October 2021
PUBLICATIONS - Back

Biological Chemistry Archives

1. Carter NM, Pomerantz JL. Calcineurin inhibitors target Lck activation in graft versus host disease. J Clin Invest. 2121; 131(11):e149934.
Key words: Calcineurin inhibitors, graft versus host disease
https://www.jci.org/articles/view/149934

2. Hutcherson SM, Bedsaul JR, Pomerantz JL. Pathway-specific defects in T, B, and NK cells and age-dependent development of high IgE in mice heterozygous for a CADINS-associated dominant negative CARD11 allele. Journal of Immunology. 2021 Aug 2;ji2001233.
doi: 10.4049/jimmunol.2001233. Online ahead of print.
Key words: CARD11, multidomain scaffold protein, IgE, primary immunodeficiency
https://pubmed.ncbi.nlm.nih.gov/34341167/

1. Carter NM, Pomerantz JL. Calcineurin inhibitors target Lck activation in graft versus host disease. J Clin Invest. 2121 June 1; 131(11):e149934.
Key words: Calcineurin inhibitors, graft versus host disease

https://www.jci.org/articles/view/149934
PMID: 34060488

2. Fahie K, Narayanan B, Zahra F, Reeves R, Fernandes SM, Hart GW, Zachara NE. Detection and analysis of proteins modified by O-Linked N-Acetylglucosamine. Curr Protoc. 2021 May;1(5):e129. doi: 10.1002/cpz1.129. PMID: 34004049.
Key words: O-GlcNAc; O-linked; analysis; detection; galactosyltransferase; glycosylation; signal transduction
https://pubmed.ncbi.nlm.nih.gov/34004049/

3. Vakrou S, Liu Y, Zhu L, Greenland GV, Simsek B, Hebl VB, Guan Y, Woldemichael K, Talbot CC Jr, Aon MA, Fukunaga R, Abraham MR. Differences in molecular phenotype in mouse and human hypertrophic cardiomyopathy. Scientific Reports. 2021 June 23;11(1):13163
Key words: hypertrophic cardiomyopathy, heart, myocyte, cardiac
https://www.nature.com/articles/s41598-021-89451-6
PMID: 34162896

4. Zhu L, Fukunaga R. RNA-binding protein Maca is crucial for gigantic male fertility factor gene expression spermatogenesis and male fertility in Drosophila. PLoS Genetics. 2021 June 28;17(6): e1009655.
Key words: RNA-binding, testis, spermatogenesis, male fertility, Drosophila

https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1009655
PMID: 34181646

1. Carter NM, Pomerantz JL. Calcineurin inhibitors target Lck activation in graft versus host disease. J Clin Invest. 2121; 131(11):e149934.
Key words: Calcineurin inhibitors, graft versus host disease
https://www.jci.org/articles/view/149934
PMID: 34060488

2. Smith JW, O'Meally RN, Ng DK, Chen JG, Kensler TW, Cole RN, Groopman JD. Biomonitoring of ambient outdoor air pollutant exposure in humans using targeted serum albumin adductomics. Chem Res Toxicol. 2021:34:1183-96.
Key words: Exposome, Exposomics, Adductome, Internal dosimetry, Personal medicine
https://www.ncbi.nlm.nih.gov/pubmed/33793228

1. Martinez M, Renuse S, Kreimer S, O'Meally R, Natov P, Madugundu AK, Nirujogi RS, Tahir R, Cole R, Pandey A and Zachara NE. Quantitative proteomics reveals that the ogt interactome is remodeled in response to oxidative stress. Mol Cell Proteomics. 2021 Mar 12;20:100069.
Key words: Cytoprotection, Glycosylation, Network, Oxidative stress, Quantitative proteomics
https://www.ncbi.nlm.nih.gov/pubmed/33716169

2. Muchenditsi A, Talbot CC, Jr., Gottlieb A, Yang H, Kang B, Boronina T, Cole R, Wang L, Dev S, Hamilton JP and Lutsenko S. Systemic deletion of atp7b modifies the hepatocytes' response to copper overload in the mouse models of wilson disease. Sci Rep. 2021 Mar 11;11(1):5659. PMC7952580
Key words: Copper metabolism, autosomal-recessive disorder, liver disease
https://www.ncbi.nlm.nih.gov/pubmed/33707579

3. Smith JW, O'Meally RN, Ng DK, Chen JG, Kensler TW, Cole RN, Groopman JD. Biomonitoring of ambient outdoor air pollutant exposure in humans using targeted serum albumin adductomics. Chem Res Toxicol. 2021 Apr 19;34(4):1183-1196. doi: 10.1021/acs.chemrestox.1c00055. Epub 2021 Apr 1.
Key words: Exposome, Exposomics, Adductome, Internal dosimetry, Personal medicine
https://www.ncbi.nlm.nih.gov/pubmed/33793228

4. Turker F, Cook EK, Margolis SS, The proteasome and its role in the nervous system. Cell Chem. Biol. 2021 Apr 20:S2451-9456(21)00158-6. doi: 10.1016/j.chembiol.2021.04.003. Online ahead of print.
Key words: neurodegeneration; neuronal activity; proteasome; ubiquitin-proteasome system
https://www.sciencedirect.com/science/article/pii/S2451945621001586?via%3Dihub
PMID: 33905676

1. Martinez M, Renuse S, Kreimer S, O'Meally R, Natov P, Madugundu AK, Nirujogi RS, Tahir R, Cole R, Pandey A, Zachara NE. Quantitative Proteomics Reveals that the OGT Interactome is Remodeled in Response to Oxidative Stress. Mol Cell Proteomics. 2021 Mar 11:100069. doi: 10.1016/j.mcpro.2021.100069. Epub ahead of print.
Key words: Glycosylation, Cytoprotection, Signaling Network, Oxidative Stress, Glycomics

https://pubmed.ncbi.nlm.nih.gov/33716169/

2. Muchenditsi A, Talbot CC, Jr., Gottlieb A, Yang H, Kang B, Boronina T, Cole R, Wang L, Dev S, Hamilton JP and Lutsenko S. Systemic deletion of atp7b modifies the hepatocytes' response to copper overload in the mouse models of wilson disease. Sci Rep. 2021 Mar 11;11(1):5659.
Key words: Copper metabolism, autosomal-recessive disorder, liver disease

https://www.ncbi.nlm.nih.gov/pubmed/33707579

3. Smith JW, O'Meally RN, Ng DK, Chen JG, Kensler TW, Cole RN and Groopman JD. Biomonitoring of ambient outdoor air pollutant exposure in humans using targeted serum albumin adductomics. Chem Res Toxicol. 2021 Apr 19;34(4):1183-1196. Epub 2021 Apr 1.
Key words: Exposome, Exposomics, Adductome, Internal dosimetry, Personal medicine
https://www.ncbi.nlm.nih.gov/pubmed/33793228

1. Mesubi OO, Rokita AG, Abrol N, Wu Y, Chen B, Wang Q, Granger JM, Tucker-Bartley A, Luczak ED, Murphy KR, Umapathi P, Banerjee PS, Boronina TN, Cole RN, Maier LS, Wehrens XH, Pomerantz JL, Song LS, Ahima RS, Hart GW, Zachara NE, Anderson ME. Oxidized camkii and o-glcnacylation cause increased atrial fibrillation in diabetic mice by distinct mechanisms. J Clin Invest. 2021 Jan 19;131(2):e95747.
Key words: Arrhythmias, Cardiology, Diabetes, Protein kinases
https://www.ncbi.nlm.nih.gov/pubmed/33151911

2. Umapathi P, Banerjee PS, Abrol N, Wang Q, Mesubi OO, Luczak ED, Wu Y, Granger JM, Wei AC, Reyes Gaido OE, Florea L, Talbot CC Jr, Hart GW, Zachara NE, Anderson ME. Excessive O - GlcNAcylation causes heart failure and sudden death. Circulation. 2021; Feb 17. doi: 10.1161/CIRCULATIONAHA.120.051911. Epub ahead of print. PMID: 33593071.
Key words: Dilated cardiomyopathy; O-GlcNAcylation; mitochondrial energetics; mouse model
https://pubmed.ncbi.nlm.nih.gov/33593071/

1. Levine ZG, Potter SC, Joiner CM, Fei GQ, Nabet B, Sonnett M, Zachara NE, Gray NS, Paulo JA, Walker S. Mammalian cell proliferation requires noncatalytic functions of O-GlcNAc transferase. Proc Natl Acad Sci U S A. 2021 Jan 26;118(4):e2016778118.
Key words: glycosylation, O-GlcNAc, Signal transduction, oxidative phosphorylation

https://pubmed.ncbi.nlm.nih.gov/33419956

2. Mesubi OO, Rokita AG, Abrol N, Wu Y, Chen B, Wang Q, Granger JM, Tucker-Bartley A, Luczak ED, Murphy KR, Umapathi P, Banerjee PS, Boronina TN, Cole RN, Maier LS, Wehrens XH, Pomerantz JL, Song LS, Ahima RS, Hart GW, Zachara NE, Anderson ME. Oxidized CaMKII and O-GlcNAcylation cause increased atrial fibrillation in diabetic mice by distinct mechanisms. J Clin Invest. 2021 Jan 19;131(2):e95747.
Key words: glycosylation, O-GlcNAc, Diabetes, Signal transduction

https://pubmed.ncbi.nlm.nih.gov/33151911

3. Pomerantz, JL. Reconsidering phosphorylation in the control of inducible CARD11 scaffold activity during antigen receptor signaling. Adv Biol Regul. 2020 Dec 18:100775. doi: 10.1016/j.jbior.2020.100775.
Key words: Antigen receptor signaling, phosphorylation, CARD11, scaffold, NF-kappaB

https://www.sciencedirect.com/science/article/pii/S2212492620300865?via%3Dihub

1. Goleva E, Calatroni A, LeBeau P, Berdyshev E, Taylor P, Kreimer S, Cole RN, Leung DYM. Skin tape proteomics identifies pathways associated with transepidermal water loss and allergen polysensitization in atopic dermatitis. J Allergy Clin Immunol. 2020:146:1367-78. PMC7606732
Key words: Atopic dermatitis; IgE; food allergy; proteomics; skin barrier; transepidermal water loss
https://www.ncbi.nlm.nih.gov/pubmed/32360271

2. Mesubi OO, Rokita AG, Abrol N, Wu Y, Chen B, Wang Q, Granger JM, Tucker-Bartley A, Luczak ED, Murphy KR, Umapathi P, Banerjee PS, Boronina T, Cole RN, Maier LS, Wehrens XH, Pomerantz JL, Song LS, Ahima R, Hart GW, Zachara NE, Anderson ME. Oxidized-camkii and o-glcnacylation cause increased atrial fibrillation in diabetic mice by distinct mechanisms. J Clin Invest. 2021 Jan 19;131(2):e95747. doi: 10.1172/JCI95747.
Key words: Arrhythmias; Cardiology; Diabetes; Protein kinases
https://www.ncbi.nlm.nih.gov/pubmed/33151911

3. Mills WT 4th, Nassar NN, Ravindra D, Li X, Meffert MK. Multi-level regulatory interactions between NF-?B and the pluripotency factor Lin28. Cells. 2020 Dec 17;9(12):2710. doi: 10.3390/cells9122710.
Key words: NF-kappaB, Lin28, pluripotency, neuronal plasticity

https://www.ncbi.nlm.nih.gov/pubmed/33348917

4. Pomerantz JL. Reconsidering phosphorylation in the control of inducible CARD11 scaffold activity during antigen receptor signaling. Adv Biol Regul. 2020 Dec 18:100775. doi: 10.1016/j.jbior.2020.100775.
Key words: Antigen receptor signaling, phosphorylation, CARD11, scaffold, NF-kappaB

https://www.sciencedirect.com/science/article/pii/S2212492620300865?via%3Dihub
PMID: 33358178

1. Daitch AK, Goley ED. Uncovering unappreciated activities and niche functions of bacterial cell wall enzymes. Curr Biol. 2020 Oct 5;30(19):R1170-R1175.
Key words: peptidoglycan, bacteria, cell wall, enzymes, glycosyltransferase

https://pubmed.ncbi.nlm.nih.gov/33022262/

2. Gutierrez-Hoffmann MG, O'Meally RN, Cole RN, Tiniakou E, Darrah E and Soloski MJ. Borrelia burgdorferi-induced changes in the class II self-immunopeptidome displayed on HLA-DR molecules expressed by dendritic cells. Front Med (Lausanne). 2020 Sep 16;7:568.
Key words: Borrelia, HLA-DR, MHC class II, dendritic cells, immunopeptidome

https://www.ncbi.nlm.nih.gov/pubmed/33043033

3. Heffner K, Hizal DB, Majewska NI, Kumar S, Dhara VG, Zhu J, Bowen M, Hatton D, Yerganian G, Yerganian A, O'Meally R, Cole R and Betenbaugh M. Expanded chinese hamster organ and cell line proteomics profiling reveals tissue-specific functionalities. Sci Rep. 2020 Sep 28;10(1):15841.
Key words: CHO cell lines, recombinant protein production, clonal variation, bioprocess conditions, comparative proteomics, tandem mass tags (TMTs), cell engineering

https://www.ncbi.nlm.nih.gov/pubmed/32985598

4. Pomerantz JL. HOIP for Targeting Diffuse Large B Cell Lymphoma. Blood 2020; 136(6):646-647.
Key words: Lymphoma, HOIP, DLBCL

https://ashpublications.org/blood/article/136/6/646/461627/HOIP-for-targeting-diffuse-large-B-cell-lymphoma

1. Goodier JL, Soares AO, Pereira GC, DeVine LR, Sanchez L, Cole RN, Garcia-Perez JL. C9orf72-associated smcr8 protein binds in the ubiquitin pathway and with proteins linked with neurological disease. Acta Neuropathol Commun. 2020 Jul 16;8(1):110.
Key words: Amyotrophic lateral sclerosis, Autophagy, Biomarker, Mass spectrometry, Proteasome, Stress granules, Ubiquitin
https://www.ncbi.nlm.nih.gov/pubmed/32678027

2. Pomerantz JL. HOIP for targeting diffuse large B cell lymphoma. Blood. 2020 Aug 6;136(6):646-647. .
Key words: Lymphoma, HOIP, DLBCL

https://ashpublications.org/blood/article/136/6/646/461627/HOIP-for-targeting-diffuse-large-B-cell-lymphoma

3. Sack Jr., GH. Serum Amyloid A (SAA) Proteins in Vertebrate and Invertibrate Respiratory Proteins, Lipoproteins and other Body Fluid Proteins Ulrich H?ger and J. Robin Harris (Editors.) Springer (2020) 94:421-436.
Key words: amyloid/serum amyloid A/acute phase

DOI 10.1007/978-3-030-41769-7_17

1. Goleva E, Calatroni A, LeBeau P, Berdyshev E, Taylor P, Kreimer S, Cole RN, Leung DYM. kin tape proteomics identifies pathways associated with transepidermal water loss and allergen polysensitization in atopic dermatitis. J Allergy Clin Immunol. 2020 Apr 28;S0091-6749(20)30571-6.
Key words: IgE, atopic dermatitis, food allergy, proteomics, skin barrier, transepidermal water loss
https://www.ncbi.nlm.nih.gov/pubmed/32360271

2. Tiniakou E, Fava A, McMahan ZH, Guhr T, O'Meally RN, Shah AA, Wigley FM, Cole RN, Boin F, Darrah E. Definition of naturally processed peptides reveals convergent presentation of autoantigenic topoisomerase-i epitopes in scleroderma. Arthritis Rheumatol. 2020 Mar 12. doi: 10.1002/art.41248. [Online ahead of print].
Key words: natural antigen processing, MHC class II, CD4+ T cells, T cell epitopes, Topoisomerase-I, systemic sclerosis, scleroderma, autoantigen, autoimmunity
https://www.ncbi.nlm.nih.gov/pubmed/32162841

1. Datta Chaudhuri A, Dasgheyb RM, DeVine LR, Bi H, Cole RN, Haughey NJ. Stimulus-dependent modifications in astrocyte-derived extracellular vesicle cargo regulate neuronal excitability. Glia. 2020 Jan; 68(1):128-44.
Key words: astrocytes, cargo, exosomes, extracellular vesicles, inflammation

https://www.ncbi.nlm.nih.gov/pubmed/31469478

2. Dong Q, Majumdar G, O'Meally RN, Cole RN, Elam MB, Raghow R. Insulin-induced de novo lipid synthesis occurs mainly via mtor-dependent regulation of proteostasis of srebp-1c. Mol Cell Biochem. 2020 Jan; 463(1-2):13-31.
Key words: Mass spectrometry, Mechanistic target of rapamycin (mTOR), Phosphorylation, Proteasome, degradation, SREBP-1c, Ubiquitin

https://www.ncbi.nlm.nih.gov/pubmed/31541353

3. Tharakan R, Kreimer S, Ubaida-Mohien C, Lavoie J, Olexiouk V, Menschaert G, Ingolia NT, Cole RN, Ishizuka K, Sawa A, Nucifora LG. A methodology for discovering novel brain-relevant peptides: Combination of ribosome profiling and peptidomics. Neurosci Res. 2020 Feb; 151:31-7.
Key words: Brain peptides, Mass spectrometry, Peptidomics, Ribosome profiling

https://www.ncbi.nlm.nih.gov/pubmed/30862443

4. Welsh RA, Song N, Foss CA, Boronina T, Cole RN, Sadegh-Nasseri S. Lack of the mhc class ii chaperone h2-o causes susceptibility to autoimmune diseases. PLoS Biol. 2020 Feb; 18(2):e3000590.
Key words: HLA-DO, MHC II, autoimmunity, peptide epitope presentation, thymic selection, deep sequencing, whole-body imaging

https://www.ncbi.nlm.nih.gov/pubmed/32069316

1. Liu Y, Afzal J, Vakrou S, Greenland GV, Talbot CC Jr, Hebl VB, Guan Y, Karmali R, Tardiff JC, Leinwand LA, Olgin JE, Das S, Fukunaga R, Abraham MR. Differences in microRNA-29 and Pro-fibrotic gene expression in mouse and human hypertrophic cardiomyopathy. Front Cardiovasc Med. 2019 Dec 17;6:170. doi: 10.3389/fcvm.2019.00170.
Key words: Hypertrophic Cardiomyopathy, miRNAs, Pro-fibrotic genes
https://www.ncbi.nlm.nih.gov/pubmed/31921893

2. Park JM, Ghosh S, O'Connor TJ. Combinatorial selection in amoebal hosts drives the evolution of the human pathogen Legionella pneumophila. Nat Microbiol. 2020 Jan 27. doi: 10.1038/s41564-019-0663-7. [Epub ahead of print]
Key words: Legionella, pathogenesis, amoebae
https://www.ncbi.nlm.nih.gov/pubmed/31988381

3. Woldemeskel SA, Daitch AK, Alvarez L, Gaël Panis, Zeinert R, Gonzalez D, Smith E, Collier J, Chien P, Cava F, Viollier PH, Goley ED. The conserved transcriptional regulator CdnL is required for metabolic homeostasis and morphogenesis in Caulobacter. PLOS Genetics. 2020;16: e1008591
https://pubmed.ncbi.nlm.nih.gov/31961855/
Key words: Caulobacter, CdnL, transcription, metabolic homeostasis, peptidoglycan

1. Datta CA, Dasgheyb RM, DeVine LR, Bi H, Cole RN, Haughey NJ. Stimulus-dependent modifications in astrocyte-derived extracellular vesicle cargo regulate neuronal excitability. Glia. 2020:68:128-44.
Key words: astrocytes; cargo; exosomes; extracellular vesicles; inflammation
https://www.ncbi.nlm.nih.gov/pubmed/31469478

2. Wang Z, Hutcherson SM, Yang C, Jattani RP, Tritapoe JM, Yang YK, Pomerantz JL. Coordinated regulation of scaffold opening and enzymatic activity during CARD11 signaling. J Biol Chem. 2019 Oct 4;294(40):14648-14660.
Key words: NF-kappaB, CARD11, Bcl10, Antigen Receptor, Signal Transduction
http://www.jbc.org/content/294/40/14648.long
PMID: 31391255

1. Wang Z, Hutcherson SM, Yang C, Jattani RP, Tritapoe JM, Yang YK, Pomerantz JL. Coordinated regulation of scaffold opening and enzymatic activity during CARD11 signaling.J Biol Chem. 2019 Oct 4;294(40):14648-14660.
Key words: NF-kappaB, CARD11, Bcl10, Antigen Receptor, Signal Transduction
http://www.jbc.org/content/294/40/14648.long
PMID: 31391255


1. Wang Z, Hutcherson SM, Yang C, Jattani RP, Tritapoe JM, Yang YK, Pomerantz JL. Coordinated regulation of scaffold opening and enzymatic activity during CARD11 signaling.J Biol Chem. 2019 Oct 4;294(40):14648-14660.
Key words: NF-kappaB, CARD11, Bcl10, Antigen Receptor, Signal Transduction
http://www.jbc.org/content/294/40/14648.long
PMID: 31391255

1. Zhu L, Liao SE, Fukunaga R. Drosophila Regnase-1 RNase is required for mRNA and miRNA profile remodelling during larva-to-adult metamorphosis. RNA Biol. 2019 Oct;16(10):1386-1400.
Key words: RNase, Regnase, mRNA, miRNA, Drosophila
https://www.ncbi.nlm.nih.gov/pubmed/31195914

1. Camacho E, Vij R, Chrissian C, Prados-Rosales R, Gil D, O'Meally RN, Cordero RJB, Cole RN, McCaffery JM, Stark RE and Casadevall A. The structural unit of melanin in the cell wall of the fungal pathogen cryptococcus neoformans. J Biol Chem. 2019 July 5; 294(27):10471-89.
Key words: basic unit, biopolymer, cell wall, cryo-electron microscopy, fungi, melanin, melanogenesis, melanosomes, solid-state NMR, supramolecular structure
https://www.ncbi.nlm.nih.gov/pubmed/31118223

2. Li S, Cha SW, Heffner K, Hizal DB, Bowen MA, Chaerkady R, Cole RN, Tejwani V, Kaushik P, Henry M, Meleady P, Sharfstein ST, Betenbaugh MJ, Bafna V and Lewis NE. Proteogenomic annotation of Chinese hamsters reveals extensive novel translation events and endogenous retroviral elements. J Proteome Res. 2019 June 7; 18(6):2433-45.
Key words: Chinese hamster, endogenous retrovirus, genome annotation, proteogenomics
https://www.ncbi.nlm.nih.gov/pubmed/31020842

3. Steppan J, Wang H, Bergman Y, Rauer MJ, Tan S, Jandu S, Nandakumar K, Barreto-Ortiz S, Cole RN, Boronina TN, Zhu W, Halushka MK, An SS, Berkowitz DE and Santhanam L. Lysyl oxidase-like 2 depletion is protective in age-associated vascular stiffening. Am J Physiol Heart Circ Physiol. 2019 July 1;317(1):H49-H59.
Key words: aging, lysyl oxidase-like 2, pulse-wave velocity, vascular stiffness
https://www.ncbi.nlm.nih.gov/pubmed/31002285

1. Barber CN, Raben DM. Lipid metabolism crosstalk in the brain: glia and neurons. Frontiers in Cellular Neuroscience. 2019 May 21;13:212.
Key words: Lipids, Glia, CNS neurons
https://www.frontiersin.org/articles/10.3389/fncel.2019.00212/full
PMID: 31164804

2. Camacho E, Vij R, Chrissian C, Prados-Rosales R, Gil D, O'Meally RN, Cordero RJB, Cole RN, McCaffery JM, Stark RE, Casadevall A. The structural unit of melanin in the cell wall of the fungal pathogen cryptococcus neoformans. J Biol Chem. 2019 May 22. pii: jbc.RA119.008684. doi: 10.1074/jbc.RA119.008684. [Epub ahead of print]
Key words: basic unit, biopolymer, cell wall, cryo-electron microscopy, fungi, melanin, melanogenesis, melanosomes, solid state NMR, supramolecular structure
https://www.ncbi.nlm.nih.gov/pubmed/31118223

3. Carter TY, Gadwala S, Chougule AB, Bui APN, Sanders AC, Chaerkady R, Cormier N, Cole RN, Thomas JH. Actomyosin contraction during cellularization is regulated in part by src64 control of actin 5c protein levels. Genesis. 2019 Jun;57(6):e23297.
Key words: Actin 5C, Src64, actin, cellularization, oxidative stress response, proteomics
https://www.ncbi.nlm.nih.gov/pubmed/30974046

4. Dresselhaus EC, Meffert MK. Cellular Specificity of NF-?B Function in the Nervous System. Front Immunol. 2019 May 9;10:1043. doi: 10.3389/fimmu.2019.01043
Key words: NF-?B; Neurons; Plasticity; central nervous system (CNS); gene expression; glia; synapse; transcription
https://www.ncbi.nlm.nih.gov/pubmed/31143184

5. Li S, Cha SW, Heffner K, Hizal DB, Bowen MA, Chaerkady R, Cole RN, Tejwani V, Kaushik P, Henry M, Meleady P, Sharfstein ST, Betenbaugh MJ, Bafna V and Lewis NE. Proteogenomic annotation of chinese hamsters reveals extensive novel translation events and endogenous retroviral elements. J Proteome Res. 2019 Jun 7;18(6):2433-2445. doi: 10.1021/acs.jproteome.8b00935.
Key words: Chinese hamster, endogenous retrovirus, genome annotation, proteogenomics
https://www.ncbi.nlm.nih.gov/pubmed/31020842

6. Liao SE, Kandasamy SK, Zhu L, Fukunaga R. DEAD-box RNA helicase Belle post-transcriptionally promotes gene expression in an ATPase activity-dependent manner. RNA. 2019 Jul;25(7):825-839. doi: 10.1261/rna.070268.
Key words: RNA, helicase, ATPase, DEAD-box, Drosophila
https://www.ncbi.nlm.nih.gov/pubmed/30979781

7. Steppan J, Wang H, Rauer M, Tan S, Jandu S, Nandakumar K, Barreto Ortiz S, Cole RN, Boronina TN, Zhu W, Halushka MK, An SS, Berkowitz DE and Santhanam L. Lysyl oxidase-like 2 (loxl2) depletion is protective in age-associated vascular stiffening. Am J Physiol Heart Circ Physiol. 2019 Jul 1;317(1):H49-H59. doi: 10.1152/ajpheart.00670.2018.
Key words: Vascular stiffness, aging, lysyl oxidase like 2, pulse wave velocity
https://www.ncbi.nlm.nih.gov/pubmed/31002285

8. Zhu L, Liao SE, Ai Y, Fukunaga R. RNA methyltransferase BCDIN3D is crucial for female fertility and miRNA and mRNA profiles in Drosophila ovaries. PLoS One. 2019 May 30;14(5):e0217603.
Key words: RNA, methyltransferase, mRNA, miRNA, Drosophila
https://www.ncbi.nlm.nih.gov/pubmed/31145769

1. Dresselhaus EC, Meffert MK. Cellular specificity of NF-kb function in the nervous system. Front Immunol. 2019 May 9;10:1043. doi: 10.3389/fimmu.2019.01043. eCollection 2019.
Key words: NF-?B; Neurons; Plasticity; central nervous system (CNS); gene expression; glia; synapse; transcription
https://www.ncbi.nlm.nih.gov/pubmed/31143184

2. Howell M, Aliashkevich A, Sundararajan K, Daniel JJ, Lariviere PJ, Goley ED, Cava F, Brown PJB. Agrobacterium tumefaciens divisome proteins regulate the transition from polar growth to cell division. Mol. Microbiol. 2019. Apr;111(4):1074-1092.
Key words: bacterial cell division, divisome, FtsZ, polar growth
https://www.ncbi.nlm.nih.gov/pubmed/30693575

3. Lariviere PJ, Mahone CR, Santiago-Collazo G, Howell M, Daitch AK, Zeinert R, Chien P, Brown PJB, Goley ED. An essential regulator of bacterial division links FtsZ to cell wall synthase activation. Curr. Biol. 2019. May 6;29(9):1460-1470.
Key words: bacterial cell division, FtsZ, peptidoglycan, Caulobacter, cell wall
https://www.ncbi.nlm.nih.gov/pubmed/31031115

4. Sack GH. Pathophysiology of Amyloid Fibril Formation. In: Amyloidosis March 2019. DOI:10.5772/intechopen.81965,

1. Leung DYM, Calatroni A, Zaramela LS, LeBeau PK, Dyjack N, Brar K, David G, Johnson K, Leung S, Ramirez-Gama M, Liang B, Rios C, Montgomery MT, Richers BN, Hall CF, Norquest KA, Jung J, Bronova I, Kreimer S, Conover Talbot C, Jr., Crumrine D, Cole RN, Elias P, Zengler K, Seibold MA, Berdyshev E and Goleva E. The nonlesional skin surface distinguishes atopic dermatitis with food allergy as a unique endotype. Sci Transl Med. 2019 Feb 20;11(480).
Key words: non-lesional skin, atopic dermatitis, food allergy, stratum corneum biomarkers, immature skin barrier, Type 2 immune activation
https://www.ncbi.nlm.nih.gov/pubmed/30787169

2. Tharakan R, Kreimer S, Ubaida-Mohien C, Lavoie J, Olexiouk V, Menschaert G, Ingolia NT, Cole RN, Ishizuka K, Sawa A and Nucifora LG. A methodology for discovering novel brain-relevant peptides: Combination of ribosome profiling and peptidomics. Neurosci Res. 2019 Mar 9. pii: S0168-0102(18)30722-3.
Key words: brain peptides, mass spectrometry, peptidomics, ribosome profiling
https://www.ncbi.nlm.nih.gov/pubmed/30862443

1. Lee SE, Schulze K, Stewart CP, Cole RN, Wu LS, Eroglu A, Yager JD, Groopman J, Christian P and West KP, Jr. Plasma proteome correlates of lipid and lipoprotein: Biomarkers of metabolic diversity and inflammation in children of rural nepal. J Lipid Res. 2019 Jan; 60(1):149-60.
Key words: high density lipoprotein-cholesterol, low density lipoprotein-cholesterol, plasma proteomics, triglycerides
https://www.ncbi.nlm.nih.gov/pubmed/30473544


2. Leung DYM, Calatroni A, Zaramela LS, LeBeau PK, Dyjack N, Brar K, David G, Johnson K, Leung S, Ramirez-Gama M, Liang B, Rios C, Montgomery MT, Richers BN, Hall CF, Norquest KA, Jung J, Bronova I, Kreimer S, Conover Talbot C, Jr., Crumrine D, Cole RN, Elias P, Zengler K, Seibold MA, Berdyshev E and Goleva E. The nonlesional skin surface distinguishes atopic dermatitis with food allergy as a unique endotype. Sci Transl Med. 2019 Feb 20;11(480). pii: eaav2685.
Key words: non-lesional skin, atopic dermatitis, food allergy, stratum corneum biomarkers, immature skin barrier, Type 2 immune activation
https://www.ncbi.nlm.nih.gov/pubmed/30787169

1. Lee SE, Schulze K, Stewart CP, Cole RN, Wu LS, Eroglu A, Yager JD, Groopman J, Christian P, West KP, Jr. Plasma proteome correlates of lipid and lipoprotein: Biomarkers of metabolic diversity and inflammation in children of rural nepal. J Lipid Res. 2019 Jan; 60(1):149-60.
Key words: high density lipoprotein-cholesterol, low density lipoprotein-cholesterol, plasma proteomics, triglycerides
https://www.ncbi.nlm.nih.gov/pubmed/30473544

2. Liu X, Abraham JM, Cheng Y, Wang Z, Wang Z, Zhang G, Ashktorab H, Smoot DT, Cole RN, Boronina TN, DeVine LR, Talbot CC, Jr., Liu Z, Meltzer SJ. Synthetic circular RNA functions as a mir-21 sponge to suppress gastric carcinoma cell proliferation. Mol Ther Nucleic Acids. 2018 Dec 7;13:312-21.
Key words: gastric carcinoma, microRNA loss-of-function, microRNA sponge, molecular therapy, synthetic circular RNA
https://www.ncbi.nlm.nih.gov/pubmed/30326427

3. Ma Q, Gabelli SB, Raben DM. Diacylglycerol kinases: Relationship to other lipid kinases. Adv Biol Regul. 2019 Jan;71:104-110. doi: 10.1016/j.jbior.2018.09.014.
Key words: Diacylglycerol kinase, Structure-Function, Lipid Kinases
https://www.ncbi.nlm.nih.gov/pubmed/30348515

1. Chen S, Luperchio TR, Wong X, Doan EB, Byrd AT, Roy Choudhury K, Reddy KL, Krangel MS. A lamina-associated domain border governs nuclear lamina interactions, transcription, and recombination of the Tcrb locus. Cell Rep. 2018 Nov 13;25(7):1729-1740.e6.
Key words: CTCF; DamID; LAD border; T cell receptor ?; Tcrb; V(D)J recombination; lamina-associated domain; nuclear lamina
https://www.ncbi.nlm.nih.gov/pubmed/30428344

2. Luperchio TR, Sauria MEG, Hoskins VE, Xianrong W, DeBoy E, Gaillard M-C, Tsang P, Pekrun K, Ach RA, Yamada A, Taylor J, Reddy KL. The repressive genome compartment is established early in the cell cycle before forming the lamina associated domains. bioRxiv. 2018 November; 481598. doi: http://dx.doi.org/10.1101/481598.
Key words: repressive genome, cell cycle, lamina
https://www.biorxiv.org/content/biorxiv/early/2018/11/29/481598.full.pdf

1. Schaffer TB, Smith JE, Cook EK, Phan T, Margolis SS. PKC? inhibits neuronal dendritic spine development through dual phosphorylation of Ephexin5. Cell Rep. 2018 Nov 27;25(9):2470-2483.
Key words: hippocampus, development, dendritic spines, PKC epsilon, Ephexin5, phosphorylation
https://www.ncbi.nlm.nih.gov/pubmed/30485813

1. Bedsaul JR, Carter NM, Deibel KE, Hutcherson SM, Jones TA, Wang Z, Yang C, Yang Y, Pomerantz JL. Mechanisms of regulated and dysregulated CARD11 signaling in adaptive immunity and disease. Frontiers In Immunology. 2018; 9:2105, doi: 10.3389/fimmu.2018.02105.
Key words: Bcl10; CARD11; MALT1; lymphoma; primary immunodeficiency
https://www.ncbi.nlm.nih.gov/pubmed/30283447

2. Chen S, Luperchio TR, Wong X, Doan EB, Byrd AT, Roy Choudhury K, Reddy KL, Krangel MS. A lamina-associated domain border governs nuclear lamina interactions, transcription, and recombination of the Tcrb locus. Cell Reports. 2018; 25(7):1729-40.e6.
Key words: CTCF; DamID; LAD border; T cell receptor ?; Tcrb; V(D)J recombination; lamina-associated domain; nuclear lamina
https://www.ncbi.nlm.nih.gov/pubmed/30428344

3. Liu X, Abraham JM, Cheng Y, Wang Z, Wang Z, Zhang G, Ashktorab H, Smoot DT, Cole RN, Boronina TN, DeVine LR, Talbot CC, Jr., Liu Z, Meltzer SJ. Synthetic circular rna functions as a mir-21 sponge to suppress gastric carcinoma cell proliferation. Mol Ther Nucleic Acids. 2018;13:312-21.
Key words: gastric carcinoma, microRNA loss-of-function, microRNA sponge, molecular therapy, synthetic circular RNA
https://www.ncbi.nlm.nih.gov/pubmed/30326427

1. Bedsaul JR, Carter NM, Deibel KE, Hutcherson SM, Jones TA, Wang Z, Yang C, Yang Y, Pomerantz JL. Mechanisms of regulated and dysregulated CARD11 signaling in adaptive immunity and disease. Front Immunol. 2018 Sept; 9:2105, doi: 10.3389/fimmu.2018.02105.
Key words: Bcl10; CARD11; MALT1; lymphoma; primary immunodeficiency
https://www.ncbi.nlm.nih.gov/pubmed/30283447

2. Rhoads SN, Monahan ZT, Yee DS, Leung AY, Newcombe CG, O'Meally RN, Cole RN and Shewmaker FP. The prionlike domain of fus is multiphosphorylated following DNA damage without altering nuclear localization. Mol Biol Cell. 2018 Aug;29:1786-97.
Key words: amyloid related neurological disorders, phase transition assay, modifications of unstructured protein domains
https://www.ncbi.nlm.nih.gov/pubmed/29897835

3. Singh V, Yang J, Yin J, Cole R, Tse M, Berman DE, Small SA, Petsko G and Donowitz M. Cholera toxin inhibits snx27-retromer-mediated delivery of cargo proteins to the plasma membrane. J Cell Sci. 2018 Aug 17;131(16).
Key words: Apical trafficking, Cholera toxin, Early endosomes, Exocytosis, Nhe3, Pdz, Retromer, Snx27, Secretory diarrhea
https://www.ncbi.nlm.nih.gov/pubmed/30030371

4. Zhu , Kandasamy SK, Liao SE, Fukunaga R. LOTUS domain protein MARF1 binds CCR4-NOT deadenylase complex to post-transcriptionally regulate gene expression in oocytes. Nat Commun. 2018 Oct 2;9(1):4031.
Key words: RNA-binding protein; oocyte, poly-A tail, deadenylase, LOTUS domain
https://www.ncbi.nlm.nih.gov/pubmed/30279526

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