Literature DB >> 29623300

Identifying Noise Sources governing cell-to-cell variability.

Simon Mitchell1, Alexander Hoffmann1.   

Abstract

Phenotypic differences often occur even in clonal cell populations. Many potential sources of such variation have been identified, from biophysical rate variance intrinsic to all chemical processes to asymmetric division of molecular components extrinsic to any particular signaling pathway. Identifying the sources of phenotypic variation and quantifying their contributions to cell fate variation is not possible without accurate single cell data. By combining such data with mathematical models of potential noise sources it is possible to characterize the impact of varying levels of each noise source and identify which sources of variation best explain the experimental observations. The mathematical framework of information theory provides metrics of the impact of noise on the reliability of a cell to sense its environment. While the presence of noise in a single cellular system reduces the reliability of signal transduction its impact on a population of varied single cells remains unclear.

Entities:  

Year:  2017        PMID: 29623300      PMCID: PMC5879788          DOI: 10.1016/j.coisb.2017.11.013

Source DB:  PubMed          Journal:  Curr Opin Syst Biol        ISSN: 2452-3100


  38 in total

1.  Role of antigen receptor affinity in T cell-independent antibody responses in vivo.

Authors:  Tien-An Yang Shih; Mario Roederer; Michel C Nussenzweig
Journal:  Nat Immunol       Date:  2002-03-18       Impact factor: 25.606

Review 2.  Circuitry of nuclear factor kappaB signaling.

Authors:  Alexander Hoffmann; David Baltimore
Journal:  Immunol Rev       Date:  2006-04       Impact factor: 12.988

3.  The mammalian MAPK/ERK pathway exhibits properties of a negative feedback amplifier.

Authors:  Oliver E Sturm; Richard Orton; Joan Grindlay; Marc Birtwistle; Vladislav Vyshemirsky; David Gilbert; Muffy Calder; Andrew Pitt; Boris Kholodenko; Walter Kolch
Journal:  Sci Signal       Date:  2010-12-21       Impact factor: 8.192

4.  Fundamental trade-offs between information flow in single cells and cellular populations.

Authors:  Ryan Suderman; John A Bachman; Adam Smith; Peter K Sorger; Eric J Deeds
Journal:  Proc Natl Acad Sci U S A       Date:  2017-05-12       Impact factor: 11.205

5.  Fundamental properties of unperturbed haematopoiesis from stem cells in vivo.

Authors:  Katrin Busch; Kay Klapproth; Melania Barile; Michael Flossdorf; Tim Holland-Letz; Susan M Schlenner; Michael Reth; Thomas Höfer; Hans-Reimer Rodewald
Journal:  Nature       Date:  2015-02-11       Impact factor: 49.962

6.  T cell signaling. Antigen affinity, costimulation, and cytokine inputs sum linearly to amplify T cell expansion.

Authors:  Julia M Marchingo; Andrey Kan; Robyn M Sutherland; Ken R Duffy; Cameron J Wellard; Gabrielle T Belz; Andrew M Lew; Mark R Dowling; Susanne Heinzel; Philip D Hodgkin
Journal:  Science       Date:  2014-11-28       Impact factor: 47.728

Review 7.  Functional roles for noise in genetic circuits.

Authors:  Avigdor Eldar; Michael B Elowitz
Journal:  Nature       Date:  2010-09-09       Impact factor: 49.962

Review 8.  Understanding the temporal codes of intra-cellular signals.

Authors:  Marcelo Behar; Alexander Hoffmann
Journal:  Curr Opin Genet Dev       Date:  2010-10-16       Impact factor: 5.578

Review 9.  Nature, nurture, or chance: stochastic gene expression and its consequences.

Authors:  Arjun Raj; Alexander van Oudenaarden
Journal:  Cell       Date:  2008-10-17       Impact factor: 41.582

10.  Stochastic Measurement Models for Quantifying Lymphocyte Responses Using Flow Cytometry.

Authors:  Andrey Kan; Damian Pavlyshyn; John F Markham; Mark R Dowling; Susanne Heinzel; Jie H S Zhou; Julia M Marchingo; Philip D Hodgkin
Journal:  PLoS One       Date:  2016-01-07       Impact factor: 3.240

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  9 in total

1.  Polypyrimidine tract-binding protein blocks miRNA-124 biogenesis to enforce its neuronal-specific expression in the mouse.

Authors:  Kyu-Hyeon Yeom; Simon Mitchell; Anthony J Linares; Sika Zheng; Chia-Ho Lin; Xiao-Jun Wang; Alexander Hoffmann; Douglas L Black
Journal:  Proc Natl Acad Sci U S A       Date:  2018-11-06       Impact factor: 11.205

2.  AP-1 transcription factor network explains diverse patterns of cellular plasticity in melanoma cells.

Authors:  Natacha Comandante-Lou; Douglas G Baumann; Mohammad Fallahi-Sichani
Journal:  Cell Rep       Date:  2022-08-02       Impact factor: 9.995

3.  Machine learning phenomics (MLP) combining deep learning with time-lapse-microscopy for monitoring colorectal adenocarcinoma cells gene expression and drug-response.

Authors:  M D'Orazio; M Murdocca; A Mencattini; P Casti; J Filippi; G Antonelli; D Di Giuseppe; M C Comes; C Di Natale; F Sangiuolo; E Martinelli
Journal:  Sci Rep       Date:  2022-05-20       Impact factor: 4.996

Review 4.  Finding new edges: systems approaches to MTOR signaling.

Authors:  Alexander Martin Heberle; Ulrike Rehbein; Maria Rodríguez Peiris; Kathrin Thedieck
Journal:  Biochem Soc Trans       Date:  2021-02-26       Impact factor: 5.407

5.  Rapid antibiotic susceptibility testing of bacteria from patients' blood via assaying bacterial metabolic response with surface-enhanced Raman spectroscopy.

Authors:  Yin-Yi Han; Yi-Chun Lin; Wei-Chih Cheng; Yu-Tzu Lin; Lee-Jene Teng; Juen-Kai Wang; Yuh-Lin Wang
Journal:  Sci Rep       Date:  2020-07-27       Impact factor: 4.379

Review 6.  What Will B Will B: Identifying Molecular Determinants of Diverse B-Cell Fate Decisions Through Systems Biology.

Authors:  Simon Mitchell
Journal:  Front Cell Dev Biol       Date:  2021-01-12

Review 7.  Concepts and Applications of Information Theory to Immuno-Oncology.

Authors:  Aleksandra Karolak; Sergio Branciamore; Jeannine S McCune; Peter P Lee; Andrei S Rodin; Russell C Rockne
Journal:  Trends Cancer       Date:  2021-02-20

8.  RNase E and HupB dynamics foster mycobacterial cell homeostasis and fitness.

Authors:  Anna Griego; Thibaut Douché; Quentin Giai Gianetto; Mariette Matondo; Giulia Manina
Journal:  iScience       Date:  2022-04-12

Review 9.  Nobel Turing Challenge: creating the engine for scientific discovery.

Authors:  Hiroaki Kitano
Journal:  NPJ Syst Biol Appl       Date:  2021-06-18
  9 in total

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