Corrigendum: RNA partitioning into stress granules is based on the summation of multiple interactions
RNA. 2023 Nov;29(11):1837. doi: 10.1261/rna.079790.123.NO ABSTRACTPMID:37845045 | PMC:PMC10578467 | DOI:10.1261/rna.079790.123 (Source: RNA)
Source: RNA - October 16, 2023 Category: Genetics & Stem Cells Authors: Tyler Matheny Briana Van Treeck Thao Ngoc Huynh Roy Parker Source Type: research
Corrigendum: RNA partitioning into stress granules is based on the summation of multiple interactions
RNA. 2023 Nov;29(11):1837. doi: 10.1261/rna.079790.123.NO ABSTRACTPMID:37845045 | PMC:PMC10578467 | DOI:10.1261/rna.079790.123 (Source: RNA)
Source: RNA - October 16, 2023 Category: Genetics & Stem Cells Authors: Tyler Matheny Briana Van Treeck Thao Ngoc Huynh Roy Parker Source Type: research
Corrigendum: RNA partitioning into stress granules is based on the summation of multiple interactions
RNA. 2023 Nov;29(11):1837. doi: 10.1261/rna.079790.123.NO ABSTRACTPMID:37845045 | PMC:PMC10578467 | DOI:10.1261/rna.079790.123 (Source: RNA)
Source: RNA - October 16, 2023 Category: Genetics & Stem Cells Authors: Tyler Matheny Briana Van Treeck Thao Ngoc Huynh Roy Parker Source Type: research
Corrigendum: RNA partitioning into stress granules is based on the summation of multiple interactions
RNA. 2023 Nov;29(11):1837. doi: 10.1261/rna.079790.123.NO ABSTRACTPMID:37845045 | PMC:PMC10578467 | DOI:10.1261/rna.079790.123 (Source: RNA)
Source: RNA - October 16, 2023 Category: Genetics & Stem Cells Authors: Tyler Matheny Briana Van Treeck Thao Ngoc Huynh Roy Parker Source Type: research
Corrigendum: RNA partitioning into stress granules is based on the summation of multiple interactions
RNA. 2023 Nov;29(11):1837. doi: 10.1261/rna.079790.123.NO ABSTRACTPMID:37845045 | PMC:PMC10578467 | DOI:10.1261/rna.079790.123 (Source: RNA)
Source: RNA - October 16, 2023 Category: Genetics & Stem Cells Authors: Tyler Matheny Briana Van Treeck Thao Ngoc Huynh Roy Parker Source Type: research
Corrigendum: RNA partitioning into stress granules is based on the summation of multiple interactions
RNA. 2023 Nov;29(11):1837. doi: 10.1261/rna.079790.123.NO ABSTRACTPMID:37845045 | DOI:10.1261/rna.079790.123 (Source: RNA)
Source: RNA - October 16, 2023 Category: Genetics & Stem Cells Authors: Tyler Matheny Briana Van Treeck Thao Ngoc Huynh Roy Parker Source Type: research
Extensible benchmarking of methods that identify and quantify polyadenylation sites from RNA-seq data
RNA. 2023 Oct 10:rna.079849.123. doi: 10.1261/rna.079849.123. Online ahead of print.ABSTRACTThe tremendous rate with which data is generated and analysis methods emerge makes it increasingly difficult to keep track of their domain of applicability, assumptions, limitations and consequently, of the efficacy and precision with which they solve specific tasks. Therefore, there is an increasing need for benchmarks, and for the provision of infrastructure for continuous method evaluation. APAeval is an international community effort, organized by the RNA Society in 2021, to benchmark tools for the identification and quantificat...
Source: RNA - October 10, 2023 Category: Genetics & Stem Cells Authors: Sam Bryce-Smith Dominik Burri Matthew R Gazzara Christina J Herrmann Weronika Danecka Christina M Fitzsimmons Yuk Kei Wan Farica Zhuang Mervin M Fansler Jos é M Fernández Meritxell Ferret Asier Gonzalez-Uriarte Samuel Haynes Chelsea Herdman Alexander Ka Source Type: research
Extensible benchmarking of methods that identify and quantify polyadenylation sites from RNA-seq data
RNA. 2023 Oct 10:rna.079849.123. doi: 10.1261/rna.079849.123. Online ahead of print.ABSTRACTThe tremendous rate with which data is generated and analysis methods emerge makes it increasingly difficult to keep track of their domain of applicability, assumptions, limitations and consequently, of the efficacy and precision with which they solve specific tasks. Therefore, there is an increasing need for benchmarks, and for the provision of infrastructure for continuous method evaluation. APAeval is an international community effort, organized by the RNA Society in 2021, to benchmark tools for the identification and quantificat...
Source: RNA - October 10, 2023 Category: Genetics & Stem Cells Authors: Sam Bryce-Smith Dominik Burri Matthew R Gazzara Christina J Herrmann Weronika Danecka Christina M Fitzsimmons Yuk Kei Wan Farica Zhuang Mervin M Fansler Jos é M Fernández Meritxell Ferret Asier Gonzalez-Uriarte Samuel Haynes Chelsea Herdman Alexander Ka Source Type: research
Extensible benchmarking of methods that identify and quantify polyadenylation sites from RNA-seq data
RNA. 2023 Oct 10:rna.079849.123. doi: 10.1261/rna.079849.123. Online ahead of print.ABSTRACTThe tremendous rate with which data is generated and analysis methods emerge makes it increasingly difficult to keep track of their domain of applicability, assumptions, limitations and consequently, of the efficacy and precision with which they solve specific tasks. Therefore, there is an increasing need for benchmarks, and for the provision of infrastructure for continuous method evaluation. APAeval is an international community effort, organized by the RNA Society in 2021, to benchmark tools for the identification and quantificat...
Source: RNA - October 10, 2023 Category: Genetics & Stem Cells Authors: Sam Bryce-Smith Dominik Burri Matthew R Gazzara Christina J Herrmann Weronika Danecka Christina M Fitzsimmons Yuk Kei Wan Farica Zhuang Mervin M Fansler Jos é M Fernández Meritxell Ferret Asier Gonzalez-Uriarte Samuel Haynes Chelsea Herdman Alexander Ka Source Type: research
Extensible benchmarking of methods that identify and quantify polyadenylation sites from RNA-seq data
RNA. 2023 Oct 10:rna.079849.123. doi: 10.1261/rna.079849.123. Online ahead of print.ABSTRACTThe tremendous rate with which data is generated and analysis methods emerge makes it increasingly difficult to keep track of their domain of applicability, assumptions, limitations and consequently, of the efficacy and precision with which they solve specific tasks. Therefore, there is an increasing need for benchmarks, and for the provision of infrastructure for continuous method evaluation. APAeval is an international community effort, organized by the RNA Society in 2021, to benchmark tools for the identification and quantificat...
Source: RNA - October 10, 2023 Category: Genetics & Stem Cells Authors: Sam Bryce-Smith Dominik Burri Matthew R Gazzara Christina J Herrmann Weronika Danecka Christina M Fitzsimmons Yuk Kei Wan Farica Zhuang Mervin M Fansler Jos é M Fernández Meritxell Ferret Asier Gonzalez-Uriarte Samuel Haynes Chelsea Herdman Alexander Ka Source Type: research
Extensible benchmarking of methods that identify and quantify polyadenylation sites from RNA-seq data
RNA. 2023 Oct 10:rna.079849.123. doi: 10.1261/rna.079849.123. Online ahead of print.ABSTRACTThe tremendous rate with which data is generated and analysis methods emerge makes it increasingly difficult to keep track of their domain of applicability, assumptions, limitations and consequently, of the efficacy and precision with which they solve specific tasks. Therefore, there is an increasing need for benchmarks, and for the provision of infrastructure for continuous method evaluation. APAeval is an international community effort, organized by the RNA Society in 2021, to benchmark tools for the identification and quantificat...
Source: RNA - October 10, 2023 Category: Genetics & Stem Cells Authors: Sam Bryce-Smith Dominik Burri Matthew R Gazzara Christina J Herrmann Weronika Danecka Christina M Fitzsimmons Yuk Kei Wan Farica Zhuang Mervin M Fansler Jos é M Fernández Meritxell Ferret Asier Gonzalez-Uriarte Samuel Haynes Chelsea Herdman Alexander Ka Source Type: research
The Pseudo-Torsional Space of RNA
RNA. 2023 Oct 4:rna.079821.123. doi: 10.1261/rna.079821.123. Online ahead of print.ABSTRACTThe characterization of the conformational landscape of the RNA backbone is rather complex due to the ability of RNA to assume a big variety of conformations. These backbone conformations can be depicted by pseudo-torsional angles linking RNA backbone atoms, from which Ramachandran-like plots can be built. We explored here different definitions of these pseudo-torsional angles, finding that the most accurate ones are the traditional η (eta) and θ (theta) angles, which represent the relative position of RNA backbone atoms P and C4'....
Source: RNA - October 4, 2023 Category: Genetics & Stem Cells Authors: Leandro Grille Diego Gallego Leonardo Darr é Gabriela da Rosa Federica Battistini Modesto Orozco Pablo D Dans Source Type: research
A highly efficient human cell-free translation system
RNA. 2023 Oct 4:rna.079825.123. doi: 10.1261/rna.079825.123. Online ahead of print.ABSTRACTCell-free protein synthesis (CFPS) systems enable easy in vitro expression of proteins with many scientific, industrial, and therapeutic applications. Here we present an optimized, highly efficient human cell-free translation system that bypasses many limitations of currently used in vitro systems. This CFPS system is based on extracts from human HEK293T cells engineered to endogenously express GADD34 and K3L proteins, which suppress phosphorylation of translation initiation factor eIF2α. Overexpression of GADD34 and K3L proteins in...
Source: RNA - October 4, 2023 Category: Genetics & Stem Cells Authors: Nikolay Aleksashin Stacey Tsai-Lan Chang Jamie Cate Source Type: research
The Pseudo-Torsional Space of RNA
RNA. 2023 Oct 4:rna.079821.123. doi: 10.1261/rna.079821.123. Online ahead of print.ABSTRACTThe characterization of the conformational landscape of the RNA backbone is rather complex due to the ability of RNA to assume a big variety of conformations. These backbone conformations can be depicted by pseudo-torsional angles linking RNA backbone atoms, from which Ramachandran-like plots can be built. We explored here different definitions of these pseudo-torsional angles, finding that the most accurate ones are the traditional η (eta) and θ (theta) angles, which represent the relative position of RNA backbone atoms P and C4'....
Source: RNA - October 4, 2023 Category: Genetics & Stem Cells Authors: Leandro Grille Diego Gallego Leonardo Darr é Gabriela da Rosa Federica Battistini Modesto Orozco Pablo D Dans Source Type: research
A highly efficient human cell-free translation system
RNA. 2023 Oct 4:rna.079825.123. doi: 10.1261/rna.079825.123. Online ahead of print.ABSTRACTCell-free protein synthesis (CFPS) systems enable easy in vitro expression of proteins with many scientific, industrial, and therapeutic applications. Here we present an optimized, highly efficient human cell-free translation system that bypasses many limitations of currently used in vitro systems. This CFPS system is based on extracts from human HEK293T cells engineered to endogenously express GADD34 and K3L proteins, which suppress phosphorylation of translation initiation factor eIF2α. Overexpression of GADD34 and K3L proteins in...
Source: RNA - October 4, 2023 Category: Genetics & Stem Cells Authors: Nikolay Aleksashin Stacey Tsai-Lan Chang Jamie Cate Source Type: research
