Gene regulatory networks exhibit several kinds of memory: quantification of memory in biological and random transcriptional networks
| Autor: | Erik Hoel, Surama Biswas, Santosh Manicka, Michael Levin |
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| Rok vydání: | 2020 |
| Předmět: |
0301 basic medicine
Change over time Multidisciplinary Natural selection business.industry Computer science Systems biology biological sciences Transcriptional Networks Gene regulatory network systems biology 02 engineering and technology Computational biology Content-addressable memory 021001 nanoscience & nanotechnology Article 03 medical and health sciences 030104 developmental biology gene network lcsh:Q 0210 nano-technology business lcsh:Science Developmental biology Biomedicine |
| Zdroj: | iScience, Vol 24, Iss 3, Pp 102131-(2021) iScience |
| ISSN: | 2589-0042 |
| Popis: | Summary Gene regulatory networks (GRNs) process important information in developmental biology and biomedicine. A key knowledge gap concerns how their responses change over time. Hypothesizing long-term changes of dynamics induced by transient prior events, we created a computational framework for defining and identifying diverse types of memory in candidate GRNs. We show that GRNs from a wide range of model systems are predicted to possess several types of memory, including Pavlovian conditioning. Associative memory offers an alternative strategy for the biomedical use of powerful drugs with undesirable side effects, and a novel approach to understanding the variability and time-dependent changes of drug action. We find evidence of natural selection favoring GRN memory. Vertebrate GRNs overall exhibit more memory than invertebrate GRNs, and memory is most prevalent in differentiated metazoan cell networks compared with undifferentiated cells. Timed stimuli are a powerful alternative for biomedical control of complex in vivo dynamics without genomic editing or transgenes. Graphical abstract Highlights • Gene regulatory networks' dynamics are modified by transient stimuli • GRNs have several different types of memory, including associative conditioning • Evolution favored GRN memory, and differentiated cells have the most memory capacity • Training GRNs offers a novel biomedical strategy not dependent on genetic rewiring Biological sciences; gene network; systems biology |
| Databáze: | OpenAIRE |
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