Selected before selection: A case for inherent antigen bias in the T cell receptor repertoire [0.03%]
先选择再选择：T细胞受体库固有抗原偏向性的案例分析
Paul G Thomas,Jeremy Chase Crawford
Paul G Thomas
T cell receptor recombination is frequently described as a random or semi-random process that belies the now well-established principle that recombination is extremely biased towards the generation of particular receptor chains. Here we des...
Jason I Griffiths,Adam L Cohen,Veronica Jones et al.
Jason I Griffiths et al.
Current cancer therapies target a limited set of tumor features, rather than considering the tumor as a whole. Systems biology aims to reveal therapeutic targets associated with a variety of facets in an individual's tumor, such as genetic ...
Decoding the Body Language of Immunity: Tackling the Immune System at the Organism Level [0.03%]
破解免疫的身体语言：从有机体层面攻克免疫系统
Nicolas Chevrier
Nicolas Chevrier
The immune system is a dynamic mesh of molecules, cells and tissues spanning the entire organism. Despite a wealth of knowledge about the components of the immune system, little is known about the general rules governing the organismal circ...
Treatable traits and therapeutic targets: Goals for systems biology in infectious disease [0.03%]
可治疗性特征和治疗目标：感染性疾病系统生物学的目标
Clark D Russell,J Kenneth Baillie
Clark D Russell
Among the many medical applications of systems biology, we contend that infectious disease is one of the most important and tractable targets. We take the view that the complexity of the immune system is an inevitable consequence of its evo...
Cancer Ecology and Evolution: Positive interactions and system vulnerability [0.03%]
癌症生态与进化：积极相互作用和系统脆弱性
Frederick R Adler,Deborah M Gordon
Frederick R Adler
Parallels of cancer with ecology and evolution have provided new insights into the initiation and spread of cancer, and new approaches to therapy. This review describes those parallels while emphasizing some key contrasts. We argue that can...
Ellen V Rothenberg
Ellen V Rothenberg
Specification of multipotent blood precursor cells in postnatal mice to become committed T-cell precursors involves a gene regulatory network of several interacting but functionally distinct modules. Many links of this network have been def...
Within-host mathematical models of hepatitis B virus infection: Past, present, and future [0.03%]
乙肝病毒侵染的宿主公理数学模型：过去、现在与未来
Ashish Goyal,Laura E Liao,Alan S Perelson
Ashish Goyal
Mathematical modeling has been instrumental in enhancing our understanding of the viral dynamics of hepatitis B virus (HBV) infection. We give a primer on HBV infection in humans and a brief overview of the development of within-host mathem...
Derek C Macallan,Robert Busch,Becca Asquith
Derek C Macallan
Stable isotope labeling is a generally applicable method of quantifying cell dynamics. Its advent has opened up the way for the quantitative study of T cells in humans. However, the literature is confusing as estimates vary by orders of mag...
Modeling cell-cell communication for immune systems across space and time [0.03%]
跨越时间和空间的免疫系统细胞间通讯模拟模型
Hirad Daneshpour,Hyun Youk
Hirad Daneshpour
Communicating is crucial for cells to coordinate their behaviors. Immunological processes, involving diverse cytokines and cell types, are ideal for developing frameworks for modeling coordinated behaviors of cells. Here, we review recent s...
From Genotype to Phenotype: Augmenting Deep Learning with Networks and Systems Biology [0.03%]
从基因型到表型：利用网络和系统生物学增强深度学习
Vahid H Gazestani,Nathan E Lewis
Vahid H Gazestani
Cells, as complex systems, consist of diverse interacting biomolecules arranged in dynamic hierarchical modules. Recent advances in deep learning methods now allow one to encode this rich existing knowledge in the architecture of the learni...