Abstract:
:Studying autism genes in the context of the protein complexes to which they belong illustrates the potential of network-centric approaches for understanding complex genetic disease.
journal_name
Cell Systjournal_title
Cell systemsauthors
Das J,Meyer MJ,Yu Hdoi
10.1016/j.cels.2015.11.004subject
Has Abstractpub_date
2015-11-25 00:00:00pages
312-3issue
5eissn
2405-4712issn
2405-4720pii
S2405-4712(15)00190-8journal_volume
1pub_type
杂志文章相关文献
Cell Systems文献大全abstract::Here, we outline p-Creode, a new algorithm to construct multi-branching cell lineage trajectories from single-cell data. Application of this platform to diverse sources of single-cell data demonstrates its robustness and scalability, while the discovery of a new origin for rare gut tuft cells showcases the utility of ...
journal_title:Cell systems
pub_type: 评论,杂志文章
doi:10.1016/j.cels.2017.12.015
更新日期:2018-01-24 00:00:00
abstract::Living systems integrate biochemical reactions that determine the functional state of each cell. Reactions are primarily mediated by proteins. In proteomic studies, these have been treated as independent entities, disregarding their higher-level organization into complexes that affects their activity and/or function a...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2020.01.001
更新日期:2020-02-26 00:00:00
abstract::Three studies demonstrate the potential of state-of-the-art mass spectrometry-based proteomics for rapid, deep characterization of proteomes. ...
journal_title:Cell systems
pub_type: 评论,杂志文章
doi:10.1016/j.cels.2016.03.002
更新日期:2016-03-23 00:00:00
abstract::Effective design of combination therapies requires understanding the changes in cell physiology that result from drug interactions. Here, we show that the genome-wide transcriptional response to combinations of two drugs, measured at a rigorously controlled growth rate, can predict higher-order antagonism with a third...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2019.10.004
更新日期:2019-11-27 00:00:00
abstract::A new bioinformatics tool predicts natively disordered protein control elements that function in cis, opening the door to more systematic studies of this biomedically important class of protein modules. ...
journal_title:Cell systems
pub_type: 评论,杂志文章
doi:10.1016/j.cels.2016.02.011
更新日期:2016-02-24 00:00:00
abstract::Single-cell RNA-seq has emerged as a powerful tool in diverse applications, from determining the cell-type composition of tissues to uncovering regulators of developmental programs. A near-universal step in the analysis of single-cell RNA-seq data is to hypothesize the identity of each cell. Often, this is achieved by...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2019.06.004
更新日期:2019-08-28 00:00:00
abstract::Gram-negative bacteria are intrinsically resistant to drugs because of their double-membrane envelope structure that acts as a permeability barrier and as an anchor for efflux pumps. Antibiotics are blocked and expelled from cells and cannot reach high-enough intracellular concentrations to exert a therapeutic effect....
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2019.03.008
更新日期:2019-04-24 00:00:00
abstract::Accurately translating genotype to phenotype requires accounting for the functional impact of genetic variation at many biological scales. Here we present a strategy for genotype-phenotype reasoning based on existing knowledge of cellular subsystems. These subsystems and their hierarchical organization are defined by ...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2016.02.003
更新日期:2016-02-24 00:00:00
abstract::It is unclear how standing genetic variation affects the prognosis of prostate cancer patients. To provide one controlled answer to this problem, we crossed a dominant, penetrant mouse model of prostate cancer to Diversity Outbred mice, a collection of animals that carries over 40 million SNPs. Integration of disease ...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2016.10.018
更新日期:2017-01-25 00:00:00
abstract::We combine a genome-scale RNAi screen in mouse epiblast stem cells (EpiSCs) with genetic interaction, protein localization, and "protein-level dependency" studies-a systematic technique that uncovers post-transcriptional regulation-to delineate the network of factors that control the expression of Oct4, a key regulato...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2015.08.002
更新日期:2015-08-26 00:00:00
abstract::Recent mass spectrometry maps of the human interactome independently support the existence of a large multiprotein complex, dubbed "Commander." Broadly conserved across animals and ubiquitously expressed in nearly every human cell type examined thus far, Commander likely plays a fundamental cellular function, akin to ...
journal_title:Cell systems
pub_type: 杂志文章,评审
doi:10.1016/j.cels.2017.04.006
更新日期:2017-05-24 00:00:00
abstract::Establishing a quantitative connection between the population growth rate and the generation times of single cells is a prerequisite for understanding evolutionary dynamics of microbes. However, existing theories fail to account for the experimentally observed correlations between mother-daughter generation times that...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2017.08.015
更新日期:2017-10-25 00:00:00
abstract::Medically induced loss of consciousness (mLOC) during anesthesia is associated with a macroscale breakdown of brain connectivity, yet the neural microcircuit correlates of mLOC remain unknown. To explore this, we applied different analytical approaches (t-SNE/watershed segmentation, affinity propagation clustering, PC...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2019.03.007
更新日期:2019-05-22 00:00:00
abstract::Although molecular mechanisms that prompt cell-cycle arrest in response to DNA damage have been elucidated, the systems-level properties of DNA damage checkpoints are not understood. Here, using time-lapse microscopy and simulations that model the cell cycle as a series of Poisson processes, we characterize DNA damage...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2017.09.015
更新日期:2017-11-22 00:00:00
abstract::The tumor-suppressing transcription factor p53 is highly conserved at the protein level and plays a key role in the DNA damage response. One important aspect of p53 regulation is its dynamics in response to DNA damage, which include oscillations. Here, we observe that, while the qualitative oscillatory nature of p53 d...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2017.09.012
更新日期:2017-10-25 00:00:00
abstract::Escherichia coli gene expression knockdown using synthetic small RNA (sRNA) can be fine-tuned by altering sRNA sequences to modulate target mRNA-binding ability, but this requires thorough checking for off-target effects. Here, we present an sRNA gene expression knockdown system fine-tuned by using different promoters...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2017.08.016
更新日期:2017-10-25 00:00:00
abstract::Understanding the effects of genetic perturbations on the cellular state has been challenging using traditional pooled screens, which typically rely on the delivery of a single perturbation per cell and unidimensional phenotypic readouts. Here, we use barcoded open reading frame overexpression libraries coupled with s...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2018.10.008
更新日期:2018-11-28 00:00:00
abstract::A principled approach to integrating metabolomics, proteomics, and genome-scale metabolic modeling facilitaties rational pathway engineering of E. coli. ...
journal_title:Cell systems
pub_type: 评论,杂志文章
doi:10.1016/j.cels.2016.05.005
更新日期:2016-06-22 00:00:00
abstract::The construction of complex gene-regulatory networks requires both inhibitory and upregulatory modules. However, the vast majority of RNA-based regulatory "parts" are inhibitory. Using a synthetic biology approach combined with SHAPE-seq, we explored the regulatory effect of RNA-binding protein (RBP)-RNA interactions ...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2019.04.007
更新日期:2019-07-24 00:00:00
abstract::Two studies show that noise is a key ingredient of new mechanisms for entraining the NF-κB system. ...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2016.12.008
更新日期:2016-12-21 00:00:00
abstract::One snapshot of the peer review process for "Death Rate of E. coli during Starvation Is Set by Maintenance Cost and Biomass Recycling" (Schink et al., 2019). ...
journal_title:Cell systems
pub_type: 评论,杂志文章
doi:10.1016/j.cels.2019.07.004
更新日期:2019-07-24 00:00:00
abstract::Patterning of periodic stripes during development requires mechanisms to control both stripe spacing and orientation. A number of models can explain how stripe spacing is controlled, including molecular mechanisms, such as Turing's reaction-diffusion model, as well as cell-based and mechanical mechanisms. However, how...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2015.12.001
更新日期:2015-12-23 00:00:00
abstract::The Library of Integrated Network-Based Cellular Signatures (LINCS) is an NIH Common Fund program that catalogs how human cells globally respond to chemical, genetic, and disease perturbations. Resources generated by LINCS include experimental and computational methods, visualization tools, molecular and imaging data,...
journal_title:Cell systems
pub_type: 杂志文章,评审
doi:10.1016/j.cels.2017.11.001
更新日期:2018-01-24 00:00:00
abstract::Although genetic mutations that alter organisms' average lifespans have been identified in aging research, our understanding of the dynamic changes during aging remains limited. Here, we integrate single-cell imaging, microfluidics, and computational modeling to investigate phenotypic divergence and cellular heterogen...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2019.02.002
更新日期:2019-03-27 00:00:00
abstract::How do rich biological behaviors arise from bi-molecular collisions? ...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2015.09.006
更新日期:2015-09-23 00:00:00
abstract::Cell-to-cell transcriptional variability in otherwise homogeneous cell populations plays an important role in tissue function and development. Single-cell RNA sequencing can characterize this variability in a transcriptome-wide manner. However, technical variation and the confounding between variability and mean expre...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2018.06.011
更新日期:2018-09-26 00:00:00
abstract::This month: imaging the organelle interactome (Lippincott-Schwartz), big data immunology (Pulendran, Ginhoux), protein interactomes expand (Barna, Harper, Marcotte), and computation/engineering insights (Milinkovitch, Silver, and Sastry). ...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2017.06.010
更新日期:2017-06-28 00:00:00
abstract::Many data sets exhibit well-defined structure that can be exploited to design faster search tools, but it is not always clear when such acceleration is possible. Here we introduce a framework for similarity search based on characterizing a data set's entropy and fractal dimension. We prove that searching scales in tim...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2015.08.004
更新日期:2015-08-26 00:00:00
abstract::One snapshot of the peer review process for "Cytoplasmic Amplification of Transcriptional Noise Generates Substantial Cell-to-Cell Variability" (Hansen et al., 2018). ...
journal_title:Cell systems
pub_type: 评论,杂志文章
doi:10.1016/j.cels.2018.10.003
更新日期:2018-10-24 00:00:00
abstract::A number of sequencing-based transcriptase drop-off assays have recently been developed to probe post-transcriptional dynamics of RNA-protein interaction, RNA structure, and RNA modification. Although these assays survey a diverse set of epitranscriptomic marks, we use the term toeprinting assays since they share meth...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2017.04.007
更新日期:2017-05-24 00:00:00