David D Holcomb
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Explore the profile of David D Holcomb including associated specialties, affiliations and a list of published articles.
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12
Citations
172
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Recent Articles
1.
Holcomb D, Jankowska K, Hernandez N, Laurie K, Kames J, Hamasaki-Katagiri N, et al.
STAR Protoc
. 2022 Sep;
3(3):101648.
PMID: 36052345
Here, we describe a bioinformatics pipeline that evaluates the interactions between coagulation-related proteins and genetic variants with SARS-CoV-2 proteins. This pipeline searches for host proteins that may bind to viral...
2.
Jankowska K, Meyer D, Holcomb D, Kames J, Hamasaki-Katagiri N, Katneni U, et al.
Blood Adv
. 2022 Jun;
6(18):5364-5378.
PMID: 35667091
The effects of synonymous single nucleotide variants (sSNVs) are often neglected because they do not alter protein primary structure. Nevertheless, there is growing evidence that synonymous variations may affect messenger...
3.
Katneni U, Alexaki A, Hunt R, Hamasaki-Katagiri N, Hettiarachchi G, Kames J, et al.
Blood Adv
. 2022 Apr;
6(13):3932-3944.
PMID: 35413099
Hemophilia B is a blood clotting disorder caused by deficient activity of coagulation factor IX (FIX). Multiple recombinant FIX proteins are currently approved to treat hemophilia B, and several gene...
4.
Deng L, Hernandez N, Zhong L, Holcomb D, Yan H, Virata M, et al.
Proc Natl Acad Sci U S A
. 2021 Jul;
118(28).
PMID: 34260404
Epitope III, a highly conserved amino acid motif of APTYSW on the hepatitis C virus (HCV) E2 glycoprotein, resides in the critical loop that binds to the host receptor CD81,...
5.
Alexaki A, Kames J, Hettiarachchi G, Athey J, Katneni U, Hunt R, et al.
F1000Res
. 2020 Oct;
9:174.
PMID: 33014344
Ribosome profiling provides the opportunity to evaluate translation kinetics at codon level resolution. Here, we describe ribosome profiling data, generated from two HEK293T cell lines. The ribosome profiling data are...
6.
Kames J, Holcomb D, Kimchi O, DiCuccio M, Hamasaki-Katagiri N, Wang T, et al.
Sci Rep
. 2020 Sep;
10(1):15643.
PMID: 32973171
As the SARS-CoV-2 pandemic is rapidly progressing, the need for the development of an effective vaccine is critical. A promising approach for vaccine development is to generate, through codon pair...
7.
Katneni U, Holcomb D, Hernandez N, Hamasaki-Katagiri N, Hunt R, Bar H, et al.
Thromb Res
. 2020 Jun;
193:66-76.
PMID: 32531546
Introduction: Risk factors contributing to heightened thrombosis in pediatric congenital heart disease (CHD) patients are not fully understood. Among the neonatal CHD population, those presenting with single ventricular physiology are...
8.
Kames J, Holcomb D, Kimchi O, DiCuccio M, Hamasaki-Katagiri N, Wang T, et al.
bioRxiv
. 2020 Jun;
PMID: 32511300
As the SARS-CoV-2 pandemic is rapidly progressing, the need for the development of an effective vaccine is critical. A promising approach for vaccine development is to generate, through codon pair...
9.
Kames J, Alexaki A, Holcomb D, Santana-Quintero L, Athey J, Hamasaki-Katagiri N, et al.
J Mol Biol
. 2020 Jan;
432(11):3369-3378.
PMID: 31982380
Protein expression in multicellular organisms varies widely across tissues. Codon usage in the transcriptome of each tissue is derived from genomic codon usage and the relative expression level of each...
10.
Alexaki A, Hettiarachchi G, Athey J, Katneni U, Simhadri V, Hamasaki-Katagiri N, et al.
Sci Rep
. 2019 Oct;
9(1):15449.
PMID: 31664102
Synonymous codons occur with different frequencies in different organisms, a phenomenon termed codon usage bias. Codon optimization, a common term for a variety of approaches used widely by the biopharmaceutical...