution of RNA/DNA binding and iron chaperone activities provides an advantage for nucleic acid processing dependent on iron cofactors.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Review
Oncology
Liyi Mo, Lijuan Meng, Zhicheng Huang, Lan Yi, Nanyang Yang, Guoqing Li
Summary: This paper reviews the regulation and dysregulation of HnRNP C in cancers. HnRNP C interacts with various biological molecules and plays a role in regulating the stability and translation of cancer genes. It is considered as a potential biomarker and valuable for prognosis evaluation.
BIOMARKER RESEARCH
(2022)
Article
Immunology
Xi Zhang, Hin Chu, Kenn Ka-Heng Chik, Lei Wen, Huiping Shuai, Dong Yang, Yixin Wang, Yuxin Hou, Terrence Tsz-Tai Yuen, Jian-Piao Cai, Shuofeng Yuan, Feifei Yin, Kwok-Yung Yuen, Jasper Fuk-Woo Chan
Summary: This study reveals that MERS-CoV infection increases the co-expression of circRNAs and mRNAs, and hnRNP C is identified as a key regulator in this process. Targeting hnRNP C-related signaling pathways could be an effective strategy against coronaviruses.
EMERGING MICROBES & INFECTIONS
(2022)
Review
Pharmacology & Pharmacy
Jianguo Feng, Jianlong Zhou, Yunxiao Lin, Wenhua Huang
Summary: This article highlights the importance of heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) in regulating RNA metabolism and its dysregulation in various diseases. The selective binding sites of hnRNP A1 to RNA and DNA are summarized, along with the co-regulatory factors that interact with hnRNP A1. The potential therapeutic implications of targeting hnRNP A1 are discussed, including small-molecule drugs and biomedicines.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Neurosciences
Ali Jahanbazi Jahan-Abad, Hannah E. Salapa, Cole D. Libner, Patricia A. Thibault, Michael C. Levin
Summary: This study reveals the dysfunction of RNA binding protein hnRNP A1 in oligodendrocytes (OLs) in patients with multiple sclerosis (MS) as well as in an animal model of MS. The dysfunction of hnRNP A1 is associated with alterations in RNA metabolism, cell morphology, and programmed cell death pathways in OLs, leading to detrimental effects on OL functioning and survival. These findings suggest a potential mechanism of OL damage and death in MS.
Article
Cell Biology
Sahil Sharma, Sam Kajjo, Zineb Harra, Benedeta Hasaj, Victoria Delisle, Debashish Ray, Rodrigo L. Gutierrez, Isabelle Carrier, Claudia Kleinman, Quaid Morris, Timothy R. Hughes, Roderick Mcinnes, Marc R. Fabian
Summary: In this study, a novel cytoplasmic poly(A) binding protein, neuPABP, predominantly found in postnatal brain neurons undergoing synaptogenesis, was characterized. Unlike other PABPs, neuPABP interacts with neuron-specific noncoding RNA BC1, as well as specific ribosomal and mitochondrial mRNAs, in ribonucleoprotein complexes and appears to play a role in suppressing their translation.
GENES & DEVELOPMENT
(2023)
Article
Immunology
Allison R. Wagner, Haley M. Scott, Kelsi O. West, Krystal J. Vail, Timothy C. Fitzsimons, Aja K. Coleman, Kaitlyn E. Carter, Robert O. Watson, Kristin L. Patrick
Summary: The study reveals that SR/hnRNPs proteins play a crucial role in regulating macrophage gene expression and alternative splicing, with different functions in infected and uninfected cells. These proteins influence thousands of macrophage transcripts in differential isoform usage, impacting immune response and susceptibility to pathogens. The findings suggest a model where pre-mRNA splicing is critical for controlling innate immune gene expression and infection outcomes in macrophages ex vivo.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Virology
Claire E. Westcott, Shefah Qazi, Anna M. Maiocco, Suchetana Mukhopadhyay, Kevin J. Sokoloski
Summary: This study characterized the hnRNP I interaction site and elucidated the role of hnRNPs during viral infection.
Article
Biophysics
Katherine M. Coburn, Braden Roth, Kristen M. Varney, France Carrier, David J. Weber
Summary: hnRNP A18 is an RNA binding protein involved in the hypoxic cellular stress response and regulation of CTLA-4 expression. Phosphorylation of hnRNP A18 by CK2 and GSK-3 beta results in its translocation to the cytosol and interaction with pro-survival mRNA transcripts. This study provides the backbone and sidechain resonances of hnRNP A18, serving as a foundation for future drug discovery studies and the investigation of structural changes upon phosphorylation.
BIOMOLECULAR NMR ASSIGNMENTS
(2023)
Article
Multidisciplinary Sciences
Xin Chen, Sarah M. Lloyd, Junghun Kweon, Giovanni M. Gamalong, Xiaomin Bao
Summary: The research demonstrates that intronic polyadenylation is dynamically regulated in somatic tissue, such as skin epidermis, through the cooperation of various factors, including CPSF and RNA-binding proteins, playing a crucial role in influencing cell differentiation gene expression.
NATURE COMMUNICATIONS
(2021)
Article
Biochemistry & Molecular Biology
Lisa Mueller, Johannes Ptok, Azlan Nisar, Jennifer Antemann, Ramona Grothmann, Frank Hillebrand, Anna-Lena Brillen, Anastasia Ritchie, Stephan Theiss, Heiner Schaal
Summary: This study demonstrates the design and experimental validation of sequences with specific splicing regulatory properties, and develops a predictive model for 5' ss usage based on RNA-seq data, which contributes to splice site recognition.
NUCLEIC ACIDS RESEARCH
(2022)
Review
Biochemistry & Molecular Biology
Joseph P. Clarke, Patricia A. Thibault, Hannah E. Salapa, Michael C. Levin
Summary: Heterogeneous nuclear ribonucleoprotein A1 (hnRNP A1) is a conserved protein involved in various cellular activities, with potential dysregulation in diseases. Studies have found that dysfunction of hnRNP A1 may contribute to the pathogenesis of neurodegenerative diseases, although the specific mechanisms are still under investigation.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2021)
Article
Computer Science, Artificial Intelligence
Mehdi Rajabi Asadabadi, Elizabeth Chang, Keiran Sharpe
APPLIED SOFT COMPUTING
(2020)
Article
Computer Science, Theory & Methods
A. S. M. Kayes, Wenny Rahayu, Paul Watters, Mamoun Alazab, Tharam Dillon, Elizabeth Chang
FUTURE GENERATION COMPUTER SYSTEMS-THE INTERNATIONAL JOURNAL OF ESCIENCE
(2020)
Article
Computer Science, Interdisciplinary Applications
Yu Zhang, Min Wang, Morteza Saberi, Elizabeth Chang
Meeting Abstract
Oncology
France Carrier, Palak Parekh, Eduardo Solano-Gonzalez, Xinrong Ma, Kayla Tighe, Andrea Casildo, Andrew Zodda, Christopher Johnstone, Yannick Poirier, Javed Mahmood, Kavita Bhalla, Sheri Li, Rena G. Lapidus
JOURNAL OF CLINICAL ONCOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Eduardo Solano-Gonzalez, Katherine M. Coburn, Wenbo Yu, Gerald M. Wilson, Elmar Nurmemmedov, Santosh Kesari, Elizabeth T. Chang, Alexander D. MacKerell, David J. Weber, France Carrier
Summary: The chemical probes identified in this study target hnRNP A18 RNA Recognition Motif (RRM), leading to disruption of hnRNP A18-RNA interactions and downregulation of key proteins, ultimately inhibiting cancer cell proliferation without affecting normal cell viability. The findings highlight the potential of post-transcriptional regulation of immune checkpoints as a therapeutic strategy in cancer treatment.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Computer Science, Hardware & Architecture
Hamed Aboutorab, Omar K. Hussain, Morteza Saberi, Farookh Khadeer Hussain, Elizabeth Chang
Summary: Risk management is crucial in global supply chains, with most studies focusing on managerial rather than technical perspectives. This paper specifically evaluates techniques for risk identification in the current networked supply chain environment to inform improvements needed for effective risk management.
JOURNAL OF NETWORK AND COMPUTER APPLICATIONS
(2021)
Article
Energy & Fuels
Petros Koutroumpinas, Yu Zhang, Steve Wallis, Elizabeth Chang
Summary: Reducing energy waste is crucial for Remote Industrial Plants (RIP), especially during the COVID-19 pandemic where balancing energy efficiency and OHS becomes challenging. The AI Empowered Cyber Physical Ecosystem (AECPE) has shown promising results in reducing energy costs, optimizing environmental conditions, and enhancing OHS for industries.
Article
Oncology
Palak R. Parekh, Eduardo Solano-Gonzalez, Mariana B. Martins, Xinrong Ma, Kayla Tighe, Andrea Casildo, Andrew Zodda, Christopher Johnstone, Yannick Poirier, Javed Mahmood, Kavita Bhalla, Sheri Li, Rena G. Lapidus, France Carrier
Summary: Symptoms of early stomach cancer are often subtle, leading to a high rate of advanced stage diagnosis. Research shows that DUOX2 expression increases the likelihood of preventing cancer dissemination with low dose radiation and chemotherapy. Limited treatment options are available for gastrointestinal cancer patients with disseminated disease.
Article
Computer Science, Interdisciplinary Applications
Yu Zhang, Min Wang, Morteza Saberi, Elizabeth Chang
Summary: Research on academic paper ranking has gained attention, but lacks reliable evaluation standards. Researchers analyze their algorithms using expert decisions and predefined benchmarks, but different methods lead to different results. This study provides a guideline on conducting comprehensive analysis using multiple benchmarks.
Article
Computer Science, Interdisciplinary Applications
Mehdi Rajabi Asadabadi, Morteza Saberi, Nima Salehi Sadghiani, Ofer Zwikael, Elizabeth Chang
Summary: This paper proposes an automated approach to quality management and product improvement using online product reviews. By performing text mining, it effectively captures the voice of the customer and utilizes the extracted information to guide the product improvement process. This approach enhances quality management processes in organizations and advances customer-oriented product improvement.
JOURNAL OF ENTERPRISE INFORMATION MANAGEMENT
(2023)
Article
Computer Science, Theory & Methods
Michael Zipperle, Florian Gottwalt, Elizabeth Chang, Tharam Dillon
Summary: Traditional IDS cannot handle the increasing and sophisticated cyberattacks effectively, while recent research has explored the potential of utilizing data provenance for Host-based IDS to improve detection performance and reduce false alarms. This survey aims to provide a detailed evaluation, propose a novel taxonomy, discuss current issues, and encourage researchers to tackle challenges in data collection, graph summarization, intrusion detection, and real-world benchmark datasets for PIDS.
ACM COMPUTING SURVEYS
(2023)
Article
Engineering, Electrical & Electronic
C. P. Koushik, P. Vetrivelan, Elizabeth Chang
Summary: This paper proposes a Markov chain-based opportunistic routing protocol, which predicts node mobility using historical movement information and proposes a neighbor table-based relay node selection procedure. The performance of the proposed protocol is evaluated through simulation experiments and compared with existing routing protocols, demonstrating its superiority.
IETE JOURNAL OF RESEARCH
(2023)
Article
Chemistry, Analytical
K. Kalaivanan, G. Idayachandran, P. Vetrivelan, A. Henridass, V. Bhanumathi, Elizabeth Chang, P. Sam Methuselah
Summary: Real-time smart applications are now possible due to advancements in communication and sensor technology. Wireless sensor networks (WSNs) are used to collect data from disaster sites and accurately locate detected information for safe rescue operations. The T-based Routing Topology (TRT) is suggested for data collection in landmine-affected areas, utilizing sensors, GPS, and cameras to locate explosive materials with high accuracy. The efficiency of this method is evaluated using Network Simulator-2 (NS-2).
Proceedings Paper
Automation & Control Systems
Michael Zipperle, Florian Gottwalt, Yu Zhang, Omar Hussain, Elizabeth Chang, Tharam Dillon
Summary: Traditional Intrusion Detection Systems are unable to keep up with sophisticated cyber-attacks, but Provenance-based Intrusion Detection Systems using fine-grained event correlation show increased detection accuracy and reduced false-alarm rates. However, manually creating rules by security experts is time-consuming and lacks high-quality standards. To address this, an automated rule generation framework is proposed to promptly identify similar attacks and affected systems.
2022 IEEE INTL CONF ON DEPENDABLE, AUTONOMIC AND SECURE COMPUTING, INTL CONF ON PERVASIVE INTELLIGENCE AND COMPUTING, INTL CONF ON CLOUD AND BIG DATA COMPUTING, INTL CONF ON CYBER SCIENCE AND TECHNOLOGY CONGRESS (DASC/PICOM/CBDCOM/CYBERSCITECH)
(2022)
Proceedings Paper
Computer Science, Artificial Intelligence
Yu Zhang, Min Wang, Morteza Saberi, Elizabeth Chang
TRENDS AND APPLICATIONS IN KNOWLEDGE DISCOVERY AND DATA MINING
(2020)