Search Results - "Clark, Patricia"

Roles for Synonymous Codon Usage in Protein Biogenesis by Chaney, Julie L, Clark, Patricia L

“…Owing to the degeneracy of the genetic code, a protein sequence can be encoded by many different synonymous mRNA coding sequences. Synonymous codon usage was…”
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Proteins in the cell by Clark, Patricia L.

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Synonymous codon substitutions perturb cotranslational protein folding in vivo and impair cell fitness by Walsh, Ian M., Bowman, Micayla A., Santarriaga, Iker F. Soto, Rodriguez, Anabel, Clark, Patricia L.

“…In the cell, proteins are synthesized from N to C terminus and begin to fold during translation. Cotranslational folding mechanisms are therefore linked to…”
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Widespread position-specific conservation of synonymous rare codons within coding sequences by Chaney, Julie L, Steele, Aaron, Carmichael, Rory, Rodriguez, Anabel, Specht, Alicia T, Ngo, Kim, Li, Jun, Emrich, Scott, Clark, Patricia L

“…Synonymous rare codons are considered to be sub-optimal for gene expression because they are translated more slowly than common codons. Yet surprisingly, many…”
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Quality over quantity: optimizing co-translational protein folding with non-‘optimal’ synonymous codons by Jacobson, Giselle N, Clark, Patricia L

“…[Display omitted] •Synonymous codon substitutions were long thought to be ‘silent’ mutations.•In general, common codons are translated faster than rare…”
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Fathering by Clark, Patricia (American poet)

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Testing mechanisms for homomeric protein assembly in vivo by Moss, McKenze J., Clark, Patricia L.

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Investigating the sequence properties that govern disorder and secretion of bacterial virulence proteins by Mukinay, Cedrick, Baxa, Michael, Sosnick, Tobin R., Clark, Patricia L.

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Recapitulating protein vectorial appearance enhances folding to the native structure in vitro by Santarriaga, Iker F. Soto, Clark, Patricia L.

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MinMax: A versatile tool for calculating and comparing synonymous codon usage and its impact on protein folding by Rodriguez, Anabel, Wright, Gabriel, Emrich, Scott, Clark, Patricia L.

“…Most amino acids can be encoded by more than one synonymous codon, but these are rarely used with equal frequency. In many coding sequences the usage patterns…”
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Expanding Anfinsen’s Principle: Contributions of Synonymous Codon Selection to Rational Protein Design by Sander, Ian M, Chaney, Julie L, Clark, Patricia L

“…Anfinsen’s principle asserts that all information required to specify the structure of a protein is encoded in its amino acid sequence. However, during protein…”
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The Effects of Codon Usage on Protein Structure and Folding by Moss, McKenze J, Chamness, Laura M, Clark, Patricia L

“…The rate of protein synthesis is slower than many folding reactions and varies depending on the synonymous codons encoding the protein sequence. Synonymous…”
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Water as a Good Solvent for Unfolded Proteins: Folding and Collapse are Fundamentally Different by Clark, Patricia L., Plaxco, Kevin W., Sosnick, Tobin R.

“…The argument that the hydrophobic effect is the primary effect driving the folding of globular proteins is nearly universally accepted (including by the…”
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Folding the proteome by Braselmann, Esther, Chaney, Julie L., Clark, Patricia L.

“…•Proteins must fold successfully in order to function.•General conclusions are emerging for folding of small reversibly refolding proteins.•Proteomes are more…”
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Evidence for Stroke Family Caregiver and Dyad Interventions: A Statement for Healthcare Professionals From the American Heart Association and American Stroke Association by Bakas, Tamilyn, Clark, Patricia C, Kelly-Hayes, Margaret, King, Rosemarie B, Lutz, Barbara J, Miller, Elaine L

“…Stroke is a leading cause of severe, long-term disability. Most stroke survivors are cared for in the home by a family caregiver. Caregiver stress is a leading…”
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Innovative scattering analysis shows that hydrophobic disordered proteins are expanded in water by Riback, Joshua A., Bowman, Micayla A., Zmyslowski, Adam M., Knoverek, Catherine R., Jumper, John M., Hinshaw, James R., Kaye, Emily B., Freed, Karl F., Clark, Patricia L., Sosnick, Tobin R.

“…A substantial fraction of the proteome is intrinsically disordered, and even well-folded proteins adopt non-native geometries during synthesis, folding,…”
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Analysis of computational codon usage models and their association with translationally slow codons by Wright, Gabriel, Rodriguez, Anabel, Li, Jun, Clark, Patricia L, Milenković, Tijana, Emrich, Scott J

“…Improved computational modeling of protein translation rates, including better prediction of where translational slowdowns along an mRNA sequence may occur, is…”
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Transitioning a Research Protocol for Videosomnography to Assess Sleep and Nighttime Caregiving Activities in School-Aged Children With Developmental Disabilities During the COVID-19 Pandemic by Lee, Jiwon, Clark, Patricia C., Spratling, Regena

“…The COVID-19 pandemic significantly affected children with developmental disabilities (DDs)' sleep. Videosomnography is a noninvasive, portable time-lapse…”
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Fit for Purpose Approach To Evaluate Detection of Amino Acid Substitutions in Shotgun Proteomics by Lundgren, Taylor J., Clark, Patricia L., Champion, Matthew M.

“…Amino acid substitutions (AASs) alter proteins from their genome-expected sequences. Accumulation of substitutions in proteins underlies numerous diseases and…”
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Properties of protein unfolded states suggest broad selection for expanded conformational ensembles by Bowman, Micayla A., Riback, Joshua A., Rodriguez, Anabel, Guo, Hongyu, Li, Jun, Sosnick, Tobin R., Clark, Patricia L.

“…Much attention is being paid to conformational biases in the ensembles of intrinsically disordered proteins. However, it is currently unknown whether or how…”
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