Abstract：
:Determining the structure and composition of macromolecular assemblies is a major challenge in biology. Here we describe ultrastructure expansion microscopy (U-ExM), an extension of expansion microscopy that allows the visualization of preserved ultrastructures by optical microscopy. This method allows for near-native expansion of diverse structures in vitro and in cells; when combined with super-resolution microscopy, it unveiled details of ultrastructural organization, such as centriolar chirality, that could otherwise be observed only by electron microscopy.
journal_name
Nat Methodsjournal_title
Nature methodsauthors
Gambarotto D,Zwettler FU,Le Guennec M,Schmidt-Cernohorska M,Fortun D,Borgers S,Heine J,Schloetel JG,Reuss M,Unser M,Boyden ES,Sauer M,Hamel V,Guichard Pdoi
10.1038/s41592-018-0238-1subject
Has Abstractpub_date
2019-01-01 00:00:00pages
71-74issue
1eissn
1548-7091issn
1548-7105pii
10.1038/s41592-018-0238-1journal_volume
16pub_type
杂志文章相关文献
NATURE METHODS文献大全abstract：:Single-cell transcriptomics provides an opportunity to characterize cell-type-specific transcriptional networks, intercellular signaling pathways and cellular diversity with unprecedented resolution by profiling thousands of cells in a single experiment. However, owing to the unique statistical properties of scRNA-seq...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/s41592-019-0372-4
更新日期：2019-05-01 00:00:00
abstract：:The successful in vitro evolution of a DNA enzyme based on a ribozyme could offer insights into early evolutionary events and provide guidelines for designing hardier catalytic oligonucleotides. ...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth0606-424b
更新日期：2006-06-01 00:00:00
abstract：:New methods to quantify protein kinase activities directly from complex cellular mixtures are critical for understanding biological regulatory pathways. Herein, a fluorescence-based chemosensor strategy for the direct measurement of kinase activities in crude mammalian cell lysates is described. We first designed a ne...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth747
更新日期：2005-04-01 00:00:00
abstract：:Existing methods for human induced pluripotent stem cell (hiPSC) cardiac differentiation are efficient but require complex, undefined medium constituents that hinder further elucidation of the molecular mechanisms of cardiomyogenesis. Using hiPSCs derived under chemically defined conditions on synthetic matrices, we s...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.2999
更新日期：2014-08-01 00:00:00
abstract：:We present DeNovoGear software for analyzing de novo mutations from familial and somatic tissue sequencing data. DeNovoGear uses likelihood-based error modeling to reduce the false positive rate of mutation discovery in exome analysis and fragment information to identify the parental origin of germ-line mutations. We ...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.2611
更新日期：2013-10-01 00:00:00
abstract：:An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...
journal_title：Nature methods
pub_type： 已发布勘误
doi：10.1038/s41592-019-0660-z
更新日期：2019-12-01 00:00:00
abstract：:Achieving information content of satisfactory breadth and depth remains a formidable challenge for proteomics. This problem is particularly relevant to the study of primary human specimens, such as tumor biopsies, which are heterogeneous and of finite quantity. Here we present a functional proteomics strategy that uni...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth778
更新日期：2005-09-01 00:00:00
abstract：: ...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/s41592-019-0311-4
更新日期：2019-02-01 00:00:00
abstract：:Stable in vivo mapping and modulation of the same neurons and brain circuits over extended periods is critical to both neuroscience and medicine. Current electrical implants offer single-neuron spatiotemporal resolution but are limited by such factors as relative shear motion and chronic immune responses during long-t...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.3969
更新日期：2016-10-01 00:00:00
abstract：:We established a conditional site-specific recombination system based on dimerizable Cre recombinase-mediated recombination in the apicomplexan parasite Toxoplasma gondii. Using a new single-vector strategy that allows ligand-dependent, efficient removal of a gene of interest, we generated three knockouts of apicomple...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.2301
更新日期：2013-02-01 00:00:00
abstract：:Electrically excitable cells are important in the normal functioning and in the pathophysiology of many biological processes. These cells are typically embedded in dense, heterogeneous tissues, rendering them difficult to target selectively with conventional electrical stimulation methods. The algal protein Channelrho...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth936
更新日期：2006-10-01 00:00:00
abstract：:Systems biology conceptualizes biological systems as dynamic networks of interacting elements, whereby functionally important properties are thought to emerge from the structure of such networks. Owing to the ubiquitous role of complexes of interacting proteins in biological systems, their subunit composition and temp...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.1390
更新日期：2009-11-01 00:00:00
abstract：:Deciphering global signaling networks is of great importance for the detailed understanding of cellular signaling processes controlling many important biological functions. Among signaling processes, tyrosine phosphorylation has a central role. At present, adequate techniques for the global characterization of the tyr...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth917
更新日期：2006-09-01 00:00:00
abstract：: ...
journal_title：Nature methods
pub_type： 评论,杂志文章
doi：10.1038/s41592-019-0343-9
更新日期：2019-03-01 00:00:00
abstract：:Despite the widespread adoption of organoids as biomimetic tissue models, methods to comprehensively analyze cell-type-specific post-translational modification (PTM) signaling networks in organoids are absent. Here, we report multivariate single-cell analysis of such networks in organoids and organoid cocultures. Simu...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/s41592-020-0737-8
更新日期：2020-03-01 00:00:00
abstract：:Researchers designed an enzyme to carry out the Diels-Alder reaction, an activity not found in nature. ...
journal_title：Nature methods
pub_type： 评论,杂志文章
doi：10.1038/nmeth0910-671
更新日期：2010-09-01 00:00:00
abstract：:Recording light-microscopy images of large, nontransparent specimens, such as developing multicellular organisms, is complicated by decreased contrast resulting from light scattering. Early zebrafish development can be captured by standard light-sheet microscopy, but new imaging strategies are required to obtain high-...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.1476
更新日期：2010-08-01 00:00:00
abstract：:To engineer a stem cell genome, we developed a technology for targeted elimination of chromosomes from mouse embryonic stem (ES)-somatic hybrid cells. Here we demonstrate the use of a universal chromosome elimination cassette (CEC) for elimination of a single embryonic stem cell (ESC)-derived chromosome 11 or 12, and ...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth973
更新日期：2007-01-01 00:00:00
abstract：:Ribonucleoproteins (RNPs) are key regulators of cellular function. We established an efficient approach, crosslinking of segmentally isotope-labeled RNA and tandem mass spectrometry (CLIR-MS/MS), to localize protein-RNA interactions simultaneously at amino acid and nucleotide resolution. The approach was tested on pol...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.4235
更新日期：2017-05-01 00:00:00
abstract：:Traditionally, crystallographic analysis of macromolecules has depended on large, well-ordered crystals, which often require significant effort to obtain. Even sizable crystals sometimes suffer from pathologies that render them inappropriate for high-resolution structure determination. Here we show that fragmentation ...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.4178
更新日期：2017-02-13 00:00:00
abstract：:Here we integrated multiphoton laser scanning microscopy and the registration of second harmonic generation images of collagen fibers to overcome difficulties in tracking stromal cell-matrix interactions for several days in live mice. We show that the matrix-modifying hormone relaxin increased tumor-associated fibrobl...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.1295
更新日期：2009-02-01 00:00:00
abstract：:Cell signaling, one of key processes in both normal cellular function and disease, is coordinated by numerous interactions between membrane proteins that change in response to stimuli. We present a split ubiquitin-based method for detection of integral membrane protein-protein interactions (PPIs) in human cells, terme...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.2895
更新日期：2014-05-01 00:00:00
abstract：:Massively parallel single-cell and single-nucleus RNA sequencing has opened the way to systematic tissue atlases in health and disease, but as the scale of data generation is growing, so is the need for computational pipelines for scaled analysis. Here we developed Cumulus-a cloud-based framework for analyzing large-s...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/s41592-020-0905-x
更新日期：2020-08-01 00:00:00
abstract：:The ability to selectively interfere with post-translationally modified proteins would have many biological and therapeutic applications. However, post-translational modifications cannot be selectively targeted by nucleic-acid-based interference approaches. Here we describe post-translational intracellular silencing a...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.4144
更新日期：2017-03-01 00:00:00
abstract：:The dynamic reshaping of tissues during morphogenesis results from a combination of individual cell behaviors and collective cell rearrangements. However, a comprehensive framework to unambiguously measure and link cell behavior to tissue morphogenesis is lacking. Here we introduce such a kinematic framework, bridging...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.1327
更新日期：2009-06-01 00:00:00
abstract：:We present a method to robustly discriminate clustered from randomly distributed molecules detected with techniques based on single-molecule localization microscopy, such as PALM and STORM. The approach is based on deliberate variation of labeling density, such as titration of fluorescent antibody, combined with quant...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.3897
更新日期：2016-08-01 00:00:00
abstract：:We describe a general approach for refining protein structure models on the basis of cryo-electron microscopy maps with near-atomic resolution. The method integrates Monte Carlo sampling with local density-guided optimization, Rosetta all-atom refinement and real-space B-factor fitting. In tests on experimental maps o...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.3286
更新日期：2015-04-01 00:00:00
abstract：:Spontaneous and sensory-evoked activity propagates across varying spatial scales in the mammalian cortex, but technical challenges have limited conceptual links between the function of local neuronal circuits and brain-wide network dynamics. We present a method for simultaneous cellular-resolution two-photon calcium i...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/s41592-019-0625-2
更新日期：2020-01-01 00:00:00
abstract：:Epistasis analysis, which reports on the extent to which the function of one gene depends on the presence of a second, is a powerful tool for studying the functional organization of the cell. Systematic genome-wide studies of epistasis, however, have been limited, with the majority of data being collected in the buddi...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth1098
更新日期：2007-10-01 00:00:00
abstract：:The analysis of structure and dynamics of biomolecules is important for understanding their function. Toward this aim, we introduce a method called 'switchable FRET', which combines single-molecule fluorescence resonance energy transfer (FRET) with reversible photoswitching of fluorophores. Typically, single-molecule ...
journal_title：Nature methods
pub_type： 杂志文章
doi：10.1038/nmeth.1502
更新日期：2010-10-01 00:00:00
