Article
Medicine, Research & Experimental
Ren-qi Yao, Zhi-xuan Li, Li-xue Wang, Yu-xuan Li, Li-yu Zheng, Ning Dong, Yao Wu, Zhao-fan Xia, Timothy R. Billiar, Chao Ren, Yong-ming Yao
Summary: In this study, the heterogeneity of immune cell subsets during sepsis was analyzed using single-cell RNA sequencing. A unique subcluster of dendritic cells called "mregDC" was identified and its presence and function in the disease were confirmed. Furthermore, the study found that the mregDC program was initiated through specific intracellular signaling pathways within 24 hours of septic challenge.
Article
Chemistry, Multidisciplinary
Kurt Wagner, Muhammad A. Sami, Corey Norton, Jonathan McCoy, Umer Hassan
Summary: The study evaluated the relationship between blood lactate levels and neutrophil phagocytic activity at a single-cell level, revealing higher phagocytic activity in the high-risk group. Although interesting findings were highlighted, further integration of individual medical records is needed for personalized insights into phagocytic activity.
Article
Biochemistry & Molecular Biology
Worawat Songjang, Nitchawat Paiyabhroma, Noppadon Jumroon, Arunya Jiraviriyakul, Nitirut Nernpermpisooth, Porrnthanate Seenak, Sarawut Kumphune, Siriwan Thaisakun, Narumon Phaonakrop, Sittiruk Roytrakul, Panyupa Pankhong
Summary: Sepsis, characterized by dysregulated immune response and vascular endothelial cell injury, is a significant public health problem. This study explored the potential of DAMPs as novel biomarkers for early sepsis diagnosis. Using an in vitro model, proteomic profiling of specific DAMPs in vascular endothelial cells in response to early LPS stimulation was conducted, revealing potential protein candidates for early sepsis diagnosis.
Article
Materials Science, Multidisciplinary
Georg Linz, Sebastian Bernhard Rauer, Yasmin Kuhn, Simon Wennemaring, Laura Siedler, Smriti Singh, Matthias Wessling
Summary: Cell culture experiments can benefit from a novel 3D-printed bioreactor that enables epithelial cell culture experiments and online barrier monitoring through electrical impedance spectroscopy. The bioreactor design emphasizes the importance of a homogeneous electric field and has been demonstrated to be functional and practical through experiments.
ADVANCED MATERIALS TECHNOLOGIES
(2021)
Article
Engineering, Multidisciplinary
Lu Yang, Hongtao Wu, Yongnian Zhang, Hanyang Huang, Kai Liu, Bai Chen, Jiafeng Yao
Summary: A method for monitoring medaka embryo development using differential Electrical Impedance Spectroscopy (EIS) is proposed, which can extract the electrical characteristics of the embryo while eliminating the influence of electrodes and suspension. Simulation and experimental results demonstrate that this method can accurately reflect the morphological and physiological changes of the embryo.
Article
Immunology
Peter A. Szabo, Pranay Dogra, Joshua Gray, Steven B. Wells, Thomas J. Connors, Stuart P. Weisberg, Izabela Krupska, Rei Matsumoto, Maya M. L. Poon, Emma Idzikowski, Sinead E. Morris, Chloe Pasin, Andrew J. Yates, Amy Ku, Michael Chait, Julia Davis-Porada, Xinzheng Guo, Jing Zhou, Matthew Steinle, Sean Mackay, Anjali Saqi, Matthew R. Baldwin, Peter A. Sims, Donna L. Farber
Summary: This study investigated the immune responses in the respiratory tract and blood of severe COVID-19 patients, revealing that T cells in the airways showed protective profiles while myeloid cells exhibited hyperinflammatory signatures. These findings provide important insights for understanding and treating COVID-19 lung pathology.
Article
Endocrinology & Metabolism
Yan Cao, Zhengyu Liu, Wenfeng Ma, Chen Fang, Yanfang Pei, Yingxia Jing, Jie Huang, Xiaotong Han, Weiwei Xiao
Summary: This study used metabolomic profiling to distinguish between septic patients with and without cardiac dysfunction, and identified kynurenic acid and gluconolactone as potential biomarkers for cardiac dysfunction, as well as kynurenic acid and galactitol as prognostic markers for survivors and non-survivors in the cardiac dysfunction group.
FRONTIERS IN ENDOCRINOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Marek Bartosovic, Goncalo Castelo-Branco
Summary: The nano-CUT&Tag (nano-CT) technique enables the mapping of three epigenetic features at single-cell resolution using nanobody-Tn5 fusion proteins. It has higher sensitivity and more fragments per cell compared to single-cell CUT&Tag, allowing for better discrimination of cell types and states. Nano-CT provides unique insights into epigenetic landscapes in complex biological systems at the single-cell level.
NATURE BIOTECHNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Xikang Feng, Lingxi Chen, Yuhao Qing, Ruikang Li, Chaohui Li, Shuai Cheng Li
Summary: SCYN, a CNV segmentation method powered with dynamic programming, demonstrates precise segmentation in silico dataset and accurate copy number inferring on triple negative breast cancer scDNA data as well as newly emerged 10x Genomics CNV solution. It is significantly faster than the state of the art tool when dealing with datasets of approximately 2000 cells.
Article
Biochemical Research Methods
Fengjuan Liu, Shengliang Ye, Peng Jiang, Wei Zhang, Zongkui Wang, Changqing Li
Summary: This study explored the role of extracellular vesicles (EVs) in senescence/inflammaging through cellular senescence model and proteomics analysis. The results showed changes in EVs proteins related to inflammation signaling pathways and cell proliferation. EVs could serve as information carrier for further research on the pathogenesis and progression of senescence/inflammaging.
JOURNAL OF PROTEOMICS
(2022)
Article
Biochemistry & Molecular Biology
Veronica Mardegan, Giuseppe Giordano, Matteo Stocchero, Paola Pirillo, Gabriele Poloniato, Enrica Donadel, Sabrina Salvadori, Carlo Giaquinto, Elena Priante, Eugenio Baraldi
Summary: The study compared the metabolic profiles of plasma and urine samples from preterm neonates at birth, revealing disruptions in glutathione and tryptophan metabolic pathways in neonates with early-onset sepsis (EOS). These findings suggest that metabolites from these pathways may serve as promising new biomarkers for neonatal sepsis.
Article
Neurosciences
Zhenhang Xu, Shu Tu, Caroline Pass, Yan Zhang, Huizhan Liu, Jack Diers, Yusi Fu, David Z. Z. He, Jian Zuo
Summary: This study used single-cell RNA sequencing to profile the transcriptome changes of mouse cochlear cells during maturation. The results provide valuable resources for investigating cochlear maturation at the single-cell resolution and identify two genes, Miat and Pcp4, associated with maturation.
FRONTIERS IN CELLULAR NEUROSCIENCE
(2022)
Article
Biotechnology & Applied Microbiology
Evgenij Fiskin, Caleb A. Lareau, Leif S. Ludwig, Gokcen Eraslan, Feimei Liu, Aaron M. Ring, Ramnik J. Xavier, Aviv Regev
Summary: The study introduces a novel method called PHAGE-ATAC for simultaneous single-cell measurements of protein levels and chromatin accessibility profiles, using mitochondrial DNA-based clonal tracing. PHAGE-ATAC is utilized for multimodal analysis in primary human immune cells, sample multiplexing, intracellular protein analysis, and detection of SARS-CoV-2 spike protein. Additionally, a synthetic high-complexity phage library is constructed for selection of antigen-specific nanobodies, enabling protein detection, cell characterization, and screening with single-cell genomics.
NATURE BIOTECHNOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Wai Lim Ku, Lixia Pan, Yaqiang Cao, Weiwu Gao, Keji Zhao
Summary: iscChIC-seq is a multiplex indexing method for single-cell analysis, capable of rapidly analyzing histone modifications in a large number of single cells. It successfully distinguishes different cell types within white blood cells and has the potential for broad applications.
Review
Chemistry, Analytical
Ketki Bagwe, Noah Gould, Kendall R. Johnson, Alexander R. Ivanov
Summary: Tissues and cell populations exhibit high levels of heterogeneity at the cellular level, making it important to analyze smaller sample sizes to capture subtle differences between cells. Capillary electrophoresis coupled with mass spectrometry (CE-MS) is a powerful technique for proteomics and metabolomics analysis at the single-cell level, and this review focuses on its applications and recent advances in sample preparation, separation, MS acquisition, and data analysis.
TRAC-TRENDS IN ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Multidisciplinary
Lingyan Gong, Chayakorn Petchakup, Pujiang Shi, Pei Leng Tan, Lay Poh Tan, Chor Yong Tay, Han Wei Hou
Summary: A novel microfluidic approach for label-free and continuous-flow monitoring of single spheroid/microcarrier based on electrical impedance spectroscopy is reported, with unique impedance signatures identified for optimal spheroid growth and viability monitoring. The platform offers great versatility for multi-parametric analysis of spheroids/microcarriers at high throughput, and can be integrated into bioreactors for long-term and remote monitoring of biomass and cell quality.
Article
Chemistry, Analytical
Leicheng Zhang, Tengfei Xu, Jingtao Zhang, Stephen Choong Chee Wong, Mark Ritchie, Han Wei Hou, Yulan Wang
Summary: The study proposes a novel strategy integrating spiral inertial microfluidics and ion mobility mass spectrometry for single-cell metabolite detection and identification. The technology successfully screened the metabolic profiles of different types of cancer cells, improving confidence in metabolite identification. This approach offers a simple and efficient method for single-cell lipid profiling, with additional ion mobility separation significantly enhancing the confidence toward identification of metabolites.
ANALYTICAL CHEMISTRY
(2021)
Article
Chemistry, Analytical
Chayakorn Petchakup, Paul Edward Hutchinson, Hui Min Tay, Sheng Yuan Leong, King Ho Holden Li, Han Wei Hou
Summary: This study presents a new method for studying lymphocytes based on impedance, which can quickly screen the responses of specific antigen-specific T lymphocytes and be used for the characterization of host immunity and the diagnosis of infectious diseases.
SENSORS AND ACTUATORS B-CHEMICAL
(2021)
Article
Medicine, Research & Experimental
Hyunwook Lee, Qinqin Fei, Adam Streicher, Wenjuan Zhang, Colleen Isabelle, Pragi Patel, Hilaire C. Lam, Antonio Arciniegas-Rubio, Miguel Pinilla-Vera, Diana P. Amador-Munoz, Diana Barragan-Bradford, Angelica Higuera-Moreno, Rachel K. Putman, Lynette M. Sholl, Elizabeth P. Henske, Christopher M. Bobba, Natalia Higuita-Castro, Emily M. Shalosky, R. Duncan Hite, John W. Christman, Samir N. Ghadiali, Rebecca M. Baron, Joshua A. Englert
Summary: The study demonstrates that activation of mTORC1 during mechanical ventilation exacerbates lung injury, and inhibition of this pathway may mitigate ventilator-induced lung injury during ARDS. By inhibiting mTORC1, it is possible to alleviate lung damage caused by mechanical ventilation.
Article
Cell Biology
Kuin Tian Pang, Mean Ghim, Chenghao Liu, Hui Min Tay, Chee Wai Fhu, Rui Ning Chia, Beiying Qiu, Padmini Sarathchandra, Adrian H. Chester, Magdi H. Yacoub, Fiona L. Wilkinson, Ria Weston, Christina M. Warboys, Han Wei Hou, Peter D. Weinberg, Xiaomeng Wang
Summary: Elevated levels of Leucine-Rich Alpha-2-Glycoprotein1 (LRG1) are found in patients with inflammatory, autoimmune, and cardiovascular diseases. LRG1 is highly expressed in stenotic arteries' endothelial cells and its expression in this context is shear-dependent and TNF-alpha-inducible. Mechanistically, LRG1 inhibits TNF-alpha-induced activation of NF-kappa B signaling by promoting shedding of TNFR1 and subsequent ADAM10 activation, thereby affecting monocyte adhesion and transendothelial migration.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Biology
Kia Joo Puan, Boris San Luis, Nurhashikin Yusof, Dilip Kumar, Anand Kumar Andiappan, Wendy Lee, Samanta Cajic, Dragana Vuckovic, Jing De Chan, Tobias Dollner, Han Wei Hou, Yunxuan Jiang, Chao Tian, Erdmann Rapp, Michael Poidinger, De Yun Wang, Nicole Soranzo, Bernett Lee, Olaf Rotzschke
Summary: The researchers found that FUT6 deficiency results in the loss of the tetrasaccharide sLex on the surface of basophils, causing cells to be less sticky and therefore less able to form the necessary adhesions to drive the allergic reaction.
COMMUNICATIONS BIOLOGY
(2021)
Article
Chemistry, Multidisciplinary
Sheng Yuan Leong, Hong Boon Ong, Hui Min Tay, Fang Kong, Megha Upadya, Lingyan Gong, Ming Dao, Rinkoo Dalan, Han Wei Hou
Summary: Extracellular vesicles are considered as next generation diagnostic biomarkers due to their disease-specific biomolecular cargoes and importance in cell-cell communications. This study presents a microfluidic platform for EV-protein fractionation using size exclusion chromatography. The device shows excellent performance in isolating EVs from biological samples and has been validated for clinical applications.
Article
Chemistry, Analytical
Chengxun Su, Yon Jin Chuah, Hong Boon Ong, Hui Min Tay, Rinkoo Dalan, Han Wei Hou
Summary: Incorporation of ECM and hydrogel in microfluidic cell culture platforms is crucial for creating a physiological cell microenvironment and establishing 3D co-culture models. The developed hydrogel patterning method based on stepped heights allows for easy adaptation in both enclosed microchannels and open surfaces, making it suitable for in-gel cultures of larger 3D cellular spheroids or microtissues.
Article
Chemistry, Analytical
Yunjie Deng, Jaime Alvarez Duque, Chengxun Su, Yuqi Zhou, Masako Nishikawa, Ting-Hui Xiao, Yutaka Yatomi, Han Wei Hou, Keisuke Goda
Summary: This study used an in vitro microfluidic stenosis model and an optical time-stretch imaging system to observe shear-induced platelet aggregation. The results showed a significant enhancement in platelet aggregation when stenosis and an agonist were present, suggesting a synergistic effect of atherogenic blood flow disturbance and circulating factors on platelet activation.
SENSORS AND ACTUATORS B-CHEMICAL
(2022)
Article
Chemistry, Multidisciplinary
Chayakorn Petchakup, Haoning Yang, Lingyan Gong, Linwei He, Hui Min Tay, Rinkoo Dalan, Aram J. Chung, King Ho Holden Li, Han Wei Hou
Summary: This study reports an optics-free impedance-deformability cytometer for multiparametric single cell mechanophenotyping. By profiling human neutrophils, distinct differences in multimodal impedance signatures under various biochemical stimulations were observed.
Article
Biochemical Research Methods
Yunjie Deng, Hui Min Tay, Yuqi Zhou, Xueer Fei, Xuke Tang, Masako Nishikawa, Yutaka Yatomi, Han Wei Hou, Ting-Hui Xiao, Keisuke Goda
Summary: Vascular stenosis caused by atherosclerosis leads to platelet activation and aggregation, resulting in thrombus formation. Antiplatelet drugs are commonly used but may not prevent recurrent thrombotic events due to limited understanding of their efficacy in the complex hemodynamic environment. We propose and demonstrate a method involving a 3D stenosis microfluidic chip and optical time-stretch quantitative phase imaging system for studying the efficacy of antiplatelet drugs under stenosis. Our method simulates the flow environment of vascular stenosis and enables high-resolution and statistical analysis of platelet aggregates. This method can assist in developing optimal pharmacologic strategies for patients with atherosclerosis.
Article
Chemistry, Multidisciplinary
Chayakorn Petchakup, Yuan Yi Constance Chen, Hui Min Tay, Hong Boon Ong, Pei Yun Hon, Partha Pratim De, Tsin Wen Yeo, King Ho Holden Li, Shawn Vasoo, Han Wei Hou
Summary: Researchers developed a microfluidic inertial-impedance cytometry technique for label-free rapid neutrophil sorting and impedance profiling from urine. This technique allows for quick diagnosis of urinary tract infection by analyzing neutrophil electrical signatures in urine samples. The developed platform has the potential to assess disease severity in UTI and other urologic diseases.
Article
Biochemical Research Methods
Chayakorn Petchakup, Siong Onn Wong, Rinkoo Dalan, Han Wei Hou
Summary: Neutrophils, which are the most abundant circulating white blood cells, release DNA to eliminate pathogenic threats. The conventional methods for quantifying neutrophil extracellular traps (NETs) are expensive and time-consuming. In this study, a novel virtual staining method using deep convolutional neural networks was employed to quantify NETs without labeling. The accuracy of the model was optimized and validated using various reconstruction metrics. The model successfully detected different NET profiles for different treatments, demonstrating its potential for clinical research and disease testing.
Article
Engineering, Environmental
Melissa Kao Hui Lee, Hong Kit Lim, Chengxun Su, Jie Yan Cheryl Koh, Magdiel Inggrid Setyawati, Kee Woei Ng, Han Wei Hou, Chor Yong Tay
Summary: This study used a three-dimensional biomimetic microfluidic lung-on-chip platform and RNA sequencing to investigate the effects of two model nanoparticles on airway epithelium cells. It was found that even low-level exposure to these nanoparticles triggered chemotaxis of lung fibroblasts and induced a transcriptomic response associated with the development of lung fibrosis. These findings provide new insights into the early acute events of respiratory harm caused by environmental nanoparticles exposure.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2023)
Article
Biochemical Research Methods
Chengxun Su, Nishanth Venugopal Menon, Xiaohan Xu, Yu Rong Teo, Huan Cao, Rinkoo Dalan, Chor Yong Tay, Han Wei Hou
Summary: A novel microfluidic endothelial cell (EC)-smooth muscle cell (SMC) 3D co-culture platform was introduced to model early atherosclerosis by replicating the structural and biological aspects of the human arterial wall. The study demonstrated the atheroprotective effects of vitamin D and metformin in mitigating cytokine-induced monocyte-EC adhesion and SMC migration, showing potential for drug screening applications. Overall, the developed arterial wall model allows for quantitative and multi-factorial studies of EC and SMC phenotype in an atherogenic environment.
