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A novel method for clustering cellular data to improve classification

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Neural Regeneration Research 2025年第9期20卷 2697-2705页

作者： Diek w.wheeler Giorgio A.Ascoli Center for Neural Informatics Structures&PlasticityKrasnow Institute for Advanced Study Bioengineering Department Volgenau School of Engineering George Mason University FairfaxVAUSA

Many fields,such as neuroscience,are experiencing the vast prolife ration of cellular data,underscoring the need fo r organizing and interpreting large datasets.A popular approach partitions data into manageable subsets via hierarchical clustering,but objective methods to determine the appropriate classification granularity are *** recently introduced a technique to systematically identify when to stop subdividing clusters based on the fundamental principle that cells must differ more between than within *** we present the corresponding protocol to classify cellular datasets by combining datadriven unsupervised hierarchical clustering with statistical *** general-purpose functions are applicable to any cellular dataset that can be organized as two-dimensional matrices of numerical values,including molecula r,physiological,and anatomical *** demonstrate the protocol using cellular data from the Janelia MouseLight project to chara cterize morphological aspects of neurons.

关键词： cellular data clustering dendrogram data classification Levene's one-tailed statistical test unsupervised hierarchical clustering

Genistein:a possible solution for the treatment of Alzheimer’s disease

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Neural Regeneration Research 2025年第10期20卷 2903-2905页

作者： Karolina Pierzynowska Bartosz Karaszewski Grzegorz węgrzyn Department of Molecular Biology University of GdanskGdanskPoland Gdansk Polandand Department of Adult NeurologyFaculty of MedicineMedical University of GdanskGdanskPoland

Neurodegenerative diseases are defined as disorders resulting from the slow and progressive loss of function and eventual death of neural cells that result from the primary pathology of nervous *** can lead to severe nervous system dysfunction,eventually affecting multiple organs and *** hundred neurodegenerative diseases have been described,and owing to their prevalence,severity.

关键词： organs Alzheimer death

Glia-to-neuron reprogramming to the rescue?

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Neural Regeneration Research 2025年第5期20卷 1395-1396页

作者： Jack w.Hickmott Cindi M.Morshead Department of Surgery University of TorontoTorontoONCanada Donnelly Centre for Cellular and Biomolecular Research TorontoONCanada Institute of Biomedical Engineering University of TorontoTorontoONCanada The KITE Research Institute Toronto Rehabilitation InstituteUniversity Health NetworkTorontoONCanada

Over the last two decades,the dogma that cell fate is immutable has been increasingly challenged,with important implications for regenerative *** brea kth rough discovery that induced pluripotent stem cells could be generated from adult mouse fibroblasts is powerful proof that cell fate can be *** exciting extension of the discovery of cell fate impermanence is the direct cellular reprogram ming hypothesis-that terminally differentiated cells can be reprogrammed into other adult cell fates without first passing through a stem cell state.

关键词： programming passing proof

Desorption-diffusion model and lost gas quantity estimation of coalbed methane from coal core under drilling fluid medium

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Science China Earth Sciences 2010年第4期53卷 626-632页

作者： geoff wANG School of Engineering University of Queensland

The differences of coalbed methane(CBM) desorption-diffusion from coal drilling-core under various drilling fluid medium are not considered in the present calculating methods of lost CBM quantity,which leads possibly to the inaccuracy of CBM quantity in coal *** we took the desorption of CBM from coal core under drilling fluid medium as a pressure-swing process,and based on the Langmuir equation and Fick-first law,established the desorption-diffusion model and numerical modeling method of lost gas(including free CBM) calculation in coal core under various drilling fluid mediums through physical simulation test and by considering comprehensively primary *** results showed that the physical simulated t-Qt curves can be rightly fitted by the numerical modeling data,which indicated the ultimate desorption quantity from the numerical modeling was adjacent to that from the physical simulation as a *** was found that the lost CBM quantity from the modeling method was generally higher than that from the direct method when lost time was relatively ***,we sug-gest that it is necessary to emend the active China national standard through further investigation,since the lost CBM quantity from coal drilling-core was generally underestimated using the method in the current standard.

关键词： drilling fluid CBM lost gas quantity desorption-diffusion model numerical modeling method

Informatic analysis reveals Legionella as a source of novel natural products

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Synthetic and Systems Biotechnology 2016年第2期1卷 130-136页

作者： Chad w.Johnston Jonathan plumb Xiang Li Sergio Grinstein Nathan A.Magarvey The Michael G.DeGroote Institute for Infectious Disease Research Department of Biochemistry and Biomedical SciencesMcMaster UniversityHamiltonONCanada L8N 3Z5 Department of Chemistry and Chemical Biology McMaster UniversityHamiltonONCanada L8N 3Z5 Cell Biology Program Hospital for Sick ChildrenTorontoOntarioCanada M5G 1X8

Microbial natural products are a crucial source of bioactive molecules and unique chemical *** their importance,rediscovery of known natural products from established productive microbes has led to declining interest,even while emergent genomic data suggest that the majority of microbial natural products remain to be ***,new sources of microbial natural products must be defined in order to provide chemical scaffolds for the next generation of small molecules for therapeutic,agricultural,and industrial *** this work,we use specialized bioinformatic programs,genetic knockouts,and comparative metabolomics to define the genus Legionella as a new source of novel natural *** show that Legionella *** a diverse collection of biosynthetic gene clusters for the production of polyketide and nonribosomal peptide natural *** confirm this bioinformatic survey,we create targeted mutants of *** and use comparative metabolomics to identify a novel polyketide *** spectroscopic techniques,we show that this polyketide possesses a new chemical scaffold,and firmly demonstrate that this unexplored genus is a source for novel natural products.

关键词： Natural products Legionella Polyketides PRISM

Fast raycasting using a compound deep image for virtual point light range determination

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Computational Visual Media 2019年第3期5卷 257-265页

作者： Jesse Archer geoff Leach Pyarelal Knowles School of Science RMIT University

The concept of using multiple deep images,under a variety of different names, has been explored as a possible acceleration approach for finding raygeometry intersections. we leverage recent advances in deep image processing from order independent transparency for fast building of a compound deep image(CDI) using a coherent memory format well suited for raycasting. we explore the use of a CDI and raycasting for the problem of determining distance between virtual point lights(VPLs) and geometry for indirect lighting,with the key raycasting step being a small fraction of total frametime.

关键词： deep image indirect lighting raycasting

Dendroclimatic response of Picea jezoensis along an altitudinal gradient in Changbai Mountains

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Science China(Technological Sciences) 2006年第z1期49卷 150-159页

作者： G.geoff wang Department of Forestry and Natural Resources Clemson UniversityClemsonSouth Carolina 29634-0317USA

we investigated the effects of climate on Yeddo spruce (Picea jezoensis)radial growth along altitudinal gradients in the subalpine forests of Changbai Mountains using dendroclimatic analyses. Yeddo spruce at its lower and upper distribution limits was more sensitive to the climate. Despite precipitation being generally considered sufficient, we found that precipitation significantly affected Yeddo spruce radial growth. Yeddo spruce at its lower distribution limit was much more affected by precipitation while Yeddo spruce at its upper distribution limit was much more affected by minimum temperature. Yeddo spruce at its medial altitude was affected by sunshine ratio. These results demonstrated that climate affected Yeddo spruce growth differently depending on its altitudinal distributions in the Changbai Mountains. Both temperature and precipitation in the annualization period significantly correlated with Yeddo spruce radial growth. However, warmer signals were not reflected in radial growth trend during the past 20 years because annual total precipitation declined during the same period. It appeared that the climate affected tree rings growth by altering soil moisture availability.

关键词： dendrochronology, Yeddo spruce (Piceajezoensis), altitude gradient, Changbai Mountains.

Dynamic modeling of a three-dimensional braided composite thin plate considering braiding directions

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Applied Mathematics and Mechanics(English Edition) 2025年第1期46卷 123-138页

作者： Chentong GAO Huiyu SUN Jianping GU w.M.HUANG College of Aerospace Engineering Nanjing University of Aeronautics and Astronautics School of Mechanical and Aerospace Engineering Nanyang Technological University Jiangsu Key Laboratory of Advanced Structural Materials and Application Technology School of Materials Science and EngineeringNanjing Institute of Technology

Currently, there are a limited number of dynamic models available for braided composite plates with large overall motions, despite the incorporation of three-dimensional(3D) braided composites into rotating blade components. In this paper, a dynamic model of 3D 4-directional braided composite thin plates considering braiding directions is established. Based on Kirchhoff's plate assumptions, the displacement variables of the plate are expressed. By incorporating the braiding directions into the constitutive equation of the braided composites, the dynamic model of the plate considering braiding directions is obtained. The effects of the speeds, braiding directions, and braided angles on the responses of the plate with fixed-axis rotation and translational motion, respectively, are investigated. This paper presents a dynamic theory for calculating the deformation of 3D braided composite structures undergoing both translational and rotational motions. It also provides a simulation method for investigating the dynamic behavior of non-isotropic material plates in various applications.

关键词： three-dimensional (3D) braided composite braiding direction composite thin plate large overall motion dynamic model O313.7

Human induced pluripotent stem cell-derived therapies for regeneration after central nervous system injury

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Neural Regeneration Research 2025年第11期20卷 3063-3075页

作者： Stephen Vidman Yee Hang Ethan Ma Nolan Fullenkamp Giles w.Plant Department of Neuroscience Ohio State UniversityColumbusOHUSA

In recent years,the progression of stem cell therapies has shown great promise in advancing the nascent field of regenerative *** the non-regenerative nature of the mature central nervous system,the concept that“blank”cells could be reprogrammed and functionally integrated into host neural networks remained *** work has also demonstrated the ability of such cells to stimulate intrinsic growth programs in post-mitotic cells,such as *** embryonic stem cells demonstrated great potential in treating central nervous system pathologies,ethical and technical concerns *** barriers,along with the clear necessity for this type of treatment,ultimately prompted the advent of induced pluripotent stem *** advantage of pluripotent cells in central nervous system regeneration is multifaceted,permitting differentiation into neural stem cells,neural progenitor cells,glia,and various neuronal *** precise spatiotemporal application of extrinsic growth factors in vitro,in addition to microenvironmental signaling in vivo,influences the efficiency of this directed *** the pluri-or multipotency of these cells is appealing,it also poses the risk of unregulated differentiation and teratoma *** of the neuroectodermal lineage,such as neuronal subpopulations and glia,have been explored with varying degrees of *** the risk of cancer or teratoma formation is greatly reduced,each subpopulation varies in effectiveness and is influenced by a myriad of factors,such as the timing of the transplant,pathology type,and the ratio of accompanying progenitor ***,successful transplantation requires innovative approaches to develop delivery vectors that can mitigate cell death and support ***,host immune responses to allogeneic grafts must be thoroughly characterized and further developed to reduce the need for *** to a clinical setting wi

关键词： axon regeneration central nervous system regeneration induced pluripotent stem cells neurotrauma regenerative medicine spinal cord injury stem cell therapy