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Items: 1 to 50 of 403

1.

Polyomavirus T Antigen Induces APOBEC3B Expression Using an LXCXE-Dependent and TP53-Independent Mechanism.

Starrett GJ, Serebrenik AA, Roelofs PA, McCann JL, Verhalen B, Jarvis MC, Stewart TA, Law EK, Krupp A, Jiang M, Martens JWM, Cahir-McFarland E, Span PN, Harris RS.

MBio. 2019 Feb 5;10(1). pii: e02690-18. doi: 10.1128/mBio.02690-18.

2.

A panel of eGFP reporters for single base editing by APOBEC-Cas9 editosome complexes.

Martin AS, Salamango DJ, Serebrenik AA, Shaban NM, Brown WL, Harris RS.

Sci Rep. 2019 Jan 24;9(1):497. doi: 10.1038/s41598-018-36739-9.

3.

Quantification of the Pulmonary Vascular Response to Inhaled Nitric Oxide Using Noncontrast Computed Tomography Imaging.

Rahaghi FN, Winkler T, Kohli P, Nardelli P, Martí-Fuster B, Ross JC, Radhakrishnan R, Blackwater T, Ash SY, de La Bruere I, Diaz AA, Channick RN, Harris RS, Washko GR, San José Estépar R.

Circ Cardiovasc Imaging. 2019 Dec;12(1):e008338. doi: 10.1161/CIRCIMAGING.118.008338. No abstract available.

PMID:
30632391
4.

A lentivirus-based system for Cas9/gRNA expression and subsequent removal by Cre-mediated recombination.

Carpenter MA, Law EK, Serebrenik A, Brown WL, Harris RS.

Methods. 2018 Dec 19. pii: S1046-2023(18)30198-1. doi: 10.1016/j.ymeth.2018.12.006. [Epub ahead of print]

PMID:
30578845
5.

Elevation in lung volume and preventing catastrophic airway closure in asthmatics during bronchoconstriction.

Osorio-Valencia JS, Wongviriyawong C, Winkler T, Kelly VJ, Harris RS, Venegas JG.

PLoS One. 2018 Dec 19;13(12):e0208337. doi: 10.1371/journal.pone.0208337. eCollection 2018.

6.

Natural APOBEC3C variants can elicit differential HIV-1 restriction activity.

Anderson BD, Ikeda T, Moghadasi SA, Martin AS, Brown WL, Harris RS.

Retrovirology. 2018 Dec 17;15(1):78. doi: 10.1186/s12977-018-0459-5.

7.

A phase I trial of low-dose inhaled carbon monoxide in sepsis-induced ARDS.

Fredenburgh LE, Perrella MA, Barragan-Bradford D, Hess DR, Peters E, Welty-Wolf KE, Kraft BD, Harris RS, Maurer R, Nakahira K, Oromendia C, Davies JD, Higuera A, Schiffer KT, Englert JA, Dieffenbach PB, Berlin DA, Lagambina S, Bouthot M, Sullivan AI, Nuccio PF, Kone MT, Malik MJ, Porras MAP, Finkelsztein E, Winkler T, Hurwitz S, Serhan CN, Piantadosi CA, Baron RM, Thompson BT, Choi AM.

JCI Insight. 2018 Dec 6;3(23). pii: 124039. doi: 10.1172/jci.insight.124039. [Epub ahead of print]

8.

Epstein-Barr virus BORF2 inhibits cellular APOBEC3B to preserve viral genome integrity.

Cheng AZ, Yockteng-Melgar J, Jarvis MC, Malik-Soni N, Borozan I, Carpenter MA, McCann JL, Ebrahimi D, Shaban NM, Marcon E, Greenblatt J, Brown WL, Frappier L, Harris RS.

Nat Microbiol. 2019 Jan;4(1):78-88. doi: 10.1038/s41564-018-0284-6. Epub 2018 Nov 12.

PMID:
30420783
9.

Inhibiting APOBEC3 Activity with Single-Stranded DNA Containing 2'-Deoxyzebularine Analogues.

Kvach MV, Barzak FM, Harjes S, Schares HAM, Jameson GB, Ayoub AM, Moorthy R, Aihara H, Harris RS, Filichev VV, Harki DA, Harjes E.

Biochemistry. 2019 Feb 5;58(5):391-400. doi: 10.1021/acs.biochem.8b00858. Epub 2018 Nov 28.

10.

Long-read sequencing technology indicates genome-wide effects of non-B DNA on polymerization speed and error rate.

Guiblet WM, Cremona MA, Cechova M, Harris RS, Kejnovská I, Kejnovsky E, Eckert K, Chiaromonte F, Makova KD.

Genome Res. 2018 Dec;28(12):1767-1778. doi: 10.1101/gr.241257.118. Epub 2018 Nov 6.

11.

Genetic and mechanistic basis for APOBEC3H alternative splicing, retrovirus restriction, and counteraction by HIV-1 protease.

Ebrahimi D, Richards CM, Carpenter MA, Wang J, Ikeda T, Becker JT, Cheng AZ, McCann JL, Shaban NM, Salamango DJ, Starrett GJ, Lingappa JR, Yong J, Brown WL, Harris RS.

Nat Commun. 2018 Oct 8;9(1):4137. doi: 10.1038/s41467-018-06594-3.

12.

APOBEC3 Mediates Resistance to Oncolytic Viral Therapy.

Huff AL, Wongthida P, Kottke T, Thompson JM, Driscoll CB, Schuelke M, Shim KG, Harris RS, Molan A, Pulido JS, Selby PJ, Harrington KJ, Melcher A, Evgin L, Vile RG.

Mol Ther Oncolytics. 2018 Aug 29;11:1-13. doi: 10.1016/j.omto.2018.08.003. eCollection 2018 Dec 21.

13.

Increasing Cas9-mediated homology-directed repair efficiency through covalent tethering of DNA repair template.

Aird EJ, Lovendahl KN, St Martin A, Harris RS, Gordon WR.

Commun Biol. 2018 May 31;1:54. doi: 10.1038/s42003-018-0054-2. eCollection 2018.

14.

APOBEC3H Subcellular Localization Determinants Define Zipcode for Targeting HIV-1 for Restriction.

Salamango DJ, Becker JT, McCann JL, Cheng AZ, Demir Ö, Amaro RE, Brown WL, Shaban NM, Harris RS.

Mol Cell Biol. 2018 Nov 13;38(23). pii: e00356-18. doi: 10.1128/MCB.00356-18. Print 2018 Dec 1.

PMID:
30224517
15.

Lobular Carcinomas In Situ Display Intralesion Genetic Heterogeneity and Clonal Evolution in the Progression to Invasive Lobular Carcinoma.

Lee JY, Schizas M, Geyer FC, Selenica P, Piscuoglio S, Sakr RA, Ng CKY, Carniello JVS, Towers R, Giri DD, de Andrade VP, Papanastasiou AD, Viale A, Harris RS, Solit DB, Weigelt B, Reis-Filho JS, King TA.

Clin Cancer Res. 2019 Jan 15;25(2):674-686. doi: 10.1158/1078-0432.CCR-18-1103. Epub 2018 Sep 5.

PMID:
30185420
16.

Determinants of Oligonucleotide Selectivity of APOBEC3B.

Wagner JR, Demir Ö, Carpenter MA, Aihara H, Harki DA, Harris RS, Amaro RE.

J Chem Inf Model. 2018 Sep 10. doi: 10.1021/acs.jcim.8b00427. [Epub ahead of print]

PMID:
30130104
17.

The effect of emphysema on readmission and survival among smokers with heart failure.

Kohli P, Staziaki PV, Janjua SA, Addison DA, Hallett TR, Hennessy O, Takx RAP, Lu MT, Fintelmann FJ, Semigran M, Harris RS, Celli BR, Hoffmann U, Neilan TG.

PLoS One. 2018 Jul 30;13(7):e0201376. doi: 10.1371/journal.pone.0201376. eCollection 2018.

18.

Mutation Signatures Including APOBEC in Cancer Cell Lines.

Jarvis MC, Ebrahimi D, Temiz NA, Harris RS.

JNCI Cancer Spectr. 2018 Jan;2(1). pii: pky002. doi: 10.1093/jncics/pky002. Epub 2018 Mar 17.

19.

APOBEC3B Nuclear Localization Requires Two Distinct N-Terminal Domain Surfaces.

Salamango DJ, McCann JL, Demir Ö, Brown WL, Amaro RE, Harris RS.

J Mol Biol. 2018 Aug 17;430(17):2695-2708. doi: 10.1016/j.jmb.2018.04.044. Epub 2018 May 19.

PMID:
29787764
20.

Deterioration of Regional Lung Strain and Inflammation during Early Lung Injury.

Motta-Ribeiro GC, Hashimoto S, Winkler T, Baron RM, Grogg K, Paula LFSC, Santos A, Zeng C, Hibbert K, Harris RS, Bajwa E, Vidal Melo MF.

Am J Respir Crit Care Med. 2018 Oct 1;198(7):891-902. doi: 10.1164/rccm.201710-2038OC.

PMID:
29787304
21.

Characterization of BK Polyomaviruses from Kidney Transplant Recipients Suggests a Role for APOBEC3 in Driving In-Host Virus Evolution.

Peretti A, Geoghegan EM, Pastrana DV, Smola S, Feld P, Sauter M, Lohse S, Ramesh M, Lim ES, Wang D, Borgogna C, FitzGerald PC, Bliskovsky V, Starrett GJ, Law EK, Harris RS, Killian JK, Zhu J, Pineda M, Meltzer PS, Boldorini R, Gariglio M, Buck CB.

Cell Host Microbe. 2018 May 9;23(5):628-635.e7. doi: 10.1016/j.chom.2018.04.005.

PMID:
29746834
22.

A fluorescent reporter for quantification and enrichment of DNA editing by APOBEC-Cas9 or cleavage by Cas9 in living cells.

St Martin A, Salamango D, Serebrenik A, Shaban N, Brown WL, Donati F, Munagala U, Conticello SG, Harris RS.

Nucleic Acids Res. 2018 Aug 21;46(14):e84. doi: 10.1093/nar/gky332.

23.

HIV-1 adaptation studies reveal a novel Env-mediated homeostasis mechanism for evading lethal hypermutation by APOBEC3G.

Ikeda T, Symeonides M, Albin JS, Li M, Thali M, Harris RS.

PLoS Pathog. 2018 Apr 20;14(4):e1007010. doi: 10.1371/journal.ppat.1007010. eCollection 2018 Apr.

24.

AllSome Sequence Bloom Trees.

Sun C, Harris RS, Chikhi R, Medvedev P.

J Comput Biol. 2018 May;25(5):467-479. doi: 10.1089/cmb.2017.0258. Epub 2018 Apr 5.

PMID:
29620920
25.

Simian Immunodeficiency Virus Vif and Human APOBEC3B Interactions Resemble Those between HIV-1 Vif and Human APOBEC3G.

Wang J, Shaban NM, Land AM, Brown WL, Harris RS.

J Virol. 2018 May 29;92(12). pii: e00447-18. doi: 10.1128/JVI.00447-18. Print 2018 Jun 15.

26.

Differential Evolution of Antiretroviral Restriction Factors in Pteropid Bats as Revealed by APOBEC3 Gene Complexity.

Hayward JA, Tachedjian M, Cui J, Cheng AZ, Johnson A, Baker ML, Harris RS, Wang LF, Tachedjian G.

Mol Biol Evol. 2018 Jul 1;35(7):1626-1637. doi: 10.1093/molbev/msy048.

27.

Perspective: APOBEC mutagenesis in drug resistance and immune escape in HIV and cancer evolution.

Venkatesan S, Rosenthal R, Kanu N, McGranahan N, Bartek J, Quezada SA, Hare J, Harris RS, Swanton C.

Ann Oncol. 2018 Mar 1;29(3):563-572. doi: 10.1093/annonc/mdy003.

28.

The Antiviral and Cancer Genomic DNA Deaminase APOBEC3H Is Regulated by an RNA-Mediated Dimerization Mechanism.

Shaban NM, Shi K, Lauer KV, Carpenter MA, Richards CM, Salamango D, Wang J, Lopresti MW, Banerjee S, Levin-Klein R, Brown WL, Aihara H, Harris RS.

Mol Cell. 2018 Jan 4;69(1):75-86.e9. doi: 10.1016/j.molcel.2017.12.010. Epub 2017 Dec 28.

29.

Conformational Switch Regulates the DNA Cytosine Deaminase Activity of Human APOBEC3B.

Shi K, Demir Ö, Carpenter MA, Wagner J, Kurahashi K, Harris RS, Amaro RE, Aihara H.

Sci Rep. 2017 Dec 12;7(1):17415. doi: 10.1038/s41598-017-17694-3.

30.

Computational Model and Dynamics of Monomeric Full-Length APOBEC3G.

Gorle S, Pan Y, Sun Z, Shlyakhtenko LS, Harris RS, Lyubchenko YL, Vuković L.

ACS Cent Sci. 2017 Nov 22;3(11):1180-1188. doi: 10.1021/acscentsci.7b00346. Epub 2017 Oct 20.

31.

RecoverY: k-mer-based read classification for Y-chromosome-specific sequencing and assembly.

Rangavittal S, Harris RS, Cechova M, Tomaszkiewicz M, Chikhi R, Makova KD, Medvedev P.

Bioinformatics. 2018 Apr 1;34(7):1125-1131. doi: 10.1093/bioinformatics/btx771.

PMID:
29194476
32.

APOBEC Enzymes as Targets for Virus and Cancer Therapy.

Olson ME, Harris RS, Harki DA.

Cell Chem Biol. 2018 Jan 18;25(1):36-49. doi: 10.1016/j.chembiol.2017.10.007. Epub 2017 Nov 16. Review.

33.
34.

Correction: HIV-1 competition experiments in humanized mice show that APOBEC3H imposes selective pressure and promotes virus adaptation.

Nakano Y, Misawa N, Juarez-Fernandez G, Moriwaki M, Nakaoka S, Funo T, Yamada E, Soper A, Yoshikawa R, Ebrahimi D, Tachiki Y, Iwami S, Harris RS, Koyanagi Y, Sato K.

PLoS Pathog. 2017 Sep 7;13(9):e1006606. doi: 10.1371/journal.ppat.1006606. eCollection 2017 Sep.

35.

APOBEC3B lysine residues are dispensable for DNA cytosine deamination, HIV-1 restriction, and nuclear localization.

Molan AM, Hanson HM, Chweya CM, Anderson BD, Starrett GJ, Richards CM, Harris RS.

Virology. 2017 Nov;511:74-81. doi: 10.1016/j.virol.2017.08.025. Epub 2017 Aug 23.

36.

Evaluation of sequence variability in HIV-1 gp41 C-peptide helix-grafted proteins.

Tennyson RL, Walker SN, Ikeda T, Harris RS, McNaughton BR.

Bioorg Med Chem. 2018 Mar 15;26(6):1220-1224. doi: 10.1016/j.bmc.2017.07.064. Epub 2017 Aug 1.

37.

Hypoxic Pulmonary Vasoconstriction Does Not Explain All Regional Perfusion Redistribution in Asthma.

Kelly VJ, Hibbert KA, Kohli P, Kone M, Greenblatt EE, Venegas JG, Winkler T, Harris RS.

Am J Respir Crit Care Med. 2017 Oct 1;196(7):834-844. doi: 10.1164/rccm.201612-2438OC.

38.

Elevated APOBEC3B expression drives a kataegic-like mutation signature and replication stress-related therapeutic vulnerabilities in p53-defective cells.

Nikkilä J, Kumar R, Campbell J, Brandsma I, Pemberton HN, Wallberg F, Nagy K, Scheer I, Vertessy BG, Serebrenik AA, Monni V, Harris RS, Pettitt SJ, Ashworth A, Lord CJ.

Br J Cancer. 2017 Jun 27;117(1):113-123. doi: 10.1038/bjc.2017.133. Epub 2017 May 23.

39.

HIV-1 competition experiments in humanized mice show that APOBEC3H imposes selective pressure and promotes virus adaptation.

Nakano Y, Misawa N, Juarez-Fernandez G, Moriwaki M, Nakaoka S, Funo T, Yamada E, Soper A, Yoshikawa R, Ebrahimi D, Tachiki Y, Iwami S, Harris RS, Koyanagi Y, Sato K.

PLoS Pathog. 2017 May 5;13(5):e1006348. doi: 10.1371/journal.ppat.1006348. eCollection 2017 May. Erratum in: PLoS Pathog. 2017 Sep 7;13(9):e1006606.

40.

Opossum APOBEC1 is a DNA mutator with retrovirus and retroelement restriction activity.

Ikeda T, Shimoda M, Ebrahimi D, VandeBerg JL, Harris RS, Koito A, Maeda K.

Sci Rep. 2017 Apr 21;7:46719. doi: 10.1038/srep46719.

41.

The SAMHD1 dNTP Triphosphohydrolase Is Controlled by a Redox Switch.

Mauney CH, Rogers LC, Harris RS, Daniel LW, Devarie-Baez NO, Wu H, Furdui CM, Poole LB, Perrino FW, Hollis T.

Antioxid Redox Signal. 2017 Dec 1;27(16):1317-1331. doi: 10.1089/ars.2016.6888. Epub 2017 Apr 18.

42.

Merkel Cell Polyomavirus Exhibits Dominant Control of the Tumor Genome and Transcriptome in Virus-Associated Merkel Cell Carcinoma.

Starrett GJ, Marcelus C, Cantalupo PG, Katz JP, Cheng J, Akagi K, Thakuria M, Rabinowits G, Wang LC, Symer DE, Pipas JM, Harris RS, DeCaprio JA.

MBio. 2017 Jan 3;8(1). pii: e02079-16. doi: 10.1128/mBio.02079-16.

43.

Nanoscale Characterization of Interaction of APOBEC3G with RNA.

Pan Y, Sun Z, Maiti A, Kanai T, Matsuo H, Li M, Harris RS, Shlyakhtenko LS, Lyubchenko YL.

Biochemistry. 2017 Mar 14;56(10):1473-1481. doi: 10.1021/acs.biochem.6b01189. Epub 2017 Mar 3.

44.

Structural basis for targeted DNA cytosine deamination and mutagenesis by APOBEC3A and APOBEC3B.

Shi K, Carpenter MA, Banerjee S, Shaban NM, Kurahashi K, Salamango DJ, McCann JL, Starrett GJ, Duffy JV, Demir Ö, Amaro RE, Harki DA, Harris RS, Aihara H.

Nat Struct Mol Biol. 2017 Feb;24(2):131-139. doi: 10.1038/nsmb.3344. Epub 2016 Dec 19.

45.

Evolutionary Paradigms from Ancient and Ongoing Conflicts between the Lentiviral Vif Protein and Mammalian APOBEC3 Enzymes.

Harris RS, Anderson BD.

PLoS Pathog. 2016 Dec 1;12(12):e1005958. doi: 10.1371/journal.ppat.1005958. eCollection 2016 Dec. Review. No abstract available.

46.

Reassessing APOBEC3G Inhibition by HIV-1 Vif-Derived Peptides.

Richards CM, Li M, Perkins AL, Rathore A, Harki DA, Harris RS.

J Mol Biol. 2017 Jan 6;429(1):88-96. doi: 10.1016/j.jmb.2016.11.012. Epub 2016 Nov 22.

47.

Helix-Grafted Pleckstrin Homology Domains Suppress HIV-1 Infection of CD4-Positive Cells.

Tennyson RL, Walker SN, Ikeda T, Harris RS, Kennan AJ, McNaughton BR.

Chembiochem. 2016 Oct 17;17(20):1945-1950. doi: 10.1002/cbic.201600329. Epub 2016 Aug 30.

48.

Lung Metabolic Activation as an Early Biomarker of Acute Respiratory Distress Syndrome and Local Gene Expression Heterogeneity.

Wellman TJ, de Prost N, Tucci M, Winkler T, Baron RM, Filipczak P, Raby B, Chu JH, Harris RS, Musch G, Dos Reis Falcao LF, Capelozzi V, Venegas JG, Vidal Melo MF.

Anesthesiology. 2016 Nov;125(5):992-1004.

49.

The DNA cytosine deaminase APOBEC3B promotes tamoxifen resistance in ER-positive breast cancer.

Law EK, Sieuwerts AM, LaPara K, Leonard B, Starrett GJ, Molan AM, Temiz NA, Vogel RI, Meijer-van Gelder ME, Sweep FC, Span PN, Foekens JA, Martens JW, Yee D, Harris RS.

Sci Adv. 2016 Oct 7;2(10):e1601737. eCollection 2016 Oct.

50.

Allergic asthma is distinguished by sensitivity of allergen-specific CD4+ T cells and airway structural cells to type 2 inflammation.

Cho JL, Ling MF, Adams DC, Faustino L, Islam SA, Afshar R, Griffith JW, Harris RS, Ng A, Radicioni G, Ford AA, Han AK, Xavier R, Kwok WW, Boucher R, Moon JJ, Hamilos DL, Kesimer M, Suter MJ, Medoff BD, Luster AD.

Sci Transl Med. 2016 Oct 5;8(359):359ra132.

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