Zobrazeno 1 - 10 of 13 pro vyhledávání: '"Dirk Benzinger"'
1
Akademický článek
Cell-in-the-loop pattern formation with optogenetically emulated cell-to-cell signaling
Autor: Melinda Liu Perkins, Dirk Benzinger, Murat Arcak, Mustafa Khammash
Publikováno v: Nature Communications, Vol 11, Iss 1, Pp 1-10 (2020)
Synthetic biological pattern formation is challenging to engineer due to theoretical complexity and practical limitations. Here, the authors introduce a cell-in-the-loop approach in which cells interact through in silico signaling.
Externí odkaz: https://doaj.org/article/66a0e8a410b8447d89243a33e77da954
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2
Akademický článek
Pulsatile inputs achieve tunable attenuation of gene expression variability and graded multi-gene regulation
Autor: Dirk Benzinger, Mustafa Khammash
Publikováno v: Nature Communications, Vol 9, Iss 1, Pp 1-10 (2018)
Natural transcription factors are often regulated in a pulsatile fashion unlike many synthetic systems. Here the authors show that dynamic pulsatile signals reduce cell-to-cell gene expression variability in an optogenetic construct.
Externí odkaz: https://doaj.org/article/ee3b2292e31c4f589980cf5e69d19370
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3
Optogenetic closed-loop feedback control of the unfolded protein response optimizes protein production
Autor: Moritz Benisch, Dirk Benzinger, Sant Kumar, Hanrong Hu, Mustafa Khammash
Publikováno v: Metabolic Engineering, 77
In biotechnological protein production processes, the onset of protein unfolding at high gene expression levels leads to diminishing production yields and reduced efficiency. Here we show thatin silicoclosed-loop optogenetic feedback control of the u
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::71558a7c2233f1d9b92dc5e0e987771e
https://doi.org/10.1101/2022.10.27.514034
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4
Synthetic gene networks recapitulate dynamic signal decoding and differential gene expression
Autor: Serguei Ovinnikov, Mustafa Khammash, Dirk Benzinger
Publikováno v: Cell Systems, 13 (5)
Cells live in constantly changing environments and employ dynamic signaling pathways to transduce information about the signals they encounter. However, the mechanisms by which dynamic signals are decoded into appropriate gene expression patterns rem
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b6283c84ecca434664facf462776e0a2
https://hdl.handle.net/20.500.11850/549768
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5
Cell-in-the-loop pattern formation with optogenetically emulated cell-to-cell signaling
Autor: Dirk Benzinger, Mustafa Khammash, Melinda Liu Perkins, Murat Arcak
Publikováno v: Nature Communications, 11 (1)
Nature Communications
Nature Communications, Vol 11, Iss 1, Pp 1-10 (2020)
Designing and implementing synthetic biological pattern formation remains challenging due to underlying theoretical complexity as well as the difficulty of engineering multicellular networks biochemically. Here, we introduce a cell-in-the-loop approa
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5d5ac18f1a2237db338030b0a18ab3f7
https://hdl.handle.net/20.500.11850/406470
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6
Principles of Systems Biology, No. 30
Autor: Adam M Deutschbauer, Mustafa Khammash, Marc Rullan, Andreas Milias-Argeitis, Hernan G. Garcia, Dirk Benzinger, Erin M Langdon, Amy S. Gladfelter
Publikováno v: Cell systems, 7(1), 1-2
This month: two examples of door-opening, innovative microscopy (Garcia and also Benzinger et al.), expanding our functional knowledge of bacteria by over 10,000 genes (Deutschbauer), and probing how RNA structure dictates inclusion in liquid-like dr
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3dc362216565c6641dfb81079a8f229f
https://research.rug.nl/en/publications/aea7d9e0-0770-4c06-b385-3c474d0d4bff
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7
Tuning gene expression variability and multi-gene regulation by dynamic transcription factor control
Autor: Mustafa Khammash, Dirk Benzinger
Many natural transcription factors are regulated in a pulsatile fashion, but it remains unknown whether synthetic gene expression systems can benefit from such dynamic regulation. Using a fast-acting, light-responsive transcription factor inSaccharom
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::53906d753dcaa59ca91728f152bffcc1
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8
Pulsatile inputs achieve tunable attenuation of gene expression variability and graded multi-gene regulation
Autor: Mustafa Khammash, Dirk Benzinger
Publikováno v: Nature Communications
Nature Communications, Vol 9, Iss 1, Pp 1-10 (2018)
Nature Communications, 9
Many natural transcription factors are regulated in a pulsatile fashion, but it remains unknown whether synthetic gene expression systems can benefit from such dynamic regulation. Here we find, using a fast-acting, optogenetic transcription factor in
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::748151a015292d9af98c298ad313e882
https://pubmed.ncbi.nlm.nih.gov/30166548
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10
Optogenetic single-cell control of transcription achieves mRNA tunability and reduced variability
Autor: Ankit Gupta, Andreas Milias-Argeitis, Dirk Benzinger, Mustafa Khammash, Marc Rullan, Gregor W. Schmidt
The study of gene expression at the single-cell level has exposed the importance of stochasticity for the behavior of cellular systems. Research on cellular variability has mostly relied on observing expression either in response to natural stimuli o
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::dbb88aa5d8f50371c1b3db552522981d
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