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S100A4 released from highly bone-metastatic breast cancer cells plays a critical role in osteolysis

Bone Research 2019年第4期7卷 424-436页

作者： Haemin Kim Bongjun Kim Sang Il Kim Hyung Joon Kim Brian YRyu Junho Chung Zang Hee Lee Hong-Hee Kim Department of Cell and Developmental Biology BK21 Program and DRISeoul National UniversitySeoulKorea Department of Biochemistry and Molecular Biology Seoul National University College of MedicineSeoulKorea Cancer Research Institute Seoul National University College of MedicineSeoulKorea Department of Cancer Biology Seoul National University College of MedicineSeoulKorea Department of Oral Physiology BK21 PLUS Projectand Dental and Life Science InstituteSchool of DentistryPusan National UniversityYangsanKorea Interdisciplinary Program in Bioinformatics Seoul National University College of Natural SciencesSeoulKorea Department of Biomedical Sciences Seoul National University Graduate SchoolSeoulKorea

Bone destruction induced by breast cancer metastasis causes severe complications,including death,in breast cancer *** between cancer cells and skeletal cells in metastatic bone microenvironments is a principal element that drives tumor progression and ***-derived factors play fundamental roles in this form of *** identify soluble factors released from cancer cells in bone metastasis,we established a highly bone-metastatic subline of MDA-MB-231 breast cancer *** subline(mtMDA)showed a markedly elevated ability to secrete S100A4 protein,which directly stimulated osteoclast formation via surface receptor *** S100A4 stimulated osteoclastogenesis in vitro and bone loss in *** medium from mtMDA cells in which S100A4 was knocked down had a reduced ability to stimulate ***,the S100A4 knockdown cells elicited less bone destruction in mice than the control knockdown *** addition,administration of an anti-S100A4 monoclonal antibody(mAb)that we developed attenuated the stimulation of osteoclastogenesis and bone loss by mtMDA in *** together,our results suggest that S100A4 released from breast cancer cells is an important player in the osteolysis caused by breast cancer bone metastasis.

关键词： S100A4 breast metastatic

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Correction: Resistance QTLs controlling leaf and neck blast disease identified in a doubled haploid rice population

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Euphytica 2023年第7期219卷 1-1页

作者： Korinsak, Siripar Sriprakhon, Saengchai Sirithunya, Kanyanat Sriwongchai, Tanee Wongsaprom, Chanakarn Plabpla, Anucha Vanavichit, Apichart Toojinda, Theerayut National Center for Genetic Engineering and Biotechnology (BIOTEC) National Science and Technology Development Agency (NSTDA) Khlong Luang Thailand Faculty of Science and Agricultural Technology Rajamangala University of Technology Lanna Chiangmai Thailand Department of Agronomy Faculty of Agriculture Kasetsart University Bangkok Thailand Interdisciplinary Graduate Program in Genetic Engineering and Bioinformatics Kasetsart University Bangkok Thailand Department of Agronomy Faculty of Agriculture at Kamphaeng Saen Kasetsart University Nakhon Pathom Thailand Rice Science Center Kasetsart University Nakhon Pathom Thailand

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Integrated synchrotron radiation-based fourier transform infrared (SR-FTIR) microscopy and tandem-mass spectrometry (LC-MS/MS) used to elucidate the apoptotic effect of chamuangone in A549 cells

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Biochemical and Biophysical Research Communications 2025年 764卷 151826页

作者： Wanaragthai, Panatda Yingchutrakul, Yodying Panichayupakaranant, Pharkphoom Vongsvivut, Jitraporn Aonbangkhen, Chanat Yang, Meng Chieh Maiuthed, Arnatchai Chanvorachote, Pithi Wood, Bayden R. Choowongkomon, Kiattawee Krobthong, Sucheewin Interdisciplinary Program of Genetic Engineering and Bioinformatics Kasetsart University Bangkok Thailand National Center for Genetic Engineering and Biotechnology NSTDA Pathum Thani 12120 Thailand Phytomedicine and Pharmaceutical Biotechnology Excellence Center Faculty of Pharmaceutical Sciences Prince of Songkla University Hat-Yai Thailand ANSTO-Australian Synchrotron 800 Blackburn Road Clayton Victoria Australia Center of Excellence in Natural Products Chemistry (CENP) Department of Chemistry Faculty of Science Chulalongkorn University Bangkok 10330 Thailand Department of Anatomy Faculty of Medicine Srinakharinwirot University Bangkok 10110 Thailand Centre of Biopharmaceutical Science for Healthy Ageing Faculty of Pharmacy Mahidol University Bangkok 10400 Thailand Department of Pharmacology Faculty of Pharmacy Mahidol University Bangkok 10400 Thailand Center of Excellence in Cancer Cell and Molecular Biology Faculty of Pharmaceutical Sciences Chulalongkorn University Bangkok 10330 Thailand Department of Pharmacology and Physiology Faculty of Pharmaceutical Sciences Chulalongkorn University Bangkok 10330 Thailand Bio-spectroscopy Group School of Chemistry Monash University Clayton Victoria 3800 Australia Department of Biochemistry Faculty of Science Kasetsart University Bangkok Thailand

Chamuangone, a natural compound extracted from Garcinia cowa leaves, has demonstrated potential in cancer therapeutics, but its effects on lung cancer cells remain unclear. This study investigates the apoptotic effects of Chamuangone on human lung adenocarcinoma cells (A549). The A549 cells were treated with Chamuangone, and the cytotoxic effects were evaluated using an MTT assay, revealing a dose-dependent inhibition of cell proliferation with an IC₅₀ value of 19.43 μM. Annexin V assays further confirmed that Chamuangone induces apoptosis in A549 cells, showing increased levels of late apoptosis with higher concentrations. Synchrotron radiation-based Fourier transform infrared (SR-FTIR) microscopy provided insights into macromolecular changes, highlighting significant alterations in proteins, lipids, and nucleic acids. These structural changes in key cellular macromolecules were supported by proteomic analysis, which identified the upregulation of apoptosis-related proteins, including Peroxiredoxin-2 and Na⁺/H⁺ exchange regulatory cofactor NHE-RF1. Canonical pathway analysis indicated that Chamuangone affects oxidative phosphorylation and mitochondrial dysfunction, both crucial pathways for apoptosis. Additionally, upstream regulator analysis demonstrated significant inhibition of the epidermal growth factor receptor (EGFR), a key player in lung cancer progression. These findings suggest that Chamuangone triggers apoptosis through mitochondrial pathways and EGFR inhibition, positioning it as a promising therapeutic candidate for lung cancer treatment. © 2025 Elsevier Inc.

关键词： Epidermal growth factor receptor Garcinia cowa Mitochondrial dysfunction Oxidative phosphorylation Proteomics

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Elimination of senescent cells by β-galactosidase-targeted prodrug attenuates inflammation and restores physical function in aged mice

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细胞研究（英文版） 2020年第7期30卷 574-589页

作者： Yusheng Cai Huanhuan Zhou Yinhua Zhu Qi Sun Yin Ji Anqi Xue Yuting Wang Wenhan Chen Xiaojie Yu Longteng Wang Han Chen Cheng Li Tuoping Luo Hongkui Deng The MOE Key Laboratory of Cell Proliferation and Differentiation College of Life Sciences Peking-Tsinghua Center for Life Sciences and School of Basic Medical Sciences State Key Laboratory of Natural and Biomimetic Drugs Peking University Health Science Center Peking University Beijing 100191 China State Key Laboratory of Chemical Oncogenomics School of Chemical Biology & Biotechnology Peking University Shenzhen Graduate School Shenzhen Guangdong 518055 China Peking-Tsinghua Center for Life Sciences Academy for Advanced Interdisciplinary Studies Peking University Beijing 100871 China Key Laboratory of Bioorganic Chemistry and Molecular Engineering Ministry of Education and Beijing National Laboratory for Molecular Science College of Chemistry and Molecular Engineering Peking University Beijing 100871 China School of Life Sciences Joint Graduate Program of Peking-Tsinghua-NIBS Peking University Beijing 100871 China School of Life Sciences Center for Bioinformatics Center for Statistical Science Peking University Beijing 100871 China

Cellular senescence,a persistent state of cell cycle arrest,accumulates in aged organisms,contributes to tissue dysfunction,and drives age-related *** clearance of senescent cells is expected to decrease chronic,low-grade inflammation and improve tissue repair capacity,thus attenuating the decline of physical function in aged ***,selective and effective clearance of senescent cells of different cell types has proven ***,we developed a prodrug strategy to design a new compound based on the increased activity of lysosomalβ-galactosidase (β-gal),a primary characteristic of senescent *** prodrug SSK1 is specifically activated by β-gal and eliminates mouse and human senescent cells independently of senescence inducers and cell *** aged mice,our compound effectively cleared senescent cells in different tissues,decreased the senescence-and age-associated gene signatures,attenuated low-grade local and systemic inflammation,and restored physical *** results demonstrate that lysosomalβ-gal can be effectively leveraged to selectively eliminate senescent cells,providing a novel strategy to develop anti-aging interventions.

关键词： Apoptosis Senescence

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Natural remedies for post-inflammatory hyperpigmentation: Antibacterial and anti-melanogenesis properties of Thai herbs

Pharmacological Research - Natural Products

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Pharmacological Research - Natural Products 2025年 8卷

作者： Soontari Komkonekaew Wichuta Kamphuan Phattaraporn Paobthong Warinporn Anukoonrajchathon Pacharaporn Putthangkul Sarocha Sapcharoen Chanikan Sonklin Wiwat Klankaew Kanyanat Khongrin Kiattawee Choowongkomon Saranya Sedthananan Lueacha Tabtimmai Department of Biotechnology Faculty of Appiled Science King Mongkut’s University of Technology North Bangkok Bangkok Thailand Department of Industrial Chemistry Faculty of Appiled Science King Mongkut’s University of Technology North Bangkok Bangkok Thailand Interdisciplinary Program in genetic Engineering and Bioinformatics Graduate School Kasetsart University Bangkok Thailand Department of Biochemistry Faculty of Science Kasesart University Bangkok Thailand Center for Advanced Studies in Nanotechnology for Chemical Food and Agricultural Industries KU Institute for Advanced Studies Kasetsart University Bangkok Thailand Food and Agro-Industrial Research Center King Mongkut’s University of Technology North Bangkok Bangkok Thailand

Post-inflammatory hyperpigmentation (PIH) occurs when excess melanin is produced in response to skin irritation or injury, resulting in uneven pigmentation. This study evaluates the cosmeceutical potential of ethanolic extracts from eight Thai herbs— Curcuma xanthorrhiza (CX), Quercus infectoria (QI), Calophyllum inophyllum (CI), Caesalpinia sappan (CS), Garcinia hanburyi (GH), Punica granatum (PG), Cotylelobium lanceolatum (CL), and Strychnos nux-vomica (SN)—to treat PIH through antioxidant, anti-inflammatory, antibacterial, and anti-melanogenesis properties. Phytochemical analysis revealed that CX and QI contained high levels of phenolics and flavonoids, correlating with their strong antioxidant activity. CX also protected against hydrogen peroxide (H₂O₂)-induced oxidative stress in a yeast-based model and prevented DNA damage in vitro, helping to mitigate cellular injury that can lead to melanin overproduction. Anti-inflammatory assays showed that both CX and QI significantly reduced nitric oxide and interleukin-6 (IL-6) levels without causing cytotoxicity, supporting their role in treating inflammation-related PIH. The extracts also demonstrated selective antibacterial activity against Staphylococcus aureus (MSSA and MRSA) and Cutibacterium acnes , while sparing Staphylococcus epidermidis , an important member of the skin microbiome. CI and CX significantly inhibited C. acnes , a key contributor to acne-induced PIH. Finally, anti-melanogenesis assays revealed that QI and SN effectively inhibited α-MSH-induced melanin production. These findings suggest that CX, QI, and CI are promising natural cosmeceutical agents for addressing PIH by modulating oxidative stress, inflammation, microbial imbalance, and melanin overproduction, while maintaining skin microbiota integrity.

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Serum proteomic approach to identifying differentially expressed proteins in effusive feline infectious peritonitis

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Scientific Reports 2025年第1期15卷 1-12页

作者： Moyadee, Wassamon Roytrakul, Sittiruk Jaresitthikunchai, Janthima Phaonakrop, Narumon Choowongkomon, Kiattawee Ploypetch, Sekkarin Tansakul, Natthasit Rattanasrisomporn, Amonpun Rattanasrisomporn, Jatuporn Graduate Program in Animal Health and Biomedical Sciences Faculty of Veterinary Medicine Kasetsart University Bangkok Thailand Department of Companion Animal Clinical Sciences Faculty of Veterinary Medicine Kasetsart University Bangkok Thailand National Center for Genetic Engineering and Biotechnology National Science and Technology Development Agency Pathum Thani Thailand Department of Biochemistry Faculty of Science Kasetsart University Bangkok Thailand Department of Clinical Sciences and Public Health Faculty of Veterinary Science Mahidol University Nakhon Pathom Thailand Department of Pharmacology Faculty of Veterinary Medicine Kasetsart University Bangkok Thailand Interdisciplinary of Genetic Engineering and Bioinformatics Graduate School Kasetsart University Bangkok Thailand

Feline infectious peritonitis (FIP) is a lethal, viral-induced immune-mediated disease that remains a challenge for diagnosis and treatment in cats. Proteomic profiling, which analyzes the protein content of biological samples, offers the potential to identify novel biomarkers that could improve the diagnosis and management of FIP. This study aims to assess the serum proteome and identify proteins that differentiate healthy cats from cats diagnosed with effusive FIP using liquid chromatography coupled with tandem mass spectrometry (LC–MS/MS). A total of 30 cats diagnosed with effusive FIP and 27 clinically normal cats were enrolled. Twenty-three proteins were significantly (p < 0.01, ≥ fivefold change in abundance) differentially expressed between cats with effusive FIP and controls. Among these, the P2X purinoceptor, DNA topoisomerase, Notch receptor 2, and cadherin-17 were identified as key proteins of interest in cats with effusive FIP. Our findings suggest that these differentially expressed proteins could serve as potential diagnostic biomarkers and therapeutic targets for FIP. However, further studies are needed to validate these findings and explore their potential applications. © The Author(s) 2025.

关键词： Biomarkers Cats Coronavirus Feline infectious peritonitis Proteomics Serum

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Melanoma Detection by AFM Indentation of Histological Specimens

Research Square

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Research Square 2021年

作者： Jeon, ByoungJun Jung, Hyo Gi Lee, Sang Won Lee, Gyudo Shim, Jung Hee Kim, Mi Ok Kim, Byung Jun Kim, Sang-Hyon Lee, Hyungbeen Lee, Sang Woo Yoon, Dae Sung Jo, Seong Jin Choi, Tae Hyun Lee, Wonseok Interdisciplinary Program for Bioengineering Seoul National University Seoul08826 Korea Republic of School of Biomedical Engineering Korea University Seoul02841 Korea Republic of Interdisciplinary Program in Precision Public Health Korea University Seoul02841 Korea Republic of Department of Biotechnology and Bioinformatics Korea University Sejong30019 Korea Republic of Department of Plastic and Reconstructive Surgery Research Services Seoul National University Bundang Hospital Seongnam13620 Korea Republic of Department of Plastic and Reconstructive Surgery Institute of Human Environment Interface Biology Seoul National University College of Medicine Seoul03087 Korea Republic of Department of Internal Medicine Keimyung University Dongsan Medical Center Daegu41931 Korea Republic of Department of Biomedical Engineering Yonsei University Wonju26493 Korea Republic of R&D Center of Curigin Ltd. Seoul04778 Korea Republic of Department of Dermatology Seoul National University College of Medicine Seoul03087 Korea Republic of Department of Electrical Engineering Korea National University of Transportation Chungju27469 Korea Republic of

Melanoma is visible unlike other types of cancer, but it is still challenging to diagnose correctly because of the difficulty in distinguishing between benign nevus and melanoma. We conducted a robust investigation of melanoma, identifying considerable differences in local elastic properties between nevus and melanoma tissues by using atomic force microscopy (AFM) indentation of histological specimens. Specifically, the histograms of the elasticity of melanoma displayed multimodal Gaussian distributions, exhibiting the heterogeneous mechanical properties, in contrast with the unimodal distributions of elasticity in the benign nevus. We identified this notable signature was consistent regardless of blotch incidence by sex, age, anatomical site (e.g., thigh, calf, arm, eyelid, and cheek), or cancer stage (I, IV, and V). In addition, we found that the non-linearity of the force-distance curves for melanoma is increased compared to benign nevus. We believe that AFM indentation of histological specimens may technically complement conventional histopathological analysis for earlier and more precise melanoma detection. © 2021, CC BY.

关键词： Elasticity

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BioBERT: A pre-trained biomedical language representation model for biomedical text mining

arXiv

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arXiv 2019年

作者： Lee, Jinhyuk Yoon, Wonjin Kim, Sungdong Kim, Donghyeon Kim, Sunkyu So, Chan Ho Kang, Jaewoo Department of Computer Science and Engineering Korea University Seoul02841 Korea Republic of Clova AI Research Naver Corp Seong-Nam13561 Korea Republic of Interdisciplinary Graduate Program in Bioinformatics Korea University Seoul02841 Korea Republic of

Motivation: Biomedical text mining is becoming increasingly important as the number of biomedical documents rapidly grows. With the progress in natural language processing (NLP), extracting valuable information from biomedical literature has gained popularity among researchers, and deep learning has boosted the development of effective biomedical text mining models. However, directly applying the advancements in NLP to biomedical text mining often yields unsatisfactory results due to a word distribution shift from general domain corpora to biomedical corpora. In this article, we investigate how the recently introduced pre-trained language model BERT can be adapted for biomedical corpora. Results: We introduce BioBERT (Bidirectional Encoder Representations from Transformers for Biomedical Text Mining), which is a domain-specific language representation model pre-trained on large-scale biomedical corpora. With almost the same architecture across tasks, BioBERT largely outperforms BERT and previous state-of-the-art models in a variety of biomedical text mining tasks when pre-trained on biomedical corpora. While BERT obtains performance comparable to that of previous state-of-the-art models, BioBERT significantly outperforms them on the following three representative biomedical text mining tasks: biomedical named entity recognition (0.62% F1 score improvement), biomedical relation extraction (2.80% F1 score improvement) and biomedical question answering (12.24% MRR improvement). Our analysis results show that pre-training BERT on biomedical corpora helps it to understand complex biomedical texts. Availability and implementation: We make the pre-trained weights of BioBERT freely available at https://github. com/naver/biobert-pretrained, and the source code for fine-tuning BioBERT available at https://***/dmis-lab/ biobert. Copyright © 2019, The Authors. All rights reserved.

关键词： Natural language processing systems

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HATS: A hierarchical graph attention network for stock movement prediction

arXiv

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arXiv 2019年

作者： Kim, Raehyun So, Chan Ho Jeong, Minbyul Lee, Sanghoon Kim, Jinkyu Kang, Jaewoo Department of Computer Science and Engineering Korea University 145 Anam-ro Seongbuk-gu Seoul02841 Korea Republic of Interdisciplinary Graduate Program in Bioinformatics Korea University 145 Anam-ro Seongbuk-gu Seoul02841 Korea Republic of

Many researchers both in academia and industry have long been interested in the stock market. Numerous approaches were developed to accurately predict future trends in stock prices. Recently, there has been a growing interest in utilizing graph-structured data in computer science research communities. Methods that use relational data for stock market prediction have been recently proposed, but they are still in their infancy. First, the quality of collected information from different types of relations can vary considerably. No existing work has focused on the effect of using different types of relations on stock market prediction or finding an effective way to selectively aggregate information on different relation types. Furthermore, existing works have focused on only individual stock prediction which is similar to the node classification task. To address this, we propose a hierarchical attention network for stock prediction (HATS) which uses relational data for stock market prediction. Our HATS method selectively aggregates information on different relation types and adds the information to the representations of each company. Specifically, node representations are initialized with features extracted from a feature extraction module. HATS is used as a relational modeling module with initialized node representations. Then, node representations with the added information are fed into a task-specific layer. Our method is used for predicting not only individual stock prices but also market index movements, which is similar to the graph classification task. The experimental results show that performance can change depending on the relational data used. HATS which can automatically select information outperformed all the existing methods. Copyright © 2019, The Authors. All rights reserved.

关键词： Aggregates

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Correction to: Population differentiated copy number variation of Bos taurus, Bos indicus and their African hybrids

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BMC genomics 2022年第1期23卷 207页

作者： Jisung Jang Endashaw Terefe Kwondo Kim Young Ho Lee Gurja Belay Abdulfatai Tijjani Jian-Lin Han Olivier Hanotte Heebal Kim Interdisciplinary Program in Bioinformatics Seoul National University Seoul Republic of Korea. Addis Ababa University MCMB Department Addis Ababa Ethiopia. International Livestock Research Institute (ILRI) Addis Ababa Ethiopia. Arsi University Asella Ethiopia. Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences Seoul National University Seoul Republic of Korea. The Centre for Tropical Livestock Genetics and Health (CTLGH) The Roslin Institute The University of Edinburgh Edinburgh UK. CAAS-ILRI Joint Laboratory on Livestock and Forage Genetic Resources Institute of Animal Science Chinese Academy of Agricultural Sciences (CAAS) Beijing China. Livestock Genetics Program International Livestock Research Institute (ILRI) Nairobi Kenya. School of Life Sciences University of Nottingham Nottingham UK. Interdisciplinary Program in Bioinformatics Seoul National University Seoul Republic of Korea. heebal@snu.ac.kr. Department of Agricultural Biotechnology and Research Institute of Agriculture and Life Sciences Seoul National University Seoul Republic of Korea. heebal@snu.ac.kr. eGnome Inc. Seoul South Korea. heebal@snu.ac.kr.

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