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 checkpoints in individual, asynchronously proliferating cells. We demonstrate that, within early G1 and G2, checkpoints are stringent: DNA damage triggers an abrupt, all-or-none cell-cycle arrest. The duration of this arrest correlates with the severity of DNA damage. After the cell passes commitment points within G1 and G2, checkpoint stringency is relaxed. By contrast, all of S phase is comparatively insensitive to DNA damage. This checkpoint is graded: instead of halting the cell cycle, increasing DNA damage leads to slower S phase progression. In sum, we show that a cell's response to DNA damage depends on its exact cell-cycle position and that checkpoints are phase-dependent, stringent or relaxed, and graded or all-or-none.
journal_name
Cell Systjournal_title
Cell systemsauthors
Chao HX,Poovey CE,Privette AA,Grant GD,Chao HY,Cook JG,Purvis JEdoi
10.1016/j.cels.2017.09.015subject
Has Abstractpub_date
2017-11-22 00:00:00pages
445-459.e5issue
5eissn
2405-4712issn
2405-4720pii
S2405-4712(17)30436-2journal_volume
5pub_type
杂志文章相关文献
Cell Systems文献大全abstract::One snapshot of the peer review process for "Critical Roles of the Pentose Phosphate Pathway and GLN3 in Isobutanol-Specific Tolerance in Yeast" (Kuroda et al., 2019). ...
journal_title:Cell systems
pub_type: 评论,杂志文章
doi:10.1016/j.cels.2020.01.005
更新日期:2020-02-26 00:00:00
abstract::Adenocarcinoma accounts for more than 40% of lung malignancy, and microscopic pathology evaluation is indispensable for its diagnosis. However, how histopathology findings relate to molecular abnormalities remains largely unknown. Here, we obtained H&E-stained whole-slide histopathology images, pathology reports, RNA ...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2017.10.014
更新日期:2017-12-27 00:00:00
abstract::Advances in biological engineering headline this month's Cell Systems call (Cell Systems 1, 307), alongside intriguing applications of modeling from the Elf, Goentoro, and Wolf groups. Check out our recent blogpost: http://crosstalk.cell.com/blog/a-call-for-papers-on-biological-engineering-and-synthetic-biology. ...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2016.08.006
更新日期:2016-08-01 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::Systematic assessment of tyrosine kinase-substrate relationships is fundamental to a better understanding of cellular signaling and its profound alterations in human diseases such as cancer. In human cells, such assessments are confounded by complex signaling networks, feedback loops, conditional activity, and intra-k...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2017.08.001
更新日期:2017-08-23 00:00:00
abstract::Network-based molecular modeling of physiological behaviors has proven invaluable in the study of complex diseases such as cancer, but these approaches remain largely untested in contexts involving interacting tissues such as autoimmunity. Here, using Alopecia Areata (AA) as a model, we have adapted regulatory network...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2015.11.001
更新日期:2015-11-25 00:00:00
abstract::Racism and COVID-19 represent a pandemic on a pandemic for Blacks. The pandemics find themselves synergized to the detriment of Blacks and their health. The complexity of the combination of these pandemics are evident when examining the interplay between racist policing practices and health. ...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2020.07.002
更新日期:2020-07-22 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::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::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_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2015.11.004
更新日期:2015-11-25 00:00:00
abstract::Mechanistic models explicitly represent hypothesized biological knowledge. As such, they offer more generalizability than data-driven models. However, identifying model curation efforts that improve performance for mechanistic models is nontrivial. Here, we develop a solution to this problem for genome-scale metabolic...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2019.11.006
更新日期:2020-01-22 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::Hemizygous deletion of a gene in tumor cells frequently causes reduced expression of its encoded mRNA and protein, as well as reduced protein-but not mRNA-expression of other members in the same protein complex. ...
journal_title:Cell systems
pub_type: 评论,杂志文章
doi:10.1016/j.cels.2017.10.005
更新日期:2017-10-25 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::Recent advances in synthetic biology and biological system engineering have allowed the design and construction of engineered live biotherapeutics targeting a range of human clinical applications. In this review, we outline how systems approaches have been used to move from simple constitutive systems, where a single ...
journal_title:Cell systems
pub_type: 杂志文章,评审
doi:10.1016/j.cels.2018.06.008
更新日期:2018-07-25 00:00:00
abstract::Small RNA sequencing has been widely adopted to study the diversity of extracellular RNAs (exRNAs) in biofluids; however, the analysis of exRNA samples can be challenging: they are vulnerable to contamination and artifacts from different isolation techniques, present in lower concentrations than cellular RNA, and occa...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2019.03.004
更新日期:2019-04-24 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::It is known that the calcium-dependent transcription factor NFAT initiates transcription in response to pulsatile loads of calcium signal. However, the relative contributions of calcium oscillation frequency, amplitude, and duty cycle to transcriptional activity remain unclear. Here, we engineer HeLa cells to permit o...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2016.03.010
更新日期:2016-04-27 00:00:00
abstract::Chinese hamster ovary (CHO) cells dominate biotherapeutic protein production and are widely used in mammalian cell line engineering research. To elucidate metabolic bottlenecks in protein production and to guide cell engineering and bioprocess optimization, we reconstructed the metabolic pathways in CHO and associated...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2016.10.020
更新日期:2016-11-23 00:00:00
abstract::This month: selected work from the 2018 RECOMB meeting, organized by Ecole Polytechnique and held last April in Paris. ...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2018.08.005
更新日期:2018-08-22 00:00:00
abstract::The accumulation of protein damage in aging organisms is thought to contribute to many aging-related diseases. Yet the properties determining which proteins are most susceptible remain poorly understood. Are certain conformations more vulnerable? Which chaperones are the main guardians? We address these questions with...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2018.05.001
更新日期:2018-06-27 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::Ribosome profiling is a widespread tool for studying translational dynamics in human cells. Its central assumption is that ribosome footprint density on a transcript quantitatively reflects protein synthesis. Here, we test this assumption using pulsed-SILAC (pSILAC) high-accuracy targeted proteomics. We focus on multi...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2017.05.001
更新日期:2017-06-28 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::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::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::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::Robust biological oscillators retain the critical ability to function in the presence of environmental perturbations. Although central architectures that support robust oscillations have been extensively studied, networks containing the same core vary drastically in their potential to oscillate, and it remains elusive...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2017.06.013
更新日期:2017-07-26 00:00:00
abstract::An integrated approach unifies experimental observations and mathematical modeling to represent differentiation dynamics as discrete transition events underpinned by stochastic transitions between hidden states. ...
journal_title:Cell systems
pub_type: 评论,杂志文章
doi:10.1016/j.cels.2017.09.009
更新日期:2017-09-27 00:00:00
abstract::Proper segregation of the replicated genome requires that kinetochores form and maintain bioriented, amphitelic attachments to microtubules from opposite spindle poles and eliminate erroneous, syntelic attachments to microtubules from the same spindle pole. Phosphorylation of kinetochore proteins destabilizes low-tens...
journal_title:Cell systems
pub_type: 杂志文章
doi:10.1016/j.cels.2017.05.003
更新日期:2017-06-28 00:00:00