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Article ; Online: Type I Interferon Orchestrates Demand-Adapted Monopoiesis during Influenza A Virus Infection via STAT1-Mediated Upregulation of Macrophage Colony-Stimulating Factor Receptor Expression.

Lin, Sue-Jane / Lin, Kai-Min / Chen, Shi-Yo Jill / Ku, Chia-Chi / Huang, Chen-Wei / Huang, Chi-Hsiang / Gale, Michael / Tsai, Ching-Hwa

Journal of virology

2023 Volume 97, Issue 4, Page(s) e0010223

Abstract: Whether and how a local virus infection affects the hematopoietic system in the bone marrow is largely unknown, unlike with systemic infection. In this study, we showed that influenza A virus (IAV) infection leads to demand-adapted monopoiesis in the ... ...

Abstract	Whether and how a local virus infection affects the hematopoietic system in the bone marrow is largely unknown, unlike with systemic infection. In this study, we showed that influenza A virus (IAV) infection leads to demand-adapted monopoiesis in the bone marrow. The beta interferon (IFN-β) promoter stimulator 1 (IPS-1)-type I IFN-IFN-α receptor 1 (IFNAR1) axis-mediated signaling was found to induce the emergency expansion of the granulocyte-monocyte progenitor (GMP) population and upregulate the expression of the macrophage colony-stimulating factor receptor (M-CSFR) on bipotent GMPs and monocyte progenitors via the signal transducer and activator of transcription 1 (STAT1), leading to a scaled-back proportion of granulocyte progenitors. To further address the influence of demand-adapted monopoiesis on IAV-induced secondary bacterial infection, IAV-infected wild-type (WT) and
MeSH term(s)	Animals ; Humans ; Mice ; Influenza A virus/immunology ; Interferon Type I/immunology ; Receptor, Macrophage Colony-Stimulating Factor/genetics ; Receptor, Macrophage Colony-Stimulating Factor/immunology ; STAT1 Transcription Factor/genetics ; STAT1 Transcription Factor/immunology ; Up-Regulation ; Orthomyxoviridae Infections/immunology ; Hematopoiesis/immunology ; Granulocyte-Macrophage Progenitor Cells/immunology ; Streptococcus pneumoniae/immunology ; Pneumococcal Infections/immunology
Chemical Substances	Interferon Type I ; Receptor, Macrophage Colony-Stimulating Factor (EC 2.7.10.1) ; Stat1 protein, mouse ; STAT1 Transcription Factor
Language	English
Publishing date	2023-04-06
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	80174-4
ISSN	1098-5514 ; 0022-538X
ISSN (online)	1098-5514
ISSN	0022-538X
DOI	10.1128/jvi.00102-23
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Article: Reliable Off-Resonance Correction in High-Field Cardiac MRI Using Autonomous Cardiac B

Li, Xinqi / Huang, Yuheng / Malagi, Archana / Yang, Chia-Chi / Yoosefian, Ghazal / Huang, Li-Ting / Tang, Eric / Gao, Chang / Han, Fei / Bi, Xiaoming / Ku, Min-Chi / Yang, Hsin-Jung / Han, Hui

Bioengineering (Basel, Switzerland)

2024 Volume 11, Issue 3

Abstract: B0 field inhomogeneity is a long-lasting issue for Cardiac MRI (CMR) in high-field (3T and above) scanners. The inhomogeneous B0 fields can lead to corrupted image quality, prolonged scan time, and false diagnosis. B0 shimming is the most straightforward ...

Abstract	B0 field inhomogeneity is a long-lasting issue for Cardiac MRI (CMR) in high-field (3T and above) scanners. The inhomogeneous B0 fields can lead to corrupted image quality, prolonged scan time, and false diagnosis. B0 shimming is the most straightforward way to improve the B0 homogeneity. However, today's standard cardiac shimming protocol requires manual selection of a shim volume, which often falsely includes regions with large B0 deviation (e.g., liver, fat, and chest wall). The flawed shim field compromises the reliability of high-field CMR protocols, which significantly reduces the scan efficiency and hinders its wider clinical adoption. This study aims to develop a dual-channel deep learning model that can reliably contour the cardiac region for B0 shim without human interaction and under variable imaging protocols. By utilizing both the magnitude and phase information, the model achieved a high segmentation accuracy in the B0 field maps compared to the conventional single-channel methods (Dice score: 2D-mag = 0.866, 3D-mag = 0.907, and 3D-mag-phase = 0.938, all
Language	English
Publishing date	2024-02-23
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2746191-9
ISSN	2306-5354
ISSN	2306-5354
DOI	10.3390/bioengineering11030210
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Article ; Online: Evolution of Detecting Early Onset of Alzheimer's Disease: From Neuroimaging to Optical Immunoassays.

Hsiao, Wesley Wei-Wen / Angela, Stefanny / Le, Trong-Nghia / Ku, Chia-Chi / Hu, Po-Sheng / Chiang, Wei-Hung

Journal of Alzheimer's disease : JAD

2023 Volume 93, Issue 3, Page(s) 821–845

Abstract: Alzheimer's disease (AD) is a pathological disorder defined by the symptoms of memory loss and deterioration of cognitive abilities over time. Although the etiology is complex, it is mainly associated with the accumulation of toxic amyloid-β peptide (Aβ) ...

Abstract	Alzheimer's disease (AD) is a pathological disorder defined by the symptoms of memory loss and deterioration of cognitive abilities over time. Although the etiology is complex, it is mainly associated with the accumulation of toxic amyloid-β peptide (Aβ) aggregates and tau protein-induced neurofibrillary tangles (NFTs). Even now, creating non-invasive, sensitive, specific, and cost-effective diagnostic methods for AD remains challenging. Over the past few decades, polymers, and nanomaterials (e.g., nanodiamonds, nanogold, quantum dots) have become attractive and practical tools in nanomedicine for diagnosis and treatment. This review focuses on current developments in sensing methods such as enzyme-linked immunosorbent assay (ELISA) and surface-enhanced Raman scattering (SERS) to boost the sensitivity in detecting related biomarkers for AD. In addition, optical analysis platforms such as ELISA and SERS have found increasing popularity among researchers due to their excellent sensitivity and specificity, which may go as low as the femtomolar range. While ELISA offers easy technological usage and high throughput, SERS has the advantages of improved mobility, simple electrical equipment integration, and lower cost. Both portable optical sensing techniques are highly superior in terms of sensitivity, specificity, human application, and practicality, enabling the early identification of AD biomarkers.
MeSH term(s)	Humans ; Alzheimer Disease/diagnostic imaging ; Alzheimer Disease/pathology ; tau Proteins ; Amyloid beta-Peptides ; Enzyme-Linked Immunosorbent Assay ; Neuroimaging ; Biomarkers
Chemical Substances	tau Proteins ; Amyloid beta-Peptides ; Biomarkers
Language	English
Publishing date	2023-04-30
Publishing country	Netherlands
Document type	Journal Article ; Review ; Research Support, Non-U.S. Gov't
ZDB-ID	1440127-7
ISSN	1875-8908 ; 1387-2877
ISSN (online)	1875-8908
ISSN	1387-2877
DOI	10.3233/JAD-221202
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Article ; Online: Nanomaterial-based biosensors for avian influenza virus: A new way forward

Wei-Wen Hsiao, Wesley / Fadhilah, Gianna / Li, Zhengzhong / Endo, Ryu / Lin, Yu-Jou / Angela, Stefanny / Ku, Chia-Chi / Chang, Huan-Cheng / Chiang, Wei-Hung

Talanta. 2023 Dec., v. 265 p.124892-

2023

Abstract: Avian influenza virus (AIV) is a zoonotic virus that can be transmitted from animals to humans. Although human infections are rare, the virus has a high mortality rate when contracted. Appropriate detection methods are thus crucial for combatting this ... ...

Abstract	Avian influenza virus (AIV) is a zoonotic virus that can be transmitted from animals to humans. Although human infections are rare, the virus has a high mortality rate when contracted. Appropriate detection methods are thus crucial for combatting this pathogen. There is a growing demand for rapid, selective, and accurate methods of identifying the virus. Numerous biosensors have been designed and commercialized to detect AIV. However, they all have considerable shortcomings. Nanotechnology offers a new way forward. Nanomaterials produce more eco-friendly, rapid, and portable diagnostic systems. They also exhibit high sensitivity and selectivity while achieving a low detection limit (LOD). This paper reviews state-of-the-art nanomaterial-based biosensors for AIV detection, such as those composed of quantum dots, gold, silver, carbon, silica, nanodiamond, and other nanoparticles. It also offers insight into potential trial protocols for creating more effective methods of identifying AIV and discusses key issues associated with developing nanomaterial-based biosensors.
Keywords	Influenza A virus ; biosensors ; carbon ; detection limit ; gold ; humans ; mortality ; nanodiamonds ; nanoparticles ; pathogens ; silica ; silver ; viruses ; Avian influenza virus ; Biomarker ; Biosensor ; Nanomaterial ; Point-of-care testing
Language	English
Dates of publication	2023-12
Publishing place	Elsevier B.V.
Document type	Article ; Online
ZDB-ID	1500969-5
ISSN	1873-3573 ; 0039-9140
ISSN (online)	1873-3573
ISSN	0039-9140
DOI	10.1016/j.talanta.2023.124892
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Nanomaterial-based biosensors for avian influenza virus: A new way forward.

Wei-Wen Hsiao, Wesley / Fadhilah, Gianna / Lee, Cheng-Chung / Endo, Ryu / Lin, Yu-Jou / Angela, Stefanny / Ku, Chia-Chi / Chang, Huan-Cheng / Chiang, Wei-Hung

Talanta

2023 Volume 265, Page(s) 124892

Abstract	Avian influenza virus (AIV) is a zoonotic virus that can be transmitted from animals to humans. Although human infections are rare, the virus has a high mortality rate when contracted. Appropriate detection methods are thus crucial for combatting this pathogen. There is a growing demand for rapid, selective, and accurate methods of identifying the virus. Numerous biosensors have been designed and commercialized to detect AIV. However, they all have considerable shortcomings. Nanotechnology offers a new way forward. Nanomaterials produce more eco-friendly, rapid, and portable diagnostic systems. They also exhibit high sensitivity and selectivity while achieving a low detection limit (LOD). This paper reviews state-of-the-art nanomaterial-based biosensors for AIV detection, such as those composed of quantum dots, gold, silver, carbon, silica, nanodiamond, and other nanoparticles. It also offers insight into potential trial protocols for creating more effective methods of identifying AIV and discusses key issues associated with developing nanomaterial-based biosensors.
MeSH term(s)	Animals ; Humans ; Influenza in Birds/diagnosis ; Influenza A virus ; Biosensing Techniques/methods ; Nanostructures ; Nanoparticles
Language	English
Publishing date	2023-07-05
Publishing country	Netherlands
Document type	Journal Article ; Review
ZDB-ID	1500969-5
ISSN	1873-3573 ; 0039-9140
ISSN (online)	1873-3573
ISSN	0039-9140
DOI	10.1016/j.talanta.2023.124892
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Article ; Online: FluConvert and IniFlu

Chin-Rur Yang / Chwan-Chuen King / Li-Yu Daisy Liu / Chia-Chi Ku

BMC Bioinformatics, Vol 21, Iss 1, Pp 1-

a suite of integrated software to identify novel signatures of emerging influenza viruses with increasing risk

2020 Volume 14

Abstract: Abstract Background The pandemic threat of influenza has attracted great attention worldwide. To assist public health decision-makers, new suites of tools are needed to rapidly process and combine viral information retrieved from public-domain databases ... ...

Abstract	Abstract Background The pandemic threat of influenza has attracted great attention worldwide. To assist public health decision-makers, new suites of tools are needed to rapidly process and combine viral information retrieved from public-domain databases for a better risk assessment. Results Using our recently developed FluConvert and IniFlu software, we automatically processed and rearranged sequence data by standard viral nomenclature, determined the group-related consensus sequences, and identified group-specific polygenic signatures. The software possesses powerful ability to integrate viral, clinical, and epidemiological data. We demonstrated that both multiple basic amino acids at the cleavage site of the HA gene and also at least 11 more evidence-based viral amino acid substitutions present in global highly pathogenic avian influenza H5N2 viruses during the years 2009–2016 that are associated with viral virulence and human infection. Conclusions FluConvert and IniFlu are useful to monitor and assess all subtypes of influenza viruses with pandemic potential. These programs are implemented through command-line and user-friendly graphical interfaces, and identify molecular signatures with virological, epidemiological and clinical significance. FluConvert and IniFlu are available at https://apps.flutures.com or https://github.com/chinrur/FluConvert_IniFlu
Keywords	Highly pathogenic avian influenza viruses ; H5N2 ; Viral and immunological informatics ; Risk assessment ; Pandemic potential ; Computer applications to medicine. Medical informatics ; R858-859.7 ; Biology (General) ; QH301-705.5
Subject code	028
Language	English
Publishing date	2020-07-01T00:00:00Z
Publisher	BMC
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: FluConvert and IniFlu: a suite of integrated software to identify novel signatures of emerging influenza viruses with increasing risk.

Yang, Chin-Rur / King, Chwan-Chuen / Liu, Li-Yu Daisy / Ku, Chia-Chi

BMC bioinformatics

2020 Volume 21, Issue 1, Page(s) 316

Abstract: Background: The pandemic threat of influenza has attracted great attention worldwide. To assist public health decision-makers, new suites of tools are needed to rapidly process and combine viral information retrieved from public-domain databases for a ... ...

Abstract	Background: The pandemic threat of influenza has attracted great attention worldwide. To assist public health decision-makers, new suites of tools are needed to rapidly process and combine viral information retrieved from public-domain databases for a better risk assessment. Results: Using our recently developed FluConvert and IniFlu software, we automatically processed and rearranged sequence data by standard viral nomenclature, determined the group-related consensus sequences, and identified group-specific polygenic signatures. The software possesses powerful ability to integrate viral, clinical, and epidemiological data. We demonstrated that both multiple basic amino acids at the cleavage site of the HA gene and also at least 11 more evidence-based viral amino acid substitutions present in global highly pathogenic avian influenza H5N2 viruses during the years 2009-2016 that are associated with viral virulence and human infection. Conclusions: FluConvert and IniFlu are useful to monitor and assess all subtypes of influenza viruses with pandemic potential. These programs are implemented through command-line and user-friendly graphical interfaces, and identify molecular signatures with virological, epidemiological and clinical significance. FluConvert and IniFlu are available at https://apps.flutures.com or https://github.com/chinrur/FluConvert_IniFlu.
MeSH term(s)	Amino Acid Sequence ; Animals ; Birds ; Hemagglutinin Glycoproteins, Influenza Virus/chemistry ; Hemagglutinin Glycoproteins, Influenza Virus/genetics ; Influenza A Virus, H5N2 Subtype/genetics ; Influenza A Virus, H5N2 Subtype/pathogenicity ; Influenza in Birds/immunology ; Influenza in Birds/pathology ; Influenza in Birds/virology ; Risk Assessment ; Sequence Alignment ; User-Computer Interface ; Virulence
Chemical Substances	Hemagglutinin Glycoproteins, Influenza Virus
Keywords	covid19
Language	English
Publishing date	2020-07-18
Publishing country	England
Document type	Journal Article
ZDB-ID	2041484-5
ISSN	1471-2105 ; 1471-2105
ISSN (online)	1471-2105
ISSN	1471-2105
DOI	10.1186/s12859-020-03650-y
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Article ; Online: Correction to: Life-Threatening Enterovirus 71 Encephalitis in Unrelated Children with Autosomal Dominant TLR3 Deficiency.

Kuo, Chen-Yen / Ku, Cheng-Lung / Lim, Hye-Kyung / Hsia, Shao-Hsuan / Lin, Jainn-Jim / Lo, Chia-Chi / Ding, Jing-Ya / Kuo, Rei-Lin / Casanova, Jean-Laurent / Zhang, Shen-Ying / Chang, Luan-Yin / Lin, Tzou-Yien

Journal of clinical immunology

2022 Volume 42, Issue 6, Page(s) 1347

Language	English
Publishing date	2022-04-25
Publishing country	Netherlands
Document type	Published Erratum
ZDB-ID	779361-3
ISSN	1573-2592 ; 0271-9142
ISSN (online)	1573-2592
ISSN	0271-9142
DOI	10.1007/s10875-022-01259-9
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Article ; Online: Development of an Economical DNA Delivery System by "Acufection" and its Application to Skin Research.

Lin, Yu-Jei / Lee, Tsung-Lin / Ku, Chia-Chi

Journal of visualized experiments : JoVE

2017 , Issue 122

Abstract: Dysregulation of immune response in skin is associated with numerous human skin disorders. Direct transfer of immune-related genes into skin tissue is a fascinating approach to investigate immune modulation of cutaneous inflammation in mouse models of ... ...

Abstract	Dysregulation of immune response in skin is associated with numerous human skin disorders. Direct transfer of immune-related genes into skin tissue is a fascinating approach to investigate immune modulation of cutaneous inflammation in mouse models of human diseases. Here we present a cost-effective protocol that delivered naked DNA in mouse skin and leads to transgene expression. The method is coined "acufection", denoting acupuncture-mediated DNA transfection. To perform acufection, mouse skin was first infused with DNA in phosphate-buffered saline (PBS) and then pricked lightly with a bundle of acupuncture needles to facilitate the absorption of DNA and transfection into cells. The plasmid DNA is presumably taken up by the keratinocyte and dendritic cells (DCs) in the skin and expressed into protein. Mechanical prick with the needles per se did not cause skin damage or induce keratinocyte activation. The expression of the transfected genes was detected in the skin at both transcriptional and translational levels following acufection for 2 days and maintained up to 7 days. The primary goal for the development of this acufection method was to investigate a previously undefined isoform of IL-15. Using this method, an alternatively spliced IL-15 isoform with partially deleted exon 7 (IL-15ΔE7) was expressed in the skin and subsequently treated with a Toll-like receptor 7 (TLR7) agonist, imiquimod (IMQ), to induce inflammation. Acufection-delivered IL-15ΔE7 in skin suppressed keratinocyte proliferation, epidermal thickness and neutrophil recruitment in IMQ-induced cutaneous inflammation. With increasing interest in identifying the regulatory mechanisms of cutaneous inflammation, the protocol described here provides a cost effective and versatile alternative to the gene gun system or microseeding for DNA delivery in vivo. It may potentially allow discovery of the function of a novel gene in the skin or for investigating new treatment for cutaneous diseases.
MeSH term(s)	Alternative Splicing ; Aminoquinolines/adverse effects ; Animals ; Cell Proliferation/genetics ; DNA/administration & dosage ; DNA/genetics ; Dendritic Cells ; Drug Eruptions/genetics ; Drug Eruptions/pathology ; Epidermal Cells ; Female ; Humans ; Imiquimod ; Interleukin-15/genetics ; Interleukin-15/metabolism ; Keratinocytes/cytology ; Keratinocytes/drug effects ; Membrane Glycoproteins/agonists ; Mice, Inbred C57BL ; Mice, Mutant Strains ; Mice, Transgenic ; Skin/drug effects ; Skin/immunology ; Toll-Like Receptor 7/agonists ; Transfection/instrumentation ; Transfection/methods ; Transgenes
Chemical Substances	Aminoquinolines ; Interleukin-15 ; Membrane Glycoproteins ; Tlr7 protein, mouse ; Toll-Like Receptor 7 ; DNA (9007-49-2) ; Imiquimod (P1QW714R7M)
Language	English
Publishing date	2017-04-19
Publishing country	United States
Document type	Journal Article ; Video-Audio Media
ISSN	1940-087X
ISSN (online)	1940-087X
DOI	10.3791/55206
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Article: The Impact of Chronic Pancreatitis on the Occurrences of Human Cancers: Real-World Data.

Hsieh, Chi-Chia / Fu, Yi-Hsiu / Ku, Nien-En / Hsia, Chia-Chun / Hung, Yu-Tung / Hsu, Tzu-Ju / Chen, Sung-Hsiung / Kuo, Shu-Jui

Journal of clinical medicine

2023 Volume 12, Issue 15

Abstract: Chronic pancreatitis (CP) may induce systemic inflammation, potentially increasing cancer susceptibility. However, the link between CP and extra-pancreatic cancer remains underexplored. Employing Taiwanese National Health Insurance Database data from ... ...

Abstract	Chronic pancreatitis (CP) may induce systemic inflammation, potentially increasing cancer susceptibility. However, the link between CP and extra-pancreatic cancer remains underexplored. Employing Taiwanese National Health Insurance Database data from 2000 to 2017, we compared 5394 CP patients with 21,576 non-CP individuals through propensity score matching. CP patients exhibited a significantly higher cancer risk (adjusted hazard ratio (aHR) of 1.32 for females and 1.68 for males) and cumulative incidence (
Language	English
Publishing date	2023-08-03
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2662592-1
ISSN	2077-0383
ISSN	2077-0383
DOI	10.3390/jcm12155102
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