Biophysics and physicobiology最新文献_第4页

Unraveling T-cell dynamics using fluorescent timer: Insights from the Tocky system. 利用荧光计时器揭示 T 细胞动态：从 Tocky 系统获得的启示。

IF 1.6

Biophysics and physicobiology Pub Date : 2024-02-16 eCollection Date: 2024-01-01 DOI: 10.2142/biophysico.bppb-v21.s010

Masahiro Ono

{"title":"Unraveling T-cell dynamics using fluorescent timer: Insights from the Tocky system.","authors":"Masahiro Ono","doi":"10.2142/biophysico.bppb-v21.s010","DOIUrl":"10.2142/biophysico.bppb-v21.s010","url":null,"abstract":"Understanding the temporal dynamics of T-cell transcription is crucial for insights into immune cell function and development. In this study, we show the features of the Timer-of-Cell-Kinetics-and-Activity (Tocky) system, which enables analysis of temporal dynamics of cell activities and differentiation, leveraging Fluorescent Timer protein, which spontaneously changes its emission spectrum from blue to red fluorescence in known kinetics, as reporters. The current study examines the properties of the Tocky system, highlighting the Timer-Angle approach, which is a core algorithm of Tocky analysis and converts Timer Blue and Red fluorescence into Timer Angle and Intensity by trigonometric transformation. Importantly, Tocky analyzes time-related events within individual cells by the two phases of measurements, distinguishing between (1) the temporal sequence of cellular activities and differentiation within the time domain, and (2) the transcription frequency within the frequency domain. The transition from time measurement to frequency analysis, particularly at the Persistent locus that bridges these domains, highlights that system's unique property in what is measured and analyzed by Tocky. Intriguingly, the sustained transcriptional activities observed in cells at the Persistent locus may have unique biological features as demonstrated in activated regulatory T-cells (Treg) and pathogenic T-cells, respectively, using Foxp3-Tocky and Nr4a3-Tocky models. In conclusion, the Tocky system can provide crucial data for advancing our understanding of T-cell dynamics and function.","PeriodicalId":101323,"journal":{"name":"Biophysics and physicobiology","volume":"21 Supplemental","pages":"e211010"},"PeriodicalIF":1.6,"publicationDate":"2024-02-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11338677/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142038677","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Chromophore-assisted light inactivation of target proteins for singularity biology. 用于奇异生物学的色团辅助光灭活目标蛋白质。

IF 1.6

Biophysics and physicobiology Pub Date : 2024-02-15 eCollection Date: 2024-01-01 DOI: 10.2142/biophysico.bppb-v21.s009

Hisashi Shidara, Susumu Jitsuki, Kiwamu Takemoto

引用次数: 0

Research on the molecular mechanism of singularity phenomenon in neurological disorders. 研究神经系统疾病中奇异现象的分子机制。

IF 1.6

Biophysics and physicobiology Pub Date : 2024-02-15 eCollection Date: 2024-01-01 DOI: 10.2142/biophysico.bppb-v21.s008

Hiroko Bannai, Akihiko Takashima, Yoshiyuki Soeda, Hideaki Yoshimura, Gen Matsumoto, Naruhiko Sahara, Michio Hiroshima, Mitsuru Hattori, Takeharu Nagai

引用次数: 0

Elucidating molecular and cellular mechanisms of singularity phenomena in immunology. 阐明免疫学中奇异现象的分子和细胞机制。

IF 1.6

Biophysics and physicobiology Pub Date : 2024-02-14 eCollection Date: 2024-01-01 DOI: 10.2142/biophysico.bppb-v21.s007

Taku Okazaki, Tomoya Katakai

引用次数: 0

Holistic concepts in GPCR dynamics. GPCR 动态的整体概念。

Biophysics and physicobiology Pub Date : 2024-02-10 eCollection Date: 2024-01-01 DOI: 10.2142/biophysico.bppb-v21.0011

Kota Katayama, Ryoji Suno

引用次数: 0

A battle between two biological singularities: Immune response vs. cancer. 两个生物奇点之间的较量：免疫反应与癌症

IF 1.6

Biophysics and physicobiology Pub Date : 2024-02-09 eCollection Date: 2024-01-01 DOI: 10.2142/biophysico.bppb-v21.s006

Tomoya Katakai, Taku Okazaki

{"title":"A battle between two biological singularities: Immune response vs. cancer.","authors":"Tomoya Katakai, Taku Okazaki","doi":"10.2142/biophysico.bppb-v21.s006","DOIUrl":"10.2142/biophysico.bppb-v21.s006","url":null,"abstract":"In a post-growth multicellular organism, the phenomenon in which a small number of rare cells can be the starting point for inducing a dramatic change in the entire system is considered a \"biological singularity.\" The immune response and cancer can be regarded as singularity phenomena in mammals, but their nature is fundamentally different. The immune response is considered a \"programmed\" singularity, whereas cancer is an \"unprogrammed\" singularity. These two systems perpetually engage in a cycle of attack and defense within the organism. The outcome is depending on the wining system, which determines whether the individual experiences a state resembling light or darkness. However, the overall mechanism of the competition remains unclear and is expected to be elucidated with future innovations in bioimaging technologies. Immune checkpoint blockade therapy is a means by which the two singularity balances can be artificially manipulated; therefore, mechanistic insight is necessary for cancer treatment strategies. Altogether, these findings provide a different perspective crucial for understanding the behavior of dynamic cell populations in multicellular organisms.","PeriodicalId":101323,"journal":{"name":"Biophysics and physicobiology","volume":"21 Supplemental","pages":"e211006"},"PeriodicalIF":1.6,"publicationDate":"2024-02-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11338675/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142038665","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Integration of single-cell manipulation, whole transcriptome analysis, and image-based deep learning for studying "Singularity Biology". 整合单细胞操作、全转录组分析和基于图像的深度学习，研究 "奇点生物学"。

IF 1.6

Biophysics and physicobiology Pub Date : 2024-02-09 eCollection Date: 2024-01-01 DOI: 10.2142/biophysico.bppb-v21.s005

Katsuyuki Shiroguchi

引用次数: 0

Current advances in the development of bioluminescent probes toward spatiotemporal trans-scale imaging. 开发生物发光探针以实现跨尺度时空成像的最新进展。

IF 1.6

Biophysics and physicobiology Pub Date : 2024-02-02 eCollection Date: 2024-01-01 DOI: 10.2142/biophysico.bppb-v21.s004

Akihiro Sakama, Mariko Orioka, Yuki Hiruta

引用次数: 0

Search for singularity cells at the onset of brain disorders using whole-brain imaging. 利用全脑成像技术寻找脑部疾病发病时的奇异细胞。

IF 1.6

Biophysics and physicobiology Pub Date : 2024-02-02 eCollection Date: 2024-01-01 DOI: 10.2142/biophysico.bppb-v21.s003

Hitoshi Hashimoto, Takanobu Nakazawa

引用次数: 0

Pioneering artificial cell-like structures with DNA nanotechnology-based liquid-liquid phase separation. 利用基于 DNA 纳米技术的液-液相分离技术开创人工类细胞结构。

Biophysics and physicobiology Pub Date : 2024-01-30 eCollection Date: 2024-01-01 DOI: 10.2142/biophysico.bppb-v21.0010

Yusuke Sato, Masahiro Takinoue

{"title":"Pioneering artificial cell-like structures with DNA nanotechnology-based liquid-liquid phase separation.","authors":"Yusuke Sato, Masahiro Takinoue","doi":"10.2142/biophysico.bppb-v21.0010","DOIUrl":"10.2142/biophysico.bppb-v21.0010","url":null,"abstract":"Recent studies have revealed that liquid-liquid phase separation (LLPS) plays crucial roles in various cellular functions. Droplets formed via LLPS within cells, often referred to as membraneless organelles, serve to concentrate specific molecules, thus enhancing biochemical reactions. Artificial LLPS systems have been utilized to construct synthetic cell models, employing a range of synthetic molecules. LLPS systems based on DNA nanotechnology are particularly notable for their designable characteristics in droplet formation, dynamics, properties, and functionalities. This review surveys recent advancements in DNA-based LLPS systems, underscoring the programmability afforded by DNA's base-pair specific interactions. We discuss the fundamentals of DNA droplet formation, including temperature-dependence and physical properties, along with the precise control achievable through sequence design. Attention is given to the phase separation of DNA nanostructures on two-dimensional closed interfaces, which results in spatial pattern formation at the interface. Furthermore, we spotlight the potential of DNA droplet computing for cancer diagnostics through specific microRNA pattern recognition. We envision that DNA-based LLPS presents a versatile platform for the exploration of cellular mimicry and opens innovative ways for the development of functional synthetic cells.","PeriodicalId":101323,"journal":{"name":"Biophysics and physicobiology","volume":"21 1","pages":"e210010"},"PeriodicalIF":0.0,"publicationDate":"2024-01-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11128300/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141159213","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0