[HTML][HTML] Technological advances in cancer immunity: from immunogenomics to single-cell analysis and artificial intelligence

Y Xu, GH Su, D Ma, Y Xiao, ZM Shao… - Signal Transduction and …, 2021 - nature.com
Immunotherapies play critical roles in cancer treatment. However, given that only a few
patients respond to immune checkpoint blockades and other immunotherapeutic strategies …

Molecular basis and biological function of variability in spatial genome organization

EH Finn, T Misteli - Science, 2019 - science.org
BACKGROUND The eukaryotic genome is hierarchically organized in the cell nucleus into
DNA loops, chromatin domains, compartments, and, ultimately, chromosomes. Many of the …

Genetic circuit design automation

AAK Nielsen, BS Der, J Shin, P Vaidyanathan… - Science, 2016 - science.org
INTRODUCTION Cells respond to their environment, make decisions, build structures, and
coordinate tasks. Underlying these processes are computational operations performed by …

[HTML][HTML] Deep learning automates the quantitative analysis of individual cells in live-cell imaging experiments

DA Van Valen, T Kudo, KM Lane… - PLoS computational …, 2016 - journals.plos.org
Live-cell imaging has opened an exciting window into the role cellular heterogeneity plays
in dynamic, living systems. A major critical challenge for this class of experiments is the …

Global quantification of mammalian gene expression control

B Schwanhäusser, D Busse, N Li, G Dittmar… - Nature, 2011 - nature.com
Gene expression is a multistep process that involves the transcription, translation and
turnover of messenger RNAs and proteins. Although it is one of the most fundamental …

[HTML][HTML] Approximation and inference methods for stochastic biochemical kinetics—a tutorial review

D Schnoerr, G Sanguinetti… - Journal of Physics A …, 2017 - iopscience.iop.org
Stochastic fluctuations of molecule numbers are ubiquitous in biological systems. Important
examples include gene expression and enzymatic processes in living cells. Such systems …

The Standard European Vector Architecture (SEVA): a coherent platform for the analysis and deployment of complex prokaryotic phenotypes

R Silva-Rocha, E Martínez-García, B Calles… - Nucleic acids …, 2013 - academic.oup.com
Abstract The 'Standard European Vector Architecture'database (SEVA-DB, http://seva. cnb.
csic. es) was conceived as a user-friendly, web-based resource and a material clone …

Using gene expression noise to understand gene regulation

B Munsky, G Neuert, A Van Oudenaarden - Science, 2012 - science.org
Phenotypic variation is ubiquitous in biology and is often traceable to underlying genetic and
environmental variation. However, even genetically identical cells in identical environments …

Stochasticity of metabolism and growth at the single-cell level

DJ Kiviet, P Nghe, N Walker, S Boulineau… - Nature, 2014 - nature.com
Elucidating the role of molecular stochasticity in cellular growth is central to understanding
phenotypic heterogeneity and the stability of cellular proliferation. The inherent stochasticity …

Functional roles for noise in genetic circuits

A Eldar, MB Elowitz - Nature, 2010 - nature.com
The genetic circuits that regulate cellular functions are subject to stochastic fluctuations, or
'noise', in the levels of their components. Noise, far from just a nuisance, has begun to be …