Publications by authors named "Haim Bar"

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Uncovering position-specific patterns in codon and codon-pair usage in candidate genes associated with blood coagulation diseases.
Nathan J Clement, Nobuko Hamasaki-Katagiri, Brian Lin, Anton A Komar, Michael DiCuccio, Haim Bar

NAR Genom Bioinform· December 2025

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Uncovering codon usage patterns during murine embryogenesis and tissue-specific developmental diseases.
Sarah E Fumagalli, Sean Smith, Brian Lin, Rahul Paul, Collin Campbell, Haim Bar

Front Genet· May 2025

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Navigating the road ahead: using concept mapping to assess Clinical and Translational Science Award (CTSA) program goals.
Cathleen Kane, William Trochim, Haim Bar, Andie Vaught, Heather Baker

Front Public Health· April 2025

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Mouse embryo CoCoPUTs: novel murine transcriptomic-weighted usage website featuring multiple strains, tissues, and stages.
Sarah E Fumagalli, Sean Smith, Tigran Ghazanchyan, Douglas Meyer, Rahul Paul, Haim Bar

BMC Bioinformatics· September 2024

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On Graphical Models and Convex Geometry.
Haim Bar, Martin T Wells

Comput Stat Data Anal· November 2023

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Analysis of 3.5 million SARS-CoV-2 sequences reveals unique mutational trends with consistent nucleotide and codon frequencies.
Sarah E Fumagalli, Nigam H Padhiar, Douglas Meyer, Upendra Katneni, Haim Bar

Virol J· February 2023

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A phenotypic screen for compounds that reverse cAMP-mediated suppression of T cell functions.
David Barrett, Meghan Wyatt, Haim Bar, Mark K Haynes, Bruce S Edwards

SLAS Discov· July 2022

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Structural, functional, and immunogenicity implications of F9 gene recoding.
Upendra K Katneni, Aikaterini Alexaki, Ryan C Hunt, Nobuko Hamasaki-Katagiri, Gaya K Hettiarachchi, Haim Bar

Blood Adv· July 2022

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Zinc Status Index (ZSI) for Quantification of Zinc Physiological Status.
Jacquelyn Cheng, Haim Bar, Elad Tako

Nutrients· September 2021

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A mixture model to detect edges in sparse co-expression graphs with an application for comparing breast cancer subtypes.
Haim Bar, Seojin Bang

PLoS One· August 2021

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New approaches to predict the effect of co-occurring variants on protein characteristics.
David Holcomb, Nobuko Hamasaki-Katagiri, Kyle Laurie, Upendra Katneni, Jacob Kames, Haim Bar

Am J Hum Genet· August 2021

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Distinct signatures of codon and codon pair usage in 32 primary tumor types in the novel database CancerCoCoPUTs for cancer-specific codon usage.
Douglas Meyer, Jacob Kames, Haim Bar, Anton A Komar, Aikaterini Alexaki

Genome Med· July 2021

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Ribosome profiling of HEK293T cells overexpressing codon optimized coagulation factor IX.
Aikaterini Alexaki, Jacob Kames, Gaya K Hettiarachchi, John C Athey, Upendra K Katneni, Haim Bar

F1000Res· February 2021

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Z' Does Not Need to Be > 0.5.
Haim Bar, Adam Zweifach

SLAS Discov· October 2020

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In silico features of ADAMTS13 contributing to plasmatic ADAMTS13 levels in neonates with congenital heart disease.
Upendra K Katneni, David D Holcomb, Nancy E Hernandez, Nobuko Hamasaki-Katagiri, Ryan C Hunt, Haim Bar

Thromb Res· September 2020

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TissueCoCoPUTs: Novel Human Tissue-Specific Codon and Codon-Pair Usage Tables Based on Differential Tissue Gene Expression.
Jacob Kames, Aikaterini Alexaki, David D Holcomb, Luis V Santana-Quintero, John C Athey, Haim Bar

J Mol Biol· May 2020

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A Scalable Empirical Bayes Approach to Variable Selection in Generalized Linear Models.
Haim Y Bar, James G Booth, Martin T Wells

J Comput Graph Stat· February 2020

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A Single Synonymous Variant (c.354G>A [p.P118P]) in Confers Enhanced Specific Activity.
Ryan Hunt, Gaya Hettiarachchi, Upendra Katneni, Nancy Hernandez, David Holcomb, Haim Bar

Int J Mol Sci· November 2019

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Effects of codon optimization on coagulation factor IX translation and structure: Implications for protein and gene therapies.
Aikaterini Alexaki, Gaya K Hettiarachchi, John C Athey, Upendra K Katneni, Vijaya Simhadri, Haim Bar

Sci Rep· October 2019

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Murine Genetic Background Has a Stronger Impact on the Composition of the Gut Microbiota than Maternal Inoculation or Exposure to Unlike Exogenous Microbiota.
Hila Korach-Rechtman, Shay Freilich, Shiran Gerassy-Vainberg, Keren Buhnik-Rosenblau, Yael Danin-Poleg, Haim Bar

Appl Environ Microbiol· September 2019

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Splicing dysregulation contributes to the pathogenicity of several F9 exonic point variants.
Upendra K Katneni, Aaron Liss, David Holcomb, Nobuko H Katagiri, Ryan Hunt, Haim Bar

Mol Genet Genomic Med· August 2019

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Translational and transcriptional responses in human primary hepatocytes under hypoxia.
Gaya K Hettiarachchi, Upendra K Katneni, Ryan C Hunt, Jacob M Kames, John C Athey, Haim Bar

Am J Physiol Gastrointest Liver Physiol· June 2019

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Codon and Codon-Pair Usage Tables (CoCoPUTs): Facilitating Genetic Variation Analyses and Recombinant Gene Design.
Aikaterini Alexaki, Jacob Kames, David D Holcomb, John Athey, Luis V Santana-Quintero, Haim Bar

J Mol Biol· June 2019

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Human Salivary Amylase Gene Copy Number Impacts Oral and Gut Microbiomes.
Angela C Poole, Julia K Goodrich, Nicholas D Youngblut, Guillermo G Luque, Albane Ruaud, Haim Y Bar

Cell Host Microbe· April 2019

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A Tailored Multivariate Mixture Model for Detecting Proteins of Concordant Change Among Virulent Strains of .
Kun Chen, Neha Mishra, Joan Smyth, Haim Bar, Elizabeth Schifano

J Am Stat Assoc· June 2018

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