Zobrazeno 1 - 10
of 17
pro vyhledávání: '"Benjamin R. Jack"'
Autor:
Benjamin R. Jack, Daniel R. Boutz, Matthew L. Paff, Bartram L. Smith, James J. Bull, Claus O. Wilke
Publikováno v:
G3: Genes, Genomes, Genetics, Vol 7, Iss 9, Pp 2957-2968 (2017)
A general means of viral attenuation involves the extensive recoding of synonymous codons in the viral genome. The mechanistic underpinnings of this approach remain unclear, however. Using quantitative proteomics and RNA sequencing, we explore the mo
Externí odkaz:
https://doaj.org/article/5d06a79440d84bc19a1b2c6ab1cfe2dd
Publikováno v:
mSystems, Vol 3, Iss 4 (2018)
ABSTRACT Attenuated viruses have numerous applications, in particular in the context of live viral vaccines. However, purposefully designing attenuated viruses remains challenging, in particular if the attenuation is meant to be resistant to rapid ev
Externí odkaz:
https://doaj.org/article/af78da9074fa4669bf7def11a197981c
Publikováno v:
F1000Research, Vol 6 (2018)
We describe how to measure site-specific rates of evolution in protein-coding genes and how to correlate these rates with structural features of the expressed protein, such as relative solvent accessibility, secondary structure, or weighted contact n
Externí odkaz:
https://doaj.org/article/a9e8997a153d444ab94e49429043d6c6
Publikováno v:
F1000Research, Vol 6 (2017)
We describe how to measure site-specific rates of evolution in protein-coding genes and how to correlate these rates with structural features of the expressed protein, such as relative solvent accessibility, secondary structure, or weighted contact n
Externí odkaz:
https://doaj.org/article/716147f6169a48e69586c8cc13991326
Autor:
James J. Bull, Kelly A. Christensen, Carly Scott, Benjamin R. Jack, Cameron J. Crandall, Stephen M. Krone
Publikováno v:
Antibiotics, Vol 7, Iss 1, p 8 (2018)
Bacteria growing on surfaces appear to be profoundly more resistant to control by lytic bacteriophages than do the same cells grown in liquid. Here, we use simulation models to investigate whether spatial structure per se can account for this increas
Externí odkaz:
https://doaj.org/article/86386b5672e241aab8117d10262159f4
Publikováno v:
Virus Evolution
Many viral genomes are small, containing only single- or double-digit numbers of genes and relatively few regulatory elements. Yet viruses successfully execute complex regulatory programs as they take over their host cells. Here, we propose that some
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::fd22ab3ac664f76aa2b634853a0db484
Publikováno v:
Protein Science. 25:1341-1353
Structural properties such as solvent accessibility and contact number predict site-specific sequence variability in many proteins. However, the strength and significance of these structure-sequence relationships vary widely among different proteins,
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::16fd598dd0b605c6dad17d05c26497fb
https://doi.org/10.1002/pro.2920
https://doi.org/10.1002/pro.2920
Autor:
Sean P. Leonard, Gabriel A. Suárez, Jeffrey E. Barrick, Brian A. Renda, Benjamin R. Jack, Dacia Leon, Dennis M. Mishler
Publikováno v:
ACS Synthetic Biology. 4:939-943
Unwanted evolution can rapidly degrade the performance of genetically engineered circuits and metabolic pathways installed in living organisms. We created the Evolutionary Failure Mode (EFM) Calculator to computationally detect common sources of gene
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a0a4efd3166c8401de684538e1499c88
https://doi.org/10.1021/acssynbio.5b00068
https://doi.org/10.1021/acssynbio.5b00068
Autor:
Carly Scott, Benjamin R. Jack, Cameron J. Crandall, Stephen M. Krone, James J. Bull, Kelly A. Christensen
Publikováno v:
Antibiotics
Antibiotics; Volume 7; Issue 1; Pages: 8
Antibiotics, Vol 7, Iss 1, p 8 (2018)
Antibiotics; Volume 7; Issue 1; Pages: 8
Antibiotics, Vol 7, Iss 1, p 8 (2018)
Bacteria growing on surfaces appear to be profoundly more resistant to control by lytic bacteriophages than do the same cells grown in liquid. Here, we use simulation models to investigate whether spatial structure per se can account for this increas
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::67ca8cbada74584a47289af547dad636
https://pubmed.ncbi.nlm.nih.gov/29382134
https://pubmed.ncbi.nlm.nih.gov/29382134
Autor:
Bartram L. Smith, Benjamin R. Jack, Claus O. Wilke, James J. Bull, Daniel R. Boutz, Matthew L. Paff
Live attenuated viral vaccines provide the most robust and longest lasting immune response. Yet designing them a priori to have reduced growth capacity and also to be robust to evolutionary reversion can be challenging. On the one hand, genome editin
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b476a0e757f0915af6844910b991d7ae
https://doi.org/10.7287/peerj.preprints.3001v1
https://doi.org/10.7287/peerj.preprints.3001v1