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CD32+CD4+ T Cells Are Highly Enriched for HIV DNA and Can Support Transcriptional Latency.

Darcis G, Kootstra NA, Hooibrink B, van Montfort T, Maurer I, Groen K, Jurriaans S, Bakker M, van Lint C, Berkhout B, Pasternak AO.

Cell Rep. 2020 Feb 18;30(7):2284-2296.e3. doi: 10.1016/j.celrep.2020.01.071.


HIV-negative Men Who Have Sex with Men have higher CD8+ T-cell Counts and Lower CD4+/CD8+ T-cell Ratios compared to HIV-negative Heterosexual Men.

Verboeket SO, Wit FW, Verheij E, van Zoest RA, Kootstra NA, van der Valk M, Prins JM, Schim van der Loeff MF, Reiss P.

J Infect Dis. 2020 Jan 31. pii: jiaa048. doi: 10.1093/infdis/jiaa048. [Epub ahead of print]


The Role of Macrophages in HIV-1 Persistence and Pathogenesis.

Kruize Z, Kootstra NA.

Front Microbiol. 2019 Dec 5;10:2828. doi: 10.3389/fmicb.2019.02828. eCollection 2019. Review.


Sexually transmitted founder HIV-1 viruses are relatively resistant to Langerhans cell-mediated restriction.

Hertoghs N, Nijmeijer BM, van Teijlingen NH, Fenton-May AE, Kaptein TM, van Hamme JL, Kappes JC, Kootstra NA, Hahn BH, Borrow P, Ribeiro CMS, Geijtenbeek TBH.

PLoS One. 2019 Dec 19;14(12):e0226651. doi: 10.1371/journal.pone.0226651. eCollection 2019.


Elevated Lipoprotein(a) in Perinatally HIV-Infected Children Compared With Healthy Ethnicity-Matched Controls.

Van den Hof M, Klein Haneveld MJ, Blokhuis C, Scherpbier HJ, Jansen HPG, Kootstra NA, Dallinga-Thie GM, Van Deventer SJH, Tsimikas S, Pajkrt D; NOVICE study group .

Open Forum Infect Dis. 2019 Sep 2;6(9):ofz301. doi: 10.1093/ofid/ofz301. eCollection 2019 Sep.


Systemic and intrathecal immune activation in association with cerebral and cognitive outcomes in paediatric HIV.

Blokhuis C, Peeters CFW, Cohen S, Scherpbier HJ, Kuijpers TW, Reiss P, Kootstra NA, Teunissen CE, Pajkrt D.

Sci Rep. 2019 May 29;9(1):8004. doi: 10.1038/s41598-019-44198-z.


Cross-genotype AR3-specific neutralizing antibodies confer long-term protection in injecting drug users after HCV clearance.

Merat SJ, Bru C, van de Berg D, Molenkamp R, Tarr AW, Koekkoek S, Kootstra NA, Prins M, Ball JK, Bakker AQ, de Jong MD, Spits H, Beaumont T, Schinkel J.

J Hepatol. 2019 Jul;71(1):14-24. doi: 10.1016/j.jhep.2019.02.013. Epub 2019 Feb 21.


Do people living with HIV experience greater age advancement than their HIV-negative counterparts?

De Francesco D, Wit FW, Bürkle A, Oehlke S, Kootstra NA, Winston A, Franceschi C, Garagnani P, Pirazzini C, Libert C, Grune T, Weber D, Jansen EHJM, Sabin CA, Reiss P; the Co-morBidity in Relation to AIDS (COBRA) Collaboration.

AIDS. 2019 Feb 1;33(2):259-268. doi: 10.1097/QAD.0000000000002063.


Deep sequencing identifies hepatitis B virus core protein signatures in chronic hepatitis B patients.

van der Ree MH, Jansen L, Welkers MRA, Reesink HW, Feenstra KA, Kootstra NA.

Antiviral Res. 2018 Oct;158:213-225. doi: 10.1016/j.antiviral.2018.08.009. Epub 2018 Aug 16.


Novel Orthobunyavirus Identified in the Cerebrospinal Fluid of a Ugandan Child With Severe Encephalopathy.

Edridge AWD, Deijs M, Namazzi R, Cristella C, Jebbink MF, Maurer I, Kootstra NA, Buluma LR, van Woensel JBM, de Jong MD, Idro R, Boele van Hensbroek M, van der Hoek L.

Clin Infect Dis. 2019 Jan 1;68(1):139-142. doi: 10.1093/cid/ciy486.


The 'COmorBidity in Relation to AIDS' (COBRA) cohort: Design, methods and participant characteristics.

De Francesco D, Wit FW, Cole JH, Kootstra NA, Winston A, Sabin CA, Underwood J, van Zoest RA, Schouten J, Kooij KW, Prins M, Guaraldi G, Caan MWA, Burger D, Franceschi C, Libert C, Bürkle A, Reiss P; COmorBidity in Relation to AIDS (COBRA) collaboration.

PLoS One. 2018 Mar 29;13(3):e0191791. doi: 10.1371/journal.pone.0191791. eCollection 2018.


Dynamics of the Immune Response in Acute Hepatitis B Infection.

Stelma F, Willemse SB, Erken R, de Niet A, Sinnige MJ, van Dort K, Zaaijer HL, van Leeuwen EMM, Kootstra NA, Reesink HW.

Open Forum Infect Dis. 2017 Dec 20;4(4):ofx231. doi: 10.1093/ofid/ofx231. eCollection 2017 Fall.


Inflammatory and Neuronal Biomarkers Associated With Retinal Thinning in Pediatric HIV.

Blokhuis C, Doeleman S, Cohen S, Demirkaya N, Scherpbier HJ, Kootstra NA, Kuhle J, Teunissen CE, Verbraak FD, Pajkrt D.

Invest Ophthalmol Vis Sci. 2017 Nov 1;58(13):5985-5992. doi: 10.1167/iovs.17-22252.


CNS penetration of ART in HIV-infected children.

Van den Hof M, Blokhuis C, Cohen S, Scherpbier HJ, Wit FWNM, Pistorius MCM, Kootstra NA, Teunissen CE, Mathot RAA, Pajkrt D.

J Antimicrob Chemother. 2018 Feb 1;73(2):484-489. doi: 10.1093/jac/dkx396.


Structural Brain Abnormalities in Successfully Treated HIV Infection: Associations With Disease and Cerebrospinal Fluid Biomarkers.

van Zoest RA, Underwood J, De Francesco D, Sabin CA, Cole JH, Wit FW, Caan MWA, Kootstra NA, Fuchs D, Zetterberg H, Majoie CBLM, Portegies P, Winston A, Sharp DJ, Gisslén M, Reiss P; Comorbidity in Relation to AIDS (COBRA) Collaboration.

J Infect Dis. 2017 Dec 27;217(1):69-81. doi: 10.1093/infdis/jix553.


Acquisition of wild-type HIV-1 infection in a patient on pre-exposure prophylaxis with high intracellular concentrations of tenofovir diphosphate: a case report.

Hoornenborg E, Prins M, Achterbergh RCA, Woittiez LR, Cornelissen M, Jurriaans S, Kootstra NA, Anderson PL, Reiss P, de Vries HJC, Prins JM, de Bree GJ; Amsterdam PrEP Project team in the HIV Transmission Elimination AMsterdam Consortium (H-TEAM).

Lancet HIV. 2017 Nov;4(11):e522-e528. doi: 10.1016/S2352-3018(17)30132-7. Epub 2017 Sep 14.


Immune responses in DAA treated chronic hepatitis C patients with and without prior RG-101 dosing.

van der Ree MH, Stelma F, Willemse SB, Brown A, Swadling L, van der Valk M, Sinnige MJ, van Nuenen AC, de Vree JML, Klenerman P, Barnes E, Kootstra NA, Reesink HW.

Antiviral Res. 2017 Oct;146:139-145. doi: 10.1016/j.antiviral.2017.08.016. Epub 2017 Aug 24.


Terminal differentiation of T cells is strongly associated with CMV infection and increased in HIV-positive individuals on ART and lifestyle matched controls.

Booiman T, Wit FW, Girigorie AF, Maurer I, De Francesco D, Sabin CA, Harskamp AM, Prins M, Franceschi C, Deeks SG, Winston A, Reiss P, Kootstra NA; Co-morBidity in Relation to Aids (COBRA) Collaboration.

PLoS One. 2017 Aug 14;12(8):e0183357. doi: 10.1371/journal.pone.0183357. eCollection 2017.


Viral minority variants in the core promoter and precore region identified by deep sequencing are associated with response to peginterferon and adefovir in HBeAg negative chronic hepatitis B patients.

Jansen L, Welkers MRA, van Dort KA, Takkenberg RB, Lopatin U, Zaaijer HL, de Jong MD, Reesink HW, Kootstra NA.

Antiviral Res. 2017 Sep;145:87-95. doi: 10.1016/j.antiviral.2017.07.013. Epub 2017 Jul 25.


Human intrahepatic CD69 + CD8+ T cells have a tissue resident memory T cell phenotype with reduced cytolytic capacity.

Stelma F, de Niet A, Sinnige MJ, van Dort KA, van Gisbergen KPJM, Verheij J, van Leeuwen EMM, Kootstra NA, Reesink HW.

Sci Rep. 2017 Jul 21;7(1):6172. doi: 10.1038/s41598-017-06352-3.


High Cellular Monocyte Activation in People Living With Human Immunodeficiency Virus on Combination Antiretroviral Therapy and Lifestyle-Matched Controls Is Associated With Greater Inflammation in Cerebrospinal Fluid.

Booiman T, Wit FW, Maurer I, De Francesco D, Sabin CA, Harskamp AM, Prins M, Garagnani P, Pirazzini C, Franceschi C, Fuchs D, Gisslén M, Winston A, Reiss P, Kootstra NA; Comorbidity in Relation to AIDS (COBRA) Collaboration .

Open Forum Infect Dis. 2017 May 25;4(3):ofx108. doi: 10.1093/ofid/ofx108. eCollection 2017 Summer.


NK cells in self-limited HCV infection exhibit a more extensively differentiated, but not memory-like, repertoire.

de Groen RA, Groothuismink ZMA, van Oord G, Kootstra NA, Janssen HLA, Prins M, Schinkel J, Boonstra A.

J Viral Hepat. 2017 Nov;24(11):917-926. doi: 10.1111/jvh.12716. Epub 2017 May 17.


Plasma MicroRNA Levels Are Associated With Hepatitis B e Antigen Status and Treatment Response in Chronic Hepatitis B Patients.

van der Ree MH, Jansen L, Kruize Z, van Nuenen AC, van Dort KA, Takkenberg RB, Reesink HW, Kootstra NA.

J Infect Dis. 2017 May 1;215(9):1421-1429. doi: 10.1093/infdis/jix140.


Erratum: HIV-1 blocks the signaling adaptor MAVS to evade antiviral host defense after sensing of abortive HIV-1 RNA by the host helicase DDX3.

Gringhuis SI, Hertoghs N, Kaptein TM, Zijlstra-Willems EM, Sarrami-Fooroshani R, Sprokholt JK, van Teijlingen NH, Kootstra NA, Booiman T, van Dort KA, Ribeiro CM, Drewniak A, Geijtenbeek TB.

Nat Immunol. 2017 Mar 22;18(4):474. doi: 10.1038/ni0417-474c. No abstract available.


Immune phenotype and function of natural killer and T cells in chronic hepatitis C patients who received a single dose of anti-MicroRNA-122, RG-101.

Stelma F, van der Ree MH, Sinnige MJ, Brown A, Swadling L, de Vree JML, Willemse SB, van der Valk M, Grint P, Neben S, Klenerman P, Barnes E, Kootstra NA, Reesink HW.

Hepatology. 2017 Jul;66(1):57-68. doi: 10.1002/hep.29148. Epub 2017 Jun 7.


Safety, tolerability, and antiviral effect of RG-101 in patients with chronic hepatitis C: a phase 1B, double-blind, randomised controlled trial.

van der Ree MH, de Vree JM, Stelma F, Willemse S, van der Valk M, Rietdijk S, Molenkamp R, Schinkel J, van Nuenen AC, Beuers U, Hadi S, Harbers M, van der Veer E, Liu K, Grundy J, Patick AK, Pavlicek A, Blem J, Huang M, Grint P, Neben S, Gibson NW, Kootstra NA, Reesink HW.

Lancet. 2017 Feb 18;389(10070):709-717. doi: 10.1016/S0140-6736(16)31715-9. Epub 2017 Jan 11.


HIV-1 blocks the signaling adaptor MAVS to evade antiviral host defense after sensing of abortive HIV-1 RNA by the host helicase DDX3.

Gringhuis SI, Hertoghs N, Kaptein TM, Zijlstra-Willems EM, Sarrami-Forooshani R, Sprokholt JK, van Teijlingen NH, Kootstra NA, Booiman T, van Dort KA, Ribeiro CM, Drewniak A, Geijtenbeek TB.

Nat Immunol. 2017 Feb;18(2):225-235. doi: 10.1038/ni.3647. Epub 2016 Dec 26. Erratum in: Nat Immunol. 2017 Mar 22;18(4):474.


Receptor usage dictates HIV-1 restriction by human TRIM5α in dendritic cell subsets.

Ribeiro CM, Sarrami-Forooshani R, Setiawan LC, Zijlstra-Willems EM, van Hamme JL, Tigchelaar W, van der Wel NN, Kootstra NA, Gringhuis SI, Geijtenbeek TB.

Nature. 2016 Dec 15;540(7633):448-452. doi: 10.1038/nature20567. Epub 2016 Dec 7.


Hepatitis B Virus Protein X Induces Degradation of Talin-1.

van de Klundert MA, van den Biggelaar M, Kootstra NA, Zaaijer HL.

Viruses. 2016 Oct 19;8(10). pii: E281.


Cigarette Smoking and Inflammation, Monocyte Activation, and Coagulation in HIV-Infected Individuals Receiving Antiretroviral Therapy, Compared With Uninfected Individuals.

Kooij KW, Wit FW, Booiman T, van der Valk M, Schim van der Loeff MF, Kootstra NA, Reiss P; AGEhIV Cohort Study Group.

J Infect Dis. 2016 Dec 15;214(12):1817-1821. Epub 2016 Sep 28.


Difference in Aortic Stiffness Between Treated Middle-Aged HIV Type 1-Infected and Uninfected Individuals Largely Explained by Traditional Cardiovascular Risk Factors, With an Additional Contribution of Prior Advanced Immunodeficiency.

Kooij KW, Schouten J, Wit FW, van der Valk M, Kootstra NA, Stolte IG, van der Meer JT, Prins M, Grobbee DE, van den Born BJ, Reiss P.

J Acquir Immune Defic Syndr. 2016 Sep 1;73(1):55-62. doi: 10.1097/QAI.0000000000001024.


HIV-1 escapes from N332-directed antibody neutralization in an elite neutralizer by envelope glycoprotein elongation and introduction of unusual disulfide bonds.

van den Kerkhof TL, de Taeye SW, Boeser-Nunnink BD, Burton DR, Kootstra NA, Schuitemaker H, Sanders RW, van Gils MJ.

Retrovirology. 2016 Jul 7;13(1):48. doi: 10.1186/s12977-016-0279-4.


Intrahepatic IP-10 mRNA and plasma IP-10 levels as response marker for HBeAg-positive chronic hepatitis B patients treated with peginterferon and adefovir.

Willemse SB, Jansen L, de Niet A, Sinnige MJ, Takkenberg RB, Verheij J, Kootstra NA, Reesink HW.

Antiviral Res. 2016 Jul;131:148-55. doi: 10.1016/j.antiviral.2016.05.002. Epub 2016 May 4.


Higher Prevalence of Hypertension in HIV-1-Infected Patients on Combination Antiretroviral Therapy Is Associated With Changes in Body Composition and Prior Stavudine Exposure.

van Zoest RA, Wit FW, Kooij KW, van der Valk M, Schouten J, Kootstra NA, Wiersinga WJ, Prins M, van den Born BJ, Reiss P; AGEhIV Cohort Study Group.

Clin Infect Dis. 2016 Jul 15;63(2):205-13. doi: 10.1093/cid/ciw285. Epub 2016 May 3.


Liver fibrosis in HIV-infected individuals on long-term antiretroviral therapy: associated with immune activation, immunodeficiency and prior use of didanosine.

Kooij KW, Wit FW, van Zoest RA, Schouten J, Kootstra NA, van Vugt M, Prins M, Reiss P, van der Valk M; AGEhIV Cohort Study Group.

AIDS. 2016 Jul 17;30(11):1771-80. doi: 10.1097/QAD.0000000000001119.


T-Cell Activation Independently Associates With Immune Senescence in HIV-Infected Recipients of Long-term Antiretroviral Treatment.

Cobos Jiménez V, Wit FW, Joerink M, Maurer I, Harskamp AM, Schouten J, Prins M, van Leeuwen EM, Booiman T, Deeks SG, Reiss P, Kootstra NA; AGEhIV Study Group.

J Infect Dis. 2016 Jul 15;214(2):216-25. doi: 10.1093/infdis/jiw146. Epub 2016 Apr 12.


Neurometabolite Alterations Associated With Cognitive Performance in Perinatally HIV-Infected Children.

Van Dalen YW, Blokhuis C, Cohen S, Ter Stege JA, Teunissen CE, Kuhle J, Kootstra NA, Scherpbier HJ, Kuijpers TW, Reiss P, Majoie CB, Caan MW, Pajkrt D.

Medicine (Baltimore). 2016 Mar;95(12):e3093. doi: 10.1097/MD.0000000000003093.


HLA-C and KIR combined genotype as new response marker for HBeAg-positive chronic hepatitis B patients treated with interferon-based combination therapy.

Stelma F, Jansen L, Sinnige MJ, van Dort KA, Takkenberg RB, Janssen HL, Reesink HW, Kootstra NA.

J Viral Hepat. 2016 Aug;23(8):652-9. doi: 10.1111/jvh.12525. Epub 2016 Mar 4.


The Neutralizing Antibody Response in an Individual with Triple HIV-1 Infection Remains Directed at the First Infecting Subtype.

Cornelissen M, Euler Z, van den Kerkhof TL, van Gils MJ, Boeser-Nunnink BD, Kootstra NA, Zorgdrager F, Schuitemaker H, Prins JM, Sanders RW, van der Kuyl AC.

AIDS Res Hum Retroviruses. 2016 Oct/Nov;32(10-11):1135-1142. Epub 2016 Feb 24.


Determinants of reduced cognitive performance in HIV-1-infected middle-aged men on combination antiretroviral therapy.

Schouten J, Su T, Wit FW, Kootstra NA, Caan MW, Geurtsen GJ, Schmand BA, Stolte IG, Prins M, Majoie CB, Portegies P, Reiss P; AGEhIV Study Group.

AIDS. 2016 Apr 24;30(7):1027-38. doi: 10.1097/QAD.0000000000001017.


DYRK1A Controls HIV-1 Replication at a Transcriptional Level in an NFAT Dependent Manner.

Booiman T, Loukachov VV, van Dort KA, van 't Wout AB, Kootstra NA.

PLoS One. 2015 Dec 7;10(12):e0144229. doi: 10.1371/journal.pone.0144229. eCollection 2015.


ADAR1 Facilitates HIV-1 Replication in Primary CD4+ T Cells.

Cuadrado E, Booiman T, van Hamme JL, Jansen MH, van Dort KA, Vanderver A, Rice GI, Crow YJ, Kootstra NA, Kuijpers TW.

PLoS One. 2015 Dec 2;10(12):e0143613. doi: 10.1371/journal.pone.0143613. eCollection 2015.


Minor Contribution of Chimeric Host-HIV Readthrough Transcripts to the Level of HIV Cell-Associated gag RNA.

Pasternak AO, DeMaster LK, Kootstra NA, Reiss P, O'Doherty U, Berkhout B.

J Virol. 2015 Nov 11;90(2):1148-51. doi: 10.1128/JVI.02597-15. Print 2016 Jan 15.


Restoration of T cell function in chronic hepatitis B patients upon treatment with interferon based combination therapy.

de Niet A, Stelma F, Jansen L, Sinnige MJ, Remmerswaal EB, Takkenberg RB, Kootstra NA, Reesink HW, van Lier RA, van Leeuwen EM.

J Hepatol. 2016 Mar;64(3):539-46. doi: 10.1016/j.jhep.2015.10.013. Epub 2015 Oct 24.


Miravirsen dosing in chronic hepatitis C patients results in decreased microRNA-122 levels without affecting other microRNAs in plasma.

van der Ree MH, van der Meer AJ, van Nuenen AC, de Bruijne J, Ottosen S, Janssen HL, Kootstra NA, Reesink HW.

Aliment Pharmacol Ther. 2016 Jan;43(1):102-13. doi: 10.1111/apt.13432. Epub 2015 Oct 26.


Next-generation sequencing of microRNAs in primary human polarized macrophages.

Cobos Jiménez V, Willemsen AM, Bradley EJ, Baas F, van Kampen AH, Kootstra NA.

Genom Data. 2014 Jun 27;2:181-3. doi: 10.1016/j.gdata.2014.06.019. eCollection 2014 Dec.


Adaptation of HIV-1 to rhTrim5α-mediated restriction in vitro.

Setiawan LC, Kootstra NA.

Virology. 2015 Dec;486:239-47. doi: 10.1016/j.virol.2015.09.017. Epub 2015 Oct 27.


Identification of FDA-approved drugs that target hepatitis B virus transcription.

van de Klundert MA, Zaaijer HL, Kootstra NA.

J Viral Hepat. 2016 Mar;23(3):191-201. doi: 10.1111/jvh.12479. Epub 2015 Oct 12.


G3BP1 restricts HIV-1 replication in macrophages and T-cells by sequestering viral RNA.

Cobos Jiménez V, Martinez FO, Booiman T, van Dort KA, van de Klundert MA, Gordon S, Geijtenbeek TB, Kootstra NA.

Virology. 2015 Dec;486:94-104. doi: 10.1016/j.virol.2015.09.007. Epub 2015 Sep 29.


Mutations in CypA Binding Region of HIV-1 Capsid Affect Capsid Stability and Viral Replication in Primary Macrophages.

Setiawan LC, van Dort KA, Rits MA, Kootstra NA.

AIDS Res Hum Retroviruses. 2016 Apr;32(4):390-8. doi: 10.1089/AID.2014.0361. Epub 2015 Oct 20.


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