keyword
https://read.qxmd.com/read/38536819/stem-cell-derived-vessels-on-chip-for-cardiovascular-disease-modeling
#1
JOURNAL ARTICLE
Maren Marder, Caroline Remmert, Julius A Perschel, Munkhtur Otgonbayar, Christine von Toerne, Stefanie Hauck, Judith Bushe, Annette Feuchtinger, Bilal Sheikh, Michel Moussus, Matthias Meier
The metabolic syndrome is accompanied by vascular complications. Human in vitro disease models are hence required to better understand vascular dysfunctions and guide clinical therapies. Here, we engineered an open microfluidic vessel-on-chip platform that integrates human pluripotent stem cell-derived endothelial cells (SC-ECs). The open microfluidic design enables seamless integration with state-of-the-art analytical technologies, including single-cell RNA sequencing, proteomics by mass spectrometry, and high-resolution imaging...
March 26, 2024: Cell Reports
https://read.qxmd.com/read/38535990/rna-splicing-regulator-eif3d-regulates-the-tumor-microenvironment-through-immunogene-related-alternative-splicing-in-head-and-neck-squamous-cell-carcinoma
#2
JOURNAL ARTICLE
Dandan Lu, Mijti Mihoayi, Yimin Ablikim, Abdeyrim Arikin
Study finds that eukaryotic translation initiation factor 3 subunit D (EIF3D) may play an important role in aberrant alternative splicing (AS) events in tumors. AS possesses a pivotal role in both tumour progression and the constitution of the tumour microenvironment (TME). Regrettably, our current understanding of AS remains circumscribed especially in the context of immunogene-related alternative splicing (IGAS) profiles within Head and Neck Squamous Cell Carcinoma (HNSC). In this study, we comprehensively analyzed the function and mechanism of action of EIF3D by bioinformatics analysis combined with in vitro cellular experiments, and found that high expression of EIF3D in HNSC was associated with poor prognosis of overall survival (OS) and progression-free survival (PFS)...
March 25, 2024: Aging
https://read.qxmd.com/read/38534397/variation-of-structure-and-cellular-functions-of-type-ia-topoisomerases-across-the-tree-of-life
#3
REVIEW
Kemin Tan, Yuk-Ching Tse-Dinh
Topoisomerases regulate the topological state of cellular genomes to prevent impediments to vital cellular processes, including replication and transcription from suboptimal supercoiling of double-stranded DNA, and to untangle topological barriers generated as replication or recombination intermediates. The subfamily of type IA topoisomerases are the only topoisomerases that can alter the interlinking of both DNA and RNA. In this article, we provide a review of the mechanisms by which four highly conserved N-terminal protein domains fold into a toroidal structure, enabling cleavage and religation of a single strand of DNA or RNA...
March 21, 2024: Cells
https://read.qxmd.com/read/38532632/m6a-mediated-molecular-patterns-and-tumor-microenvironment-infiltration-characterization-in-nasopharyngeal-carcinoma
#4
JOURNAL ARTICLE
Yong Wang, Lisha Peng, Feng Wang
N6-methyladenosine (m6A) is the most predominant RNA epigenetic regulation in eukaryotic cells. Numerous evidence revealed that m6A modification exerts a crucial role in the regulation of tumor microenvironment (TME) cell infiltration in several tumors. Nevertheless, the potential role and mechanism of m6A modification in nasopharyngeal carcinoma (NPC) remains unknown. mRNA expression data and clinical information from GSE102349, and GSE53819 datasets obtained from Gene Expression Omnibus (GEO) was used for differential gene expression and subsequent analysis...
December 31, 2024: Cancer Biology & Therapy
https://read.qxmd.com/read/38531664/poor-clinical-outcomes-and-immunoevasive-contexture-in-cd161-cd8-t-cells-barren-human-pancreatic-cancer
#5
JOURNAL ARTICLE
Qiangda Chen, Hanlin Yin, Zhenlai Jiang, Taochen He, Yuqi Xie, Weilin Mao, Jiande Han, Siyao Liu, Wenhui Lou, Wenchuan Wu, Joseph R Habib, Jun Yu, Liang Liu, Ning Pu
BACKGROUND: The role of CD161 expression on CD8+ T cells in tumor immunology has been explored in a few studies, and the clinical significance of CD161+ CD8+ T cells in pancreatic ductal adenocarcinoma (PDAC) remains unclear. This study seeks to clarify the prognostic value and molecular characteristics linked to CD161+ CD8+ T cell infiltration in PDAC. METHODS: This study included 186 patients with confirmed PDAC histology after radical resection. CD161+ CD8+ T cell infiltration was assessed using immunofluorescence staining on tumor microarrays...
March 26, 2024: Journal for Immunotherapy of Cancer
https://read.qxmd.com/read/38529720/upregulation-and-epigenetic-modification-of-the-creatine-transporter-slc6a8-in-non-small-cell-lung-cancer
#6
JOURNAL ARTICLE
Christiane Kuempers, Karoline Schnepf, Sebastian Marwitz, Christian Watermann, Andreas Scheel, Rieke N Fischer, Ole Ammerpohl, Sven Perner, Daniel Drömann, Torsten Goldmann
INTRODUCTION: Lung cancer is a major cause of cancer-related death worldwide and effective therapies, besides surgery, are available only for a small proportion of patients. Since cellular respiration is known to be broadly altered in malignant tumors, the cellular processes of respiration can be a potential therapeutic target. One important element of cellular respiration is creatine and its transport by the creatine transporter SLC6A8. Here we describe the expression of SLC6A8 at the RNA and protein level, epigenetic modifications as well as survival analysis in NSCLC tissues and matched controls...
March 7, 2024: Histology and Histopathology
https://read.qxmd.com/read/38528630/integrative-analysis-revealed-a-correlation-of-pias-family-genes-expression-with-prognosis-immunomodulation-and-chemotherapy
#7
JOURNAL ARTICLE
Qiqi Zhang, Junkui Zhang, Tianyi Lan, Jiayue He, Bin Lei, Hongnan Wang, Zhiqiang Mei, Chaoxiang Lv
BACKGROUND: Protein inhibitor of activated STATs (PIAS) has pleiotropic biological effects, such as protein post-translational modification, transcriptional coregulation and gene editing. It is reported that PIAS family genes are also correlated with immune cells infiltration in cancers that highlights their unnoticed biological role in tumor progression. However, the relationship of their expression with prognosis, immune cell infiltration, tumor microenvironment, and immunotherapy in pan-cancer has been rarely reported...
March 25, 2024: European Journal of Medical Research
https://read.qxmd.com/read/38527695/mll1-histone-methyltransferase-and-utx-histone-demethylase-functionally-cooperate-to-regulate-the-expression-of-nrf2-in-response-to-ros-induced-oxidative-stress
#8
JOURNAL ARTICLE
Janghyun Choi, Hansol Lee
The transcription factor NRF2 plays a pivotal role in maintaining redox and metabolic homeostasis by orchestrating oxidative stress-dependent transcription programs. Despite growing evidence implicating various cellular components in the regulation of NRF2 activity at the posttranslational stage, relatively less is known about the factors dictating the transcriptional activation of NRF2 in response to oxidative stress. In this study, we report the crucial roles of MLL1, an H3K4-specific methyltransferase, and UTX, an H3K27-specific histone demethylase, in the NRF2-dependent transcription program under oxidative stress...
March 23, 2024: Free Radical Biology & Medicine
https://read.qxmd.com/read/38522838/clinical-implementation-of-a-non-invasive-multi-analyte-ddpcr-test-to-screen-for-androgen-receptor-alterations
#9
JOURNAL ARTICLE
Regina Stitz, Franz Stoiber, Renè Silye, Georgios Vlachos, Silvia Andaloro, Elisabeth Rebhan, Michael Dunzinger, Franz Pühringer, Caroline Gallo, Amin El-Heliebi, Ellen Heitzer, Cornelia Hauser-Kronberger
Recent studies have shown that alterations of the androgen receptor (AR) are associated with resistance to AR-directed therapy in prostate cancer. Thus, it is crucial to develop robust detection methods for AR alterations as predictive biomarkers to enable applicability in clinical practice. We designed and validated five multiplex droplet digital PCR (ddPCR) assays for reliable detection of 12 AR targets including AR amplification, AR-V7 and 10 AR hotspot mutations as well as AR and KLK3 gene expression from plasma derived cell-free (cf)DNA and cfRNA...
March 22, 2024: Journal of Molecular Diagnostics: JMD
https://read.qxmd.com/read/38522484/cryptochrome-1-regulates-ovarian-granulosa-cell-senescence-through-ncoa4-mediated-ferritinophagy
#10
JOURNAL ARTICLE
Jing Ma, Sixing Chen, Jing Liu, Yixin Liao, Lina Li, ChiChiu Wang, Sishi Song, Rixuan Feng, Haoyue Hu, Song Quan
Age-associated decreases in follicle number and oocyte quality result in a decline in female fertility, which is associated with increased infertility. Granulosa cells play a major role in oocyte development and maturation both in vivo and in vitro. However, it is unclear whether a reduction in cryptochrome 1 (Cry1) expression contributes to granulosa cell senescence, and further exploration is needed to understand the underlying mechanisms. In this study, we investigated the role of Cry1, a core component of the molecular circadian clock, in the regulation of senescence in ovarian granulosa cells...
March 22, 2024: Free Radical Biology & Medicine
https://read.qxmd.com/read/38522031/the-temporal-protein-signature-analyses-of-developing-human-deciduous-molar-tooth-germ
#11
JOURNAL ARTICLE
Xiaohang Chen, Gaochi Li, Jian Zhang, Liang Hu, Guoqiang Zhao, Buling Wu, Fengxiang Wei, Fu Xiong
The tooth serves as an exemplary model for developmental studies, encompassing epithelial-mesenchymal transition and cell differentiation. The essential factors and pathways identified in tooth development will help understand the natural development process and the malformations of mineralized tissues such as skeleton. The time-dependent proteomic changes were investigated through the proteomics of healthy human molars during embryonic stages, ranging from the cap-to-early bell stage. A comprehensive analysis revealed 713 differentially expressed proteins (DEPs) exhibiting five distinct temporal expression patterns...
March 24, 2024: Proteomics
https://read.qxmd.com/read/38521057/autofluorescence-is-a-biomarker-of-neural-stem-cell-activation-state
#12
JOURNAL ARTICLE
Christopher S Morrow, Kelsey Tweed, Sabina Farhadova, Alex J Walsh, Bo P Lear, Avtar Roopra, Ryan D Risgaard, Payton C Klosa, Zachary P Arndt, Ella R Peterson, Michelle M Chi, Allison G Harris, Melissa C Skala, Darcie L Moore
Neural stem cells (NSCs) must exit quiescence to produce neurons; however, our understanding of this process remains constrained by the technical limitations of current technologies. Fluorescence lifetime imaging (FLIM) of autofluorescent metabolic cofactors has been used in other cell types to study shifts in cell states driven by metabolic remodeling that change the optical properties of these endogenous fluorophores. Using this non-destructive, live-cell, and label-free strategy, we found that quiescent NSCs (qNSCs) and activated NSCs (aNSCs) have unique autofluorescence profiles...
March 13, 2024: Cell Stem Cell
https://read.qxmd.com/read/38519766/effect-of-annexin-a2-on-prognosis-and-sensitivity-to-immune-checkpoint-plus-tyrosine-kinase-inhibition-in-metastatic-renal-cell-carcinoma
#13
JOURNAL ARTICLE
Jiajun Wang, Jinglai Lin, Jiahao Wang, Ying Wang, Yanjun Zhu, Xianglai Xu, Jianming Guo
BACKGROUND: Immunotherapy (IO) plus tyrosine kinase inhibitor (TKI) therapy is the first-line recommendation for advanced renal cell carcinoma (RCC), but no biomarker has been approved for it. Annexin A2 (ANXA2) can induce immune escape in tumors. METHODS: Two independent cohorts of advanced RCC treated by IO + TKI were utilized for survival analysis (ZS-MRCC, n = 45; Javelin-101, n = 726). ANXA2 expression was determined by RNA-sequencing...
March 22, 2024: Discover. Oncology
https://read.qxmd.com/read/38519052/neutrophil-membrane-camouflaged-polyprodrug-nanomedicine-for-inflammation-suppression-in-ischemic-stroke-therapy
#14
JOURNAL ARTICLE
Ya Zhao, Qian Li, Jingyan Niu, Erliang Guo, Chenchen Zhao, Jian Zhang, Xue Liu, Lihua Wang, Lang Rao, Xiaoyuan Chen, Kuikun Yang
Neuroinflammation has emerged as a major concern in ischemic stroke therapy because it exacebates neurological dysfunction and suppresses neurological recovery after ischemia/reperfusion. Fingolimod hydrochloride (FTY720) is an FDA-approved anti-inflammatory drug which exhibits potential neuroprotective effects in ischemic brain parenchyma. However, delivering a sufficient amount of FTY720 through the blood-brain barrier into brain lesions without inducing severe cardiovascular side effects remains challenging...
March 22, 2024: Advanced Materials
https://read.qxmd.com/read/38516642/label-free-quantitative-proteomics-reveals-the-mechanisms-of-aurora-kinase-b-in-renal-cell-carcinoma
#15
JOURNAL ARTICLE
Yulong Li, Yang Yang
BACKGROUND: Renal cell carcinoma is the most common form of kidney cancer which is a global threat to human health, needing to explore effective therapeutic targets and treatment methods. Aurora kinase B acts as an important carcinogenic role in various kinds of tumors, while its mechanism in renal cell carcinoma is indistinct. Herein we explore the underlying mechanism of Aurora kinase B in renal cell carcinoma. METHODS AND RESULTS: Label-free quantitative proteomics analysis was employed to analyze the differentially expressed proteins in 786-O cells which were treated with si-Aurora kinase B or si-ctrl...
2024: SAGE Open Medicine
https://read.qxmd.com/read/38513106/hdx-ms-finds-that-partial-unfolding-with-sequential-domain-activation-controls-condensation-of-a-cellular-stress-marker
#16
JOURNAL ARTICLE
Ruofan Chen, Hendrik Glauninger, Darren N Kahan, Julia Shangguan, Joseph R Sachleben, Joshua A Riback, D Allan Drummond, Tobin R Sosnick
Eukaryotic cells form condensates to sense and adapt to their environment [S. F. Banani, H. O. Lee, A. A. Hyman, M. K. Rosen, Nat. Rev. Mol. Cell Biol. 18 , 285-298 (2017), H. Yoo, C. Triandafillou, D. A. Drummond, J. Biol. Chem. 294 , 7151-7159 (2019)]. Poly(A)-binding protein (Pab1), a canonical stress granule marker, condenses upon heat shock or starvation, promoting adaptation [J. A. Riback et al. , Cell 168 , 1028-1040.e19 (2017)]. The molecular basis of condensation has remained elusive due to a dearth of techniques to probe structure directly in condensates...
March 26, 2024: Proceedings of the National Academy of Sciences of the United States of America
https://read.qxmd.com/read/38512114/memory-active-t-cell-activation-is-associated-with-immunotherapeutic-response-in-fumarate-hydratase-deficient-renal-cell-carcinoma
#17
JOURNAL ARTICLE
Junru Chen, Xu Hu, Junjie Zhao, Xiaoxue Yin, Linmao Zheng, Jingjing Guo, Jianhui Chen, Yongquan Wang, Xinan Sheng, Haiying Dong, Xiaodong Liu, Xingming Zhang, Jiayu Liang, Haolin Liu, Jin Yao, Jiyan Liu, Yali Shen, Zhibin Chen, Zhengyu He, Yaodong Wang, Ni Chen, Ling Nie, Mengni Zhang, Xiuyi Pan, Yuntian Chen, Haoyang Liu, Yaowen Zhang, Yanfeng Tang, Sha Zhu, Jinge Zhao, Jindong Dai, Zilin Wang, Yuhao Zeng, Zhipeng Wang, Haojie Huang, Zhenhua Liu, Pengfei Shen, Hao Zeng, Guangxi Sun
PURPOSE: Fumarate hydratase-deficient renal cell carcinoma (FH-deficient RCC) is a rare and lethal subtype of kidney cancer. However, the optimal treatments and molecular correlates of benefits for FH-deficient RCC are currently lacking. EXPERIMENTAL DESIGN: A total of 91 patients with FH-deficient RCC from 15 medical centers between 2009 and 2022 were enrolled in this study. Genomic and bulk RNA sequencing (RNA-seq) were performed on 88 and 45 untreated FH-deficient RCCs, respectively...
March 21, 2024: Clinical Cancer Research
https://read.qxmd.com/read/38511598/identification-of-inositol-monophosphatase-as-a-broad-spectrum-antiviral-target-of-ivermectin
#18
JOURNAL ARTICLE
Kunlakanya Jitobaom, Paleerath Peerapen, Usa Boonyuen, Ittipat Meewan, Chompunuch Boonarkart, Thanyaporn Sirihongthong, Songkran Thongon, Visith Thongboonkerd, Prasert Auewarakul
Ivermectin has broad-spectrum antiviral activities. Despite the failure in clinical application of COVID-19, it can serve as a lead compound for the development of more effective broad-spectrum antivirals, for which a better understanding of its antiviral mechanisms is essential. We thus searched for potential novel targets of ivermectin in host cells by label-free thermal proteomic profiling using Huh-7 cells. Inositol monophosphatase (IMPase) was found among the proteins with shifted thermal stability by ivermectin...
March 2024: Journal of Medical Virology
https://read.qxmd.com/read/38510027/identification-of-cell-differentiation-trajectory-related-gene-signature-to-reveal-the-prognostic-significance-and-immune-landscape-in-prostate-cancer-based-on-multiomics-analysis
#19
JOURNAL ARTICLE
Liangxue Sun, Zhouting Tuo, Xin Chen, Huming Wang, Zhaojie Lyu, Guangyuan Li
BACKGROUND: In the context of prostate cancer (PCa), the occurrence of biochemical recurrence (BCR) stands out as a pivotal factor significantly impacting prognosis, potentially leading to metastasis and mortality. However, the early detection of BCR poses a substantial challenge for PCa patients. There is an urgent need to pinpoint hub genes that can serve as predictive indicators for BCR in PCa patients. METHODS: Our primary goal was to identify cell differentiation trajectory-related gene signature in PCa patients by pseudo-time trajectory analysis...
March 30, 2024: Heliyon
https://read.qxmd.com/read/38509069/mapping-human-tissues-with-highly-multiplexed-rna-in-situ-hybridization
#20
JOURNAL ARTICLE
Kian Kalhor, Chien-Ju Chen, Ho Suk Lee, Matthew Cai, Mahsa Nafisi, Richard Que, Carter R Palmer, Yixu Yuan, Yida Zhang, Xuwen Li, Jinghui Song, Amanda Knoten, Blue B Lake, Joseph P Gaut, C Dirk Keene, Ed Lein, Peter V Kharchenko, Jerold Chun, Sanjay Jain, Jian-Bing Fan, Kun Zhang
In situ transcriptomic techniques promise a holistic view of tissue organization and cell-cell interactions. There has been a surge of multiplexed RNA in situ mapping techniques but their application to human tissues has been limited due to their large size, general lower tissue quality and high autofluorescence. Here we report DART-FISH, a padlock probe-based technology capable of profiling hundreds to thousands of genes in centimeter-sized human tissue sections. We introduce an omni-cell type cytoplasmic stain that substantially improves the segmentation of cell bodies...
March 20, 2024: Nature Communications
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