Lysosomal microautophagy: an emerging dimension in mammalian autophagy
Trends Cell Biol. 2023 Dec 15:S0962-8924(23)00238-6. doi: 10.1016/j.tcb.2023.11.005. Online ahead of print.ABSTRACTAutophagy is a self-catabolic process through which cellular components are delivered to lysosomes for degradation. There are three types of autophagy, i.e., macroautophagy, chaperone-mediated autophagy (CMA), and microautophagy. In macroautophagy, a portion of the cytoplasm is wrapped by the autophagosome, which then fuses with lysosomes and delivers the engulfed cytoplasm for degradation. In CMA, the translocation of cytosolic substrates to the lysosomal lumen is directly across the limiting membrane of lyso...
Source: Trends in Cell Biology - December 16, 2023 Category: Cytology Authors: Yoshihiko Kuchitsu Tomohiko Taguchi Source Type: research
Mechanism-aware and multimodal AI: beyond model-agnostic interpretation
Trends Cell Biol. 2023 Dec 11:S0962-8924(23)00235-0. doi: 10.1016/j.tcb.2023.11.002. Online ahead of print.ABSTRACTArtificial intelligence (AI) is widely used for exploiting multimodal biomedical data, with increasingly accurate predictions and model-agnostic interpretations, which are however also agnostic to biological mechanisms. Combining metabolic modelling, 'omics, and imaging data via multimodal AI can generate predictions that can be interpreted mechanistically and transparently, therefore with significantly higher therapeutic potential.PMID:38087709 | DOI:10.1016/j.tcb.2023.11.002 (Source: Trends in Cell Biology)
Source: Trends in Cell Biology - December 13, 2023 Category: Cytology Authors: Annalisa Occhipinti Suraj Verma Le Minh Thao Doan Claudio Angione Source Type: research
Mechanism-aware and multimodal AI: beyond model-agnostic interpretation
Trends Cell Biol. 2023 Dec 11:S0962-8924(23)00235-0. doi: 10.1016/j.tcb.2023.11.002. Online ahead of print.ABSTRACTArtificial intelligence (AI) is widely used for exploiting multimodal biomedical data, with increasingly accurate predictions and model-agnostic interpretations, which are however also agnostic to biological mechanisms. Combining metabolic modelling, 'omics, and imaging data via multimodal AI can generate predictions that can be interpreted mechanistically and transparently, therefore with significantly higher therapeutic potential.PMID:38087709 | DOI:10.1016/j.tcb.2023.11.002 (Source: Trends in Cell Biology)
Source: Trends in Cell Biology - December 13, 2023 Category: Cytology Authors: Annalisa Occhipinti Suraj Verma Le Minh Thao Doan Claudio Angione Source Type: research
Mechanism-aware and multimodal AI: beyond model-agnostic interpretation
Trends Cell Biol. 2023 Dec 11:S0962-8924(23)00235-0. doi: 10.1016/j.tcb.2023.11.002. Online ahead of print.ABSTRACTArtificial intelligence (AI) is widely used for exploiting multimodal biomedical data, with increasingly accurate predictions and model-agnostic interpretations, which are however also agnostic to biological mechanisms. Combining metabolic modelling, 'omics, and imaging data via multimodal AI can generate predictions that can be interpreted mechanistically and transparently, therefore with significantly higher therapeutic potential.PMID:38087709 | DOI:10.1016/j.tcb.2023.11.002 (Source: Trends in Cell Biology)
Source: Trends in Cell Biology - December 13, 2023 Category: Cytology Authors: Annalisa Occhipinti Suraj Verma Le Minh Thao Doan Claudio Angione Source Type: research
Mechanism-aware and multimodal AI: beyond model-agnostic interpretation
Trends Cell Biol. 2023 Dec 11:S0962-8924(23)00235-0. doi: 10.1016/j.tcb.2023.11.002. Online ahead of print.ABSTRACTArtificial intelligence (AI) is widely used for exploiting multimodal biomedical data, with increasingly accurate predictions and model-agnostic interpretations, which are however also agnostic to biological mechanisms. Combining metabolic modelling, 'omics, and imaging data via multimodal AI can generate predictions that can be interpreted mechanistically and transparently, therefore with significantly higher therapeutic potential.PMID:38087709 | DOI:10.1016/j.tcb.2023.11.002 (Source: Trends in Cell Biology)
Source: Trends in Cell Biology - December 13, 2023 Category: Cytology Authors: Annalisa Occhipinti Suraj Verma Le Minh Thao Doan Claudio Angione Source Type: research
The interplay of the circadian clock and metabolic tumorigenesis
Trends Cell Biol. 2023 Dec 6:S0962-8924(23)00237-4. doi: 10.1016/j.tcb.2023.11.004. Online ahead of print.ABSTRACTThe circadian clock and cell metabolism are both dysregulated in cancer cells through intrinsic cell-autonomous mechanisms and external influences from the tumor microenvironment. The intricate interplay between the circadian clock and cancer cell metabolism exerts control over various metabolic processes, including aerobic glycolysis, de novo nucleotide synthesis, glutamine and protein metabolism, lipid metabolism, mitochondrial metabolism, and redox homeostasis in cancer cells. Importantly, oncogenic signalin...
Source: Trends in Cell Biology - December 7, 2023 Category: Cytology Authors: Zheng Wang Leina Ma Ying Meng Jing Fang Daqian Xu Zhimin Lu Source Type: research
The interplay of the circadian clock and metabolic tumorigenesis
Trends Cell Biol. 2023 Dec 6:S0962-8924(23)00237-4. doi: 10.1016/j.tcb.2023.11.004. Online ahead of print.ABSTRACTThe circadian clock and cell metabolism are both dysregulated in cancer cells through intrinsic cell-autonomous mechanisms and external influences from the tumor microenvironment. The intricate interplay between the circadian clock and cancer cell metabolism exerts control over various metabolic processes, including aerobic glycolysis, de novo nucleotide synthesis, glutamine and protein metabolism, lipid metabolism, mitochondrial metabolism, and redox homeostasis in cancer cells. Importantly, oncogenic signalin...
Source: Trends in Cell Biology - December 7, 2023 Category: Cytology Authors: Zheng Wang Leina Ma Ying Meng Jing Fang Daqian Xu Zhimin Lu Source Type: research
The interplay of the circadian clock and metabolic tumorigenesis
Trends Cell Biol. 2023 Dec 6:S0962-8924(23)00237-4. doi: 10.1016/j.tcb.2023.11.004. Online ahead of print.ABSTRACTThe circadian clock and cell metabolism are both dysregulated in cancer cells through intrinsic cell-autonomous mechanisms and external influences from the tumor microenvironment. The intricate interplay between the circadian clock and cancer cell metabolism exerts control over various metabolic processes, including aerobic glycolysis, de novo nucleotide synthesis, glutamine and protein metabolism, lipid metabolism, mitochondrial metabolism, and redox homeostasis in cancer cells. Importantly, oncogenic signalin...
Source: Trends in Cell Biology - December 7, 2023 Category: Cytology Authors: Zheng Wang Leina Ma Ying Meng Jing Fang Daqian Xu Zhimin Lu Source Type: research
The interplay of the circadian clock and metabolic tumorigenesis
Trends Cell Biol. 2023 Dec 6:S0962-8924(23)00237-4. doi: 10.1016/j.tcb.2023.11.004. Online ahead of print.ABSTRACTThe circadian clock and cell metabolism are both dysregulated in cancer cells through intrinsic cell-autonomous mechanisms and external influences from the tumor microenvironment. The intricate interplay between the circadian clock and cancer cell metabolism exerts control over various metabolic processes, including aerobic glycolysis, de novo nucleotide synthesis, glutamine and protein metabolism, lipid metabolism, mitochondrial metabolism, and redox homeostasis in cancer cells. Importantly, oncogenic signalin...
Source: Trends in Cell Biology - December 7, 2023 Category: Cytology Authors: Zheng Wang Leina Ma Ying Meng Jing Fang Daqian Xu Zhimin Lu Source Type: research
The interplay of the circadian clock and metabolic tumorigenesis
Trends Cell Biol. 2023 Dec 6:S0962-8924(23)00237-4. doi: 10.1016/j.tcb.2023.11.004. Online ahead of print.ABSTRACTThe circadian clock and cell metabolism are both dysregulated in cancer cells through intrinsic cell-autonomous mechanisms and external influences from the tumor microenvironment. The intricate interplay between the circadian clock and cancer cell metabolism exerts control over various metabolic processes, including aerobic glycolysis, de novo nucleotide synthesis, glutamine and protein metabolism, lipid metabolism, mitochondrial metabolism, and redox homeostasis in cancer cells. Importantly, oncogenic signalin...
Source: Trends in Cell Biology - December 7, 2023 Category: Cytology Authors: Zheng Wang Leina Ma Ying Meng Jing Fang Daqian Xu Zhimin Lu Source Type: research
Metabolic immunity against microbes
Trends Cell Biol. 2023 Nov 28:S0962-8924(23)00231-3. doi: 10.1016/j.tcb.2023.10.013. Online ahead of print.ABSTRACTPathogens, including viruses, bacteria, fungi, and parasites, remodel the metabolism of their host to acquire the nutrients they need to proliferate. Thus, host cells are often perceived as mere exploitable nutrient pools during infection. Mounting reports challenge this perception and instead suggest that host cells can actively reprogram their metabolism to the detriment of the microbial invader. In this review, we present metabolic mechanisms that host cells use to defend against pathogens. We highlight the...
Source: Trends in Cell Biology - November 29, 2023 Category: Cytology Authors: Sebastian Kreimendahl Lena Pernas Source Type: research
Opportunities and challenges for deep learning in cell dynamics research
Trends Cell Biol. 2023 Nov 21:S0962-8924(23)00228-3. doi: 10.1016/j.tcb.2023.10.010. Online ahead of print.ABSTRACTThe growth of artificial intelligence (AI) has led to an increase in the adoption of computer vision and deep learning (DL) techniques for the evaluation of microscopy images and movies. This adoption has not only addressed hurdles in quantitative analysis of dynamic cell biological processes but has also started to support advances in drug development, precision medicine, and genome-phenome mapping. We survey existing AI-based techniques and tools, as well as open-source datasets, with a specific focus on the...
Source: Trends in Cell Biology - November 29, 2023 Category: Cytology Authors: Binghao Chai Christoforos Efstathiou Haoran Yue Viji M Draviam Source Type: research
Metabolic immunity against microbes
Trends Cell Biol. 2023 Nov 28:S0962-8924(23)00231-3. doi: 10.1016/j.tcb.2023.10.013. Online ahead of print.ABSTRACTPathogens, including viruses, bacteria, fungi, and parasites, remodel the metabolism of their host to acquire the nutrients they need to proliferate. Thus, host cells are often perceived as mere exploitable nutrient pools during infection. Mounting reports challenge this perception and instead suggest that host cells can actively reprogram their metabolism to the detriment of the microbial invader. In this review, we present metabolic mechanisms that host cells use to defend against pathogens. We highlight the...
Source: Trends in Cell Biology - November 29, 2023 Category: Cytology Authors: Sebastian Kreimendahl Lena Pernas Source Type: research
Opportunities and challenges for deep learning in cell dynamics research
Trends Cell Biol. 2023 Nov 21:S0962-8924(23)00228-3. doi: 10.1016/j.tcb.2023.10.010. Online ahead of print.ABSTRACTThe growth of artificial intelligence (AI) has led to an increase in the adoption of computer vision and deep learning (DL) techniques for the evaluation of microscopy images and movies. This adoption has not only addressed hurdles in quantitative analysis of dynamic cell biological processes but has also started to support advances in drug development, precision medicine, and genome-phenome mapping. We survey existing AI-based techniques and tools, as well as open-source datasets, with a specific focus on the...
Source: Trends in Cell Biology - November 29, 2023 Category: Cytology Authors: Binghao Chai Christoforos Efstathiou Haoran Yue Viji M Draviam Source Type: research
Metabolic immunity against microbes
Trends Cell Biol. 2023 Nov 28:S0962-8924(23)00231-3. doi: 10.1016/j.tcb.2023.10.013. Online ahead of print.ABSTRACTPathogens, including viruses, bacteria, fungi, and parasites, remodel the metabolism of their host to acquire the nutrients they need to proliferate. Thus, host cells are often perceived as mere exploitable nutrient pools during infection. Mounting reports challenge this perception and instead suggest that host cells can actively reprogram their metabolism to the detriment of the microbial invader. In this review, we present metabolic mechanisms that host cells use to defend against pathogens. We highlight the...
Source: Trends in Cell Biology - November 29, 2023 Category: Cytology Authors: Sebastian Kreimendahl Lena Pernas Source Type: research
