Publications by authors named "Bryan Kolaczkowski"

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Ancestral protein reconstruction reveals evolutionary events governing variation in Dicer helicase function.
Adedeji M Aderounmu, P Joseph Aruscavage, Bryan Kolaczkowski, Brenda L Bass

Elife· April 2023

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Open label safety and efficacy pilot to study mitigation of equine recurrent uveitis through topical suppressor of cytokine signaling-1 mimetic peptide.
Caryn E Plummer, Timothy Polk, Jatin Sharma, Sanghyo Sarah Bae, Olivia Barr, Bryan D Kolaczkowski

Sci Rep· May 2022

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Reconstruction of Nitrogenase Predecessors Suggests Origin from Maturase-Like Proteins.
Amanda K Garcia, Bryan Kolaczkowski, Betül Kaçar

Genome Biol Evol· March 2022

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eCOMPASS: evaluative comparison of multiple protein alignments by statistical score.
Andrew F Neuwald, Bryan D Kolaczkowski, Stephen F Altschul

Bioinformatics· October 2021

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Direct Molecular Evidence for an Ancient, Conserved Developmental Toolkit Controlling Posttranscriptional Gene Regulation in Land Plants.
Haiyan Jia, Kelsey Aadland, Oralia Kolaczkowski, Bryan Kolaczkowski

Mol Biol Evol· October 2021

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Alignment-Integrated Reconstruction of Ancestral Sequences Improves Accuracy.
Kelsey Aadland, Bryan Kolaczkowski

Genome Biol Evol· September 2020

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Reconstructing the evolutionary history of nitrogenases: Evidence for ancestral molybdenum-cofactor utilization.
Amanda K Garcia, Hanon McShea, Bryan Kolaczkowski, Betül Kaçar

Geobiology· May 2020

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pime: A package for discovery of novel differences among microbial communities.
Luiz Fernando W Roesch, Priscila T Dobbler, Victor S Pylro, Bryan Kolaczkowski, Jennifer C Drew

Mol Ecol Resour· March 2020

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High-Throughput Reconstruction of Ancestral Protein Sequence, Structure, and Molecular Function.
Kelsey Aadland, Charles Pugh, Bryan Kolaczkowski

Methods Mol Biol· May 2019

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Multiple Recombination Events Drive the Current Genetic Structure of in Florida.
Sujan Timilsina, Juliana A Pereira-Martin, Gerald V Minsavage, Fernanda Iruegas-Bocardo, Peter Abrahamian, Bryan Kolaczkowski

Front Microbiol· March 2019

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A member of the CONSTANS-Like protein family is a putative regulator of reactive oxygen species homeostasis and spaceflight physiological adaptation.
Natasha J Sng, Bryan Kolaczkowski, Robert J Ferl, Anna-Lisa Paul

AoB Plants· February 2019

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Dicer cleaves 5'-extended microRNA precursors originating from RNA polymerase II transcription start sites.
Peike Sheng, Christopher Fields, Kelsey Aadland, Tianqi Wei, Oralia Kolaczkowski, Bryan Kolaczkowski

Nucleic Acids Res· June 2018

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Increased Affinity for RNA Targets Evolved Early in Animal and Plant Dicer Lineages through Different Structural Mechanisms.
Haiyan Jia, Oralia Kolaczkowski, James Rolland, Bryan Kolaczkowski

Mol Biol Evol· December 2017

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Convergence of Domain Architecture, Structure, and Ligand Affinity in Animal and Plant RNA-Binding Proteins.
Raquel Dias, Austin Manny, Oralia Kolaczkowski, Bryan Kolaczkowski

Mol Biol Evol· June 2017

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Improving the accuracy of high-throughput protein-protein affinity prediction may require better training data.
Raquel Dias, Bryan Kolaczkowski

BMC Bioinformatics· March 2017

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Resurrecting ancestral structural dynamics of an antiviral immune receptor: adaptive binding pocket reorganization repeatedly shifts RNA preference.
Charles Pugh, Oralia Kolaczkowski, Austin Manny, Bryan Korithoski, Bryan Kolaczkowski

BMC Evol Biol· November 2016

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Functional Annotations of Paralogs: A Blessing and a Curse.
Rémi Zallot, Katherine J Harrison, Bryan Kolaczkowski, Valérie de Crécy-Lagard

Life (Basel)· September 2016

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Genomic Targets and Features of BarA-UvrY (-SirA) Signal Transduction Systems.
Tesfalem R Zere, Christopher A Vakulskas, Yuanyuan Leng, Archana Pannuri, Anastasia H Potts, Bryan Kolaczkowski

PLoS One· July 2016

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Corrigendum: Integrating DNA Methylation and Gene Expression Data in the Development of the Soybean-Bradyrhizobium N2-Fixing Symbiosis.
Austin G Davis-Richardson, Jordan T Russell, Raquel Dias, Andrew J McKinlay, Ronald Canepa, Bryan Kolaczkowski

Front Microbiol· July 2016

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Evolution of a Novel Antiviral Immune-Signaling Interaction by Partial-Gene Duplication.
Bryan Korithoski, Oralia Kolaczkowski, Krishanu Mukherjee, Reema Kola, Chandra Earl, Bryan Kolaczkowski

PLoS One· May 2016

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Integrating DNA Methylation and Gene Expression Data in the Development of the Soybean-Bradyrhizobium N2-Fixing Symbiosis.
Austin G Davis-Richardson, Jordan T Russell, Raquel Dias, Andrew J McKinlay, Ronald Canepa, Bryan Kolaczkowski

Front Microbiol· May 2016

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Bacteroides dorei dominates gut microbiome prior to autoimmunity in Finnish children at high risk for type 1 diabetes.
Austin G Davis-Richardson, Alexandria N Ardissone, Raquel Dias, Ville Simell, Michael T Leonard, Bryan Kolaczkowski

Front Microbiol· December 2014

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Adaptive expansion of the maize maternally expressed gene (Meg) family involves changes in expression patterns and protein secondary structures of its members.
Yuqing Xiong, Wenbin Mei, Eun-Deok Kim, Krishanu Mukherjee, Hatem Hassanein, Bryan Kolaczkowski

BMC Plant Biol· August 2014

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Compromised gut microbiota networks in children with anti-islet cell autoimmunity.
David Endesfelder, Wolfgang zu Castell, Alexandria Ardissone, Austin G Davis-Richardson, Peter Achenbach, Bryan Kolaczkowski

Diabetes· June 2014

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Parallel geographic variation in Drosophila melanogaster.
Josie A Reinhardt, Bryan Kolaczkowski, Corbin D Jones, David J Begun, Andrew D Kern

Genetics· May 2014

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