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JOURNAL ARTICLE
Chia-Hsin Liu, Pei-Chun Shen, Wen-Jen Lin, Hsiu-Cheng Liu, Meng-Hsin Tsai, Tzu-Ya Huang, I-Chieh Chen, Yo-Liang Lai, Yu-De Wang, Mien-Chie Hung, Wei-Chung Cheng
In the field of lipidomics, where the complexity of lipid structures and functions presents significant analytical challenges, LipidSig stands out as the first web-based platform providing integrated, comprehensive analysis for efficient data mining of lipidomic datasets. The upgraded LipidSig 2.0 (https://lipidsig.bioinfomics.org/) simplifies the process and empowers researchers to decipher the complex nature of lipids and link lipidomic data to specific characteristics and biological contexts. This tool markedly enhances the efficiency and depth of lipidomic research by autonomously identifying lipid species and assigning 29 comprehensive characteristics upon data entry...
May 6, 2024: Nucleic Acids Research
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JOURNAL ARTICLE
Saumya Agrawal, Andrey Buyan, Jessica Severin, Masaru Koido, Tanvir Alam, Imad Abugessaisa, Howard Y Chang, Josée Dostie, Masayoshi Itoh, Juha Kere, Naoto Kondo, Yunjing Li, Vsevolod J Makeev, Mickaël Mendez, Yasushi Okazaki, Jordan A Ramilowski, Andrey I Sigorskikh, Lisa J Strug, Ken Yagi, Kayoko Yasuzawa, Chi Wai Yip, Chung Chau Hon, Michael M Hoffman, Chikashi Terao, Ivan V Kulakovskiy, Takeya Kasukawa, Jay W Shin, Piero Carninci, Michiel J L de Hoon
The human genome is pervasively transcribed and produces a wide variety of long non-coding RNAs (lncRNAs), constituting the majority of transcripts across human cell types. Some specific nuclear lncRNAs have been shown to be important regulatory components acting locally. As RNA-chromatin interaction and Hi-C chromatin conformation data showed that chromatin interactions of nuclear lncRNAs are determined by the local chromatin 3D conformation, we used Hi-C data to identify potential target genes of lncRNAs...
2024: PloS One
#3
JOURNAL ARTICLE
Jeong-Woo Koo, Chan S Suh, Jin Won Chung, Kyung-Ah Sohn, Kyungsik Han
BACKGROUND: Over several years of recent efforts to make sense and detect online hate speech, we still know relatively little about how hateful expressions enter online platforms and whether there are patterns and features characterizing the corpus of hateful speech. OBJECTIVE: In this research, we introduce a new conceptual framework suitable for better capturing the overall scope and dynamics of the current forms of online hateful speech. METHODS: We adopt several Python-based crawlers to collect a comprehensive data set covering a variety of subjects from a multiplicity of online communities in South Korea...
2024: PloS One
#4
JOURNAL ARTICLE
Single-Cell Transcriptional Signatures of Glomerular Disease in Transgenic Mice with APOL1 Variants.
Teruhiko Yoshida, Khun Zaw Latt, Briana A Santo, Shashi Shrivastav, Yongmei Zhao, Paride Fenaroli, Joon-Yong Chung, Stephen M Hewitt, Vincent M Tutino, Pinaki Sarder, Avi Z Rosenberg, Cheryl A Winkler, Jeffrey B Kopp
BACKGROUND: APOL1 high-risk variants contribute to kidney disease among African-ancestry individuals. We sought to describe cell-specific APOL1 variants-induced pathways using two mouse models. METHODS: We characterized bacterial artificial chromosome (BAC)/APOL1 transgenic mice crossed with HIV-associated nephropathy (HIVAN) Tg26 mice and BAC/APOL1 transgenic mice given interferon-γ. RESULTS: Both mouse models showed more severe glomerular disease in APOL1-G1 compared to APOL1-G0 mice...
May 6, 2024: Journal of the American Society of Nephrology: JASN
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JOURNAL ARTICLE
Yu-Ting Su, Chung-Hsing Chen, Jui-Wen Kang, Hsin-Yu Kuo, Ching-Chieh Yang, Yu-Feng Tian, Cheng-Fa Yeh, Chia-Lin Chou, Shang-Hung Chen
Despite neoadjuvant chemoradiotherapy (CRT) being the established standard for treating advanced rectal cancer, clinical outcomes remain suboptimal, necessitating the identification of predictive biomarkers for improved treatment decisions. Previous studies have hinted at the oncogenic properties of the Fc fragment of IgG binding protein (FCGBP) in various cancers; however, its clinical significance in rectal cancer remains unclear. In this study, we first conducted an analysis of a public transcriptome comprising 46 rectal cancer patients...
May 3, 2024: Aging
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JOURNAL ARTICLE
K Reilly, S Sonner, N McCay, D L Rolnik, F Casey, A N Seale, C J Watson, A Kan, T H T Lai, B H Y Chung, K E M Diderich, M I Srebniak, E Dempsey, S Drury, J Giordano, R Wapner, M D Kilby, L S Chitty, F Mone
OBJECTIVES: To determine the incremental yield of prenatal exome sequencing (PES) over standard testing in fetuses with an isolated congenital heart abnormality (CHA), CHA associated with extra-cardiac malformations (ECMs) and CHA dependent upon anatomical subclassification. METHODS: A systematic review of the literature was performed using MEDLINE, EMBASE, Web of Science and grey literature January 2010-February 2023. Studies were selected if they included greater than 20 cases of prenatally diagnosed CHA when standard testing (QF-PCR/chromosome microarray/karyotype) was negative...
May 6, 2024: Prenatal Diagnosis
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JOURNAL ARTICLE
Mao-Hsuan Huang, Yi-Hsuan Kuan, Yee-Lam E Chan, Wei-Chung Mao, Tung-Ping Su
No abstract text is available yet for this article.
May 6, 2024: CNS Spectrums
#8
JOURNAL ARTICLE
William Ho Cheung Li, David Chi Leung Lam, Kit Man Sin, Eliza Lai Yi Wong, Carlos King Ho Wong, Herbert Ho Fung Loong, Kai Yeung Cheung, Wei Xia, Peige Song, Joyce Oi Kwan Chung
BACKGROUND AND AIMS: Despite evidence that patients living with cancer who continue to smoke after diagnosis are at higher risk for all-cause mortality and reduced treatment efficacy, many cancer patients continue to smoke. This protocol is for a study to test the effectiveness of a self-determination theory-based intervention (quit immediately or progressively) plus instant messaging (WhatsApp or WeChat) to help smokers with cancer to quit smoking. DESIGN: This will be a multi-centre, two-arm (1:1), single-blind, pragmatic, individually randomized controlled trial...
May 6, 2024: Addiction
#9
JOURNAL ARTICLE
Shanshan Wang, Kyumin Kim, Nicolas Gelvez, Claire Chung, Jean-Francois Gout, Benjamin Fixman, Marc Vermulst, Xiaojiang S Chen
Cytidine (C) to Uridine (U) RNA editing is a post-transcription modification that is involved in diverse biological processes. APOBEC1 (A1) catalyzes the conversion of C-to-U in RNA, which is important in regulating cholesterol metabolism through its editing activity on ApoB mRNA. However, A1 requires a cofactor to form an "editosome" for RNA editing activity. A1CF and RBM47, both RNA-binding proteins, have been identified as cofactors that pair with A1 to form editosomes and edit ApoB mRNA and other cellular RNAs...
December 15, 2023: Journal of Molecular Biology
#10
JOURNAL ARTICLE
Tieu-Long Phan, The-Chuong Trinh, Van-Thinh To, Thanh-An Pham, Phuoc-Chung Van Nguyen, Tuyet-Minh Phan, Tuyen Ngoc Truong
HIV-1 (human immunodeficiency virus-1) has been causing severe pandemics by attacking the immune system of its host. Left untreated, it can lead to AIDS (acquired immunodeficiency syndrome), where death is inevitable due to opportunistic diseases. Therefore, discovering new antiviral drugs against HIV-1 is crucial. This study aimed to explore a novel machine learning approach to classify compounds that inhibit HIV-1 integrase and screen the dataset of repurposing compounds. The present study had two main stages: selecting the best type of fingerprint or molecular descriptor using the Wilcoxon signed-rank test and building a computational model based on machine learning...
May 2, 2024: RSC Advances
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JOURNAL ARTICLE
Ping-Ling Chiu, Mei-Chen Lin, Shih-Tien Hsu, Tin-Yun Ho, Yung-Hsiang Chen, Chung-Chia Chen, Yueh-Sheng Chen
BACKGROUND AND AIM: Taxol modulates local inflammatory conditions in peripheral nerves, which may impair their regeneration and recovery when injured. This study aimed to determine the effects of rosmarinic acid (RA, a polyphenol constituent of many culinary herbs) on the regeneration of the sciatic nerves in the bridging conduits. EXPERIMENTAL PROCEDURE: In the cell study, RA decreased nuclear factor (NF)-κB activity induced by taxol in a dose dependency...
May 2024: Journal of Traditional and Complementary Medicine
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JOURNAL ARTICLE
Stavros Skouras, Maria-Lisa Kleinert, Edwin H M Lee, Christy L M Hui, Yi Nam Suen, Jazmin Camchong, Catherine S Y Chong, Wing Chung Chang, Sherry K W Chan, William T L Lo, Kelvin O Lim, Eric Y H Chen
Functional connectivity resting-state functional magnetic resonance imaging has been proposed to predict antipsychotic treatment response in schizophrenia. However, only a few prospective studies have examined baseline resting-state functional magnetic resonance imaging data in drug-naïve first-episode schizophrenia patients with regard to subsequent treatment response. Data-driven approaches to conceptualize and measure functional connectivity patterns vary broadly, and model-free, voxel-wise, whole-brain analysis techniques are scarce...
2024: Brain communications
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JOURNAL ARTICLE
Tolga Aksu, Mina K Chung
PURPOSE OF REVIEW: Cardioneuroablation (CNA) has emerged as a potential alternative to pacemaker therapy in well-selected cases with vasovagal syncope (VVS). In recent years, the number of CNA procedures performed by electrophysiologists has considerably risen. However, some important questions, including proper patient selection and long-term results, remain unanswered. The present article aims to critically review and interpret latest scientific evidence for clinical indications and how to approach long-term management...
April 2024: Current Cardiovascular Risk Reports
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JOURNAL ARTICLE
Chia-Peng Chang, Chung-Jen Lin, Wen-Chih Fann, Chiao-Hsuan Hsieh
BACKGROUND: Determining the presence of necrotizing soft tissue infection (NSTI) poses a significant hurdle. As of late, there has been a notable increase in the application of artificial intelligence (AI) machine learning techniques in identifying diseases, a shift that can be attributed to their exceptional efficiency, unbiased nature, and high precision. METHODS: Information was gathered from a cohort of 13 patients suffering from NSTI, alongside 12 patients with cellulitis...
May 15, 2024: Heliyon
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JOURNAL ARTICLE
Alexandros Karargyris, Renato Umeton, Micah J Sheller, Alejandro Aristizabal, Johnu George, Anna Wuest, Sarthak Pati, Hasan Kassem, Maximilian Zenk, Ujjwal Baid, Prakash Narayana Moorthy, Alexander Chowdhury, Junyi Guo, Sahil Nalawade, Jacob Rosenthal, David Kanter, Maria Xenochristou, Daniel J Beutel, Verena Chung, Timothy Bergquist, James Eddy, Abubakar Abid, Lewis Tunstall, Omar Sanseviero, Dimitrios Dimitriadis, Yiming Qian, Xinxing Xu, Yong Liu, Rick Siow Mong Goh, Srini Bala, Victor Bittorf, Sreekar Reddy Puchala, Biagio Ricciuti, Soujanya Samineni, Eshna Sengupta, Akshay Chaudhari, Cody Coleman, Bala Desinghu, Gregory Diamos, Debo Dutta, Diane Feddema, Grigori Fursin, Xinyuan Huang, Satyananda Kashyap, Nicholas Lane, Indranil Mallick, Pietro Mascagni, Virendra Mehta, Cassiano Ferro Moraes, Vivek Natarajan, Nikola Nikolov, Nicolas Padoy, Gennady Pekhimenko, Vijay Janapa Reddi, G Anthony Reina, Pablo Ribalta, Abhishek Singh, Jayaraman J Thiagarajan, Jacob Albrecht, Thomas Wolf, Geralyn Miller, Huazhu Fu, Prashant Shah, Daguang Xu, Poonam Yadav, David Talby, Mark M Awad, Jeremy P Howard, Michael Rosenthal, Luigi Marchionni, Massimo Loda, Jason M Johnson, Spyridon Bakas, Peter Mattson
Medical artificial intelligence (AI) has tremendous potential to advance healthcare by supporting and contributing to the evidence-based practice of medicine, personalizing patient treatment, reducing costs, and improving both healthcare provider and patient experience. Unlocking this potential requires systematic, quantitative evaluation of the performance of medical AI models on large-scale, heterogeneous data capturing diverse patient populations. Here, to meet this need, we introduce MedPerf, an open platform for benchmarking AI models in the medical domain...
July 2023: Nature Machine Intelligence
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JOURNAL ARTICLE
Wei-Wen Chen, Ling Kuo, Yi-Xun Lin, Wen-Chung Yu, Chien-Chao Tseng, Yenn-Jiang Lin, Ching-Chun Huang, Shih-Lin Chang, Jacky Chung-Hao Wu, Chun-Ku Chen, Ching-Yao Weng, Siwa Chan, Wei-Wen Lin, Yu-Cheng Hsieh, Ming-Chih Lin, Yun-Ching Fu, Tsung Chen, Shih-Ann Chen, Henry Horng-Shing Lu
A challenge in accurately identifying and classifying left ventricular hypertrophy (LVH) is distinguishing it from hypertrophic cardiomyopathy (HCM) and Fabry disease. The reliance on imaging techniques often requires the expertise of multiple specialists, including cardiologists, radiologists, and geneticists. This variability in the interpretation and classification of LVH leads to inconsistent diagnoses. LVH, HCM, and Fabry cardiomyopathy can be differentiated using T1 mapping on cardiac magnetic resonance imaging (MRI)...
2024: International Journal of Biomedical Imaging
#17
JOURNAL ARTICLE
Chung-Ying Lin, Meng-Che Tsai, Mónika Koós, Léna Nagy, Shane W Kraus, Zsolt Demetrovics, Marc N Potenza, Rafael Ballester-Arnal, Dominik Batthyány, Sophie Bergeron, Joël Billieux, Peer Briken, Georgina Cárdenas-López, Joana Carvalho, Jesús Castro-Calvo, Lijun Chen, Giacomo Ciocca, Ornella Corazza, Rita I Csako, David P Fernandez, Elaine F Fernandez, Hironobu Fujiwara, Johannes Fuss, Roman Gabrhelík, Ateret Gewirtz-Meydan, Biljana Gjoneska, Mateusz Gola, Joshua B Grubbs, Hashim T Hashim, Md Saiful Islam, Mustafa Ismail, Martha Jiménez-Martínez, Tanja Jurin, Ondrej Kalina, Verena Klein, András Költő, Sang-Kyu Lee, Karol Lewczuk, Christine Lochner, Silvia López-Alvarado, Kateřina Lukavská, Percy Mayta-Tristán, Ion Milea, Dan J Miller, Oľga Orosová, Gábor Orosz, Fernando P Ponce, Gonzalo R Quintana, Gabriel C Quintero Garzola, Jano Ramos-Diaz, Kévin Rigaud, Ann Rousseau, Marco De Tubino Scanavino, Marion K Schulmeyer, Pratap Sharan, Mami Shibata, Sheikh Shoib, Vera Sigre-Leirós, Luke Sniewski, Ognen Spasovski, Vesta Steibliene, Dan J Stein, Julian Strizek, Aleksandar Štulhofer, Berk C Ünsal, Marie-Pier Vaillancourt-Morel, Marie Claire Van Hout, Beáta Bőthe
BACKGROUND: The three-item Sexual Distress Scale (SDS-3) has been frequently used to assess distress related to sexuality in public health surveys and research on sexual wellbeing. However, its psychometric properties and measurement invariance across cultural, gender and sexual subgroups have not yet been examined. This multinational study aimed to validate the SDS-3 and test its psychometric properties, including measurement invariance across language, country, gender identity, and sexual orientation groups...
2024: International Journal of Clinical and Health Psychology: IJCHP
#18
JOURNAL ARTICLE
Jiahui Guan, Lantian Yao, Peilin Xie, Chia-Ru Chung, Yixian Huang, Ying-Chih Chiang, Tzong-Yi Lee
Antiviral peptides (AVPs) have shown potential in inhibiting viral attachment, preventing viral fusion with host cells and disrupting viral replication due to their unique action mechanisms. They have now become a broad-spectrum, promising antiviral therapy. However, identifying effective AVPs is traditionally slow and costly. This study proposed a new two-stage computational framework for AVP identification. The first stage identifies AVPs from a wide range of peptides, and the second stage recognizes AVPs targeting specific families or viruses...
March 27, 2024: Briefings in Bioinformatics
#19
JOURNAL ARTICLE
Cheng Chung Yong, Takuma Sakurai, Hiroki Kaneko, Ayako Horigome, Eri Mitsuyama, Aruto Nakajima, Toshihiko Katoh, Mikiyasu Sakanaka, Takaaki Abe, Jin-Zhong Xiao, Miyuki Tanaka, Toshitaka Odamaki, Takane Katayama
Indole in the gut is formed from dietary tryptophan by a bacterial tryptophan-indole lyase. Indole not only triggers biofilm formation and antibiotic resistance in gut microbes but also contributes to the progression of kidney dysfunction after absorption by the intestine and sulfation in the liver. As tryptophan is an essential amino acid for humans, these events seem inevitable. Despite this, we show in a proof-of-concept study that exogenous indole can be converted to an immunomodulatory tryptophan metabolite, indole-3-lactic acid (ILA), by a previously unknown microbial metabolic pathway that involves tryptophan synthase β subunit and aromatic lactate dehydrogenase...
2024: Gut Microbes
#20
JOURNAL ARTICLE
Pin-Yi Chiang, Yu-Sen Huang, Yu-Cheng Huang, Ming-Yann Lee, Victor Jing-Wei Kang, Chin-Chung Shu, Yeun-Chung Chang
PURPOSE: Mycobacterium abscessus complex (MABC) commonly causes lung disease (LD) and has a high treatment failure rate of around 50%. In this study, our objective is to investigate specific CT patterns for predicting treatment prognosis and monitoring treatment response, thus providing valuable insights for clinical physicians in the management of MABC-LD treatment. METHODS: We retrospectively assessed 34 patients with MABC-LD treated between January 2015 and December 2020...
May 6, 2024: Japanese Journal of Radiology
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