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PubMed Publications| Keyword search (4,163 papers available) |  |
"synthetic biology" Keyword-tagged Publications:
| Title | Authors | PubMed ID | |
|---|---|---|---|
| 1 | Benzylisoquinoline Alkaloid Production in Yeast via Norlaudanosoline Improves Titer, Selectivity, and Yield | Narcross L; Pyne ME; Kevvai K; Siu KH; Dueber JE; Martin VJJ; | 41779670 BIOLOGY |
| 2 | A Bacteroides synthetic biology toolkit to build an in vivo malabsorption biosensor | McCallum G; Burckhardt JC; He J; Hong A; Potvin-Trottier L; Tropini C; | 41610848 BIOLOGY |
| 3 | Robustness and evolvability: Revisited, redefined and applied | Kharma N; Bédard-Couture R; | 39098381 ENCS |
| 4 | BioCloneBot: A versatile, low-cost, and open-source automated liquid handler | Wells KC; Kharma N; Jaunky BB; Nie K; Aguiar-Tawil G; Berry D; | 38524156 BIOLOGY |
| 5 | Functional Synthetic Biology | Aldulijan I; Beal J; Billerbeck S; Bouffard J; Chambonnier G; Ntelkis N; Guerreiro I; Holub M; Ross P; Selvarajah V; Sprent N; Vidal G; Vignoni A; | 37073284 BIOLOGY |
| 6 | Advancing Undergraduate Synthetic Biology Education: Insights from a Canadian iGEM Student Perspective | Diep P; Boucinha A; Kell BJ; Yeung BA; Chen XA; Tsyplenkov D; Serra D; Escobar A; Gnanapragasam A; Emond CA; Sajtovich VA; Mahadevan R; Kilkenny DM; Gini-Newman G; Kaern M; Ingalls B; | 34237221 BIOLOGY |
| 7 | Using Models to (Re-)Design Synthetic Circuits. | McCallum G, Potvin-Trottier L | 33405217 BIOLOGY |
| 8 | Computer-Aided Design of Active Pseudoknotted Hammerhead Ribozymes. | Najeh S, Zandi K, Djerroud S, Kharma N, Perreault J | 32712917 ENCS |
| 9 | Reconstituting Plant Secondary Metabolism in Saccharomyces cerevisiae for Production of High-Value Benzylisoquinoline Alkaloids. | Pyne ME, Narcross L, Fossati E, Bourgeois L, Burton E, Gold ND, Martin VJ | 27417930 CSFG |
| Title: | Robustness and evolvability: Revisited, redefined and applied | ||||
| Authors: | Kharma N, Bédard-Couture R | ||||
| Link: | https://pubmed.ncbi.nlm.nih.gov/39098381/ | ||||
| DOI: | 10.1016/j.biosystems.2024.105281 | ||||
| Publication: | Bio Systems | ||||
| Keywords: | Digital modeling; Evolutionary algorithms; Evolvability; Oscillating circuits; Ribozymes; Robustness; Synthetic biology; | ||||
| PMID: | 39098381 | Category: | Date Added: | 2024-08-05 | |
| Dept Affiliation: |
ENCS
1 Electrical and Computer Engineering Department, Concordia University, 1455 Blvd. De Maisonneuve Ouest, Montreal, H3G 1M8, Quebec, Canada. 2 Département de génie logiciel et des technologies de l'information, École de Technologie Supérieure, 1100 Notre-Dame St W, Montreal, H3C 1K3, Quebec, Canada. Electronic address: remi.bc@outlook.com. |
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Description: |
Building on and extending existing definitions of robustness and evolvability, we propose and utilize new formal definitions, with matching measures, of robustness and evolvability of systems with genotypes and corresponding phenotypes. We explain and show how these measures are more general and more representative of the concepts they stand for, than the commonly used/referenced measures originally proposed by Wagner. Further, a versatile digital modeling approach (BNK) is proposed that is inspired by NK systems. However, unlike NK systems, BNK incorporates a genotype and a phenotype, in addition to fitness. We develop and apply an Evolutionary Algorithm to a BNK-modeled system to find different types of perfect oscillators. We then map the resulting oscillating systems to possible genetic circuit realizations. Continuing with the synthetic biology theme, we also investigate the effect of noise in DNA synthesis on the predicted functionality of a DNA-based biosensor (i.e., its robustness), and we carry out a theoretical assessment of the evolvability of different types of ribozymes, undergoing directed evolution. |
