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There's no place like OM: Vesicular sorting and secretion of the peptidylarginine deiminase of Porphyromonas gingivalis.

Gabarrini G, Palma Medina LM, Stobernack T, Prins RC, du Teil Espina M, Kuipers J, Chlebowicz MA, Rossen JWA, van Winkelhoff AJ, van Dijl JM.

Virulence. 2018 Jan 1;9(1):456-464. doi: 10.1080/21505594.2017.1421827.


Hemodialysis Induces an Acute Decline in Cerebral Blood Flow in Elderly Patients.

Polinder-Bos HA, García DV, Kuipers J, Elting JWJ, Aries MJH, Krijnen WP, Groen H, Willemsen ATM, van Laar PJ, Strijkert F, Luurtsema G, Slart RHJA, Westerhuis R, Gansevoort RT, Gaillard CAJM, Franssen CFM.

J Am Soc Nephrol. 2018 Mar 1. pii: ASN.2017101088. doi: 10.1681/ASN.2017101088. [Epub ahead of print]


Iron deficiency impairs contractility of human cardiomyocytes through decreased mitochondrial function.

Hoes MF, Grote Beverborg N, Kijlstra JD, Kuipers J, Swinkels DW, Giepmans BNG, Rodenburg RJ, van Veldhuisen DJ, de Boer RA, van der Meer P.

Eur J Heart Fail. 2018 Feb 27. doi: 10.1002/ejhf.1154. [Epub ahead of print]


A novel flatworm-specific gene implicated in reproduction in Macrostomum lignano.

Grudniewska M, Mouton S, Grelling M, Wolters AHG, Kuipers J, Giepmans BNG, Berezikov E.

Sci Rep. 2018 Feb 16;8(1):3192. doi: 10.1038/s41598-018-21107-4.


A small protein probe for correlated microscopy of endogenous proteins.

de Beer MA, Kuipers J, van Bergen En Henegouwen PMP, Giepmans BNG.

Histochem Cell Biol. 2018 Mar;149(3):261-268. doi: 10.1007/s00418-018-1632-6. Epub 2018 Jan 11.


Magnetic particle tracking for nonspherical particles in a cylindrical fluidized bed.

Buist KA, Jayaprakash P, Kuipers JAM, Deen NG, Padding JT.

AIChE J. 2017 Dec;63(12):5335-5342. doi: 10.1002/aic.15854. Epub 2017 Jul 18.


Viscoelastic flow past mono- and bidisperse random arrays of cylinders: flow resistance, topology and normal stress distribution.

De S, Kuipers JAM, Peters EAJF, Padding JT.

Soft Matter. 2017 Dec 13;13(48):9138-9146. doi: 10.1039/c7sm01818e.


Effect of Superficial Gas Velocity on the Solid Temperature Distribution in Gas Fluidized Beds with Heat Production.

Banaei M, Jegers J, van Sint Annaland M, Kuipers JAM, Deen NG.

Ind Eng Chem Res. 2017 Aug 2;56(30):8729-8737. doi: 10.1021/acs.iecr.7b00338. Epub 2017 Jul 11.


Effect of isolated ultrafiltration and isovolemic dialysis on myocardial perfusion and left ventricular function assessed with 13N-NH3 positron emission tomography and echocardiography.

Assa S, Kuipers J, Ettema E, Gaillard CAJM, Krijnen WP, Hummel YM, Voors AA, van Melle JP, Westerhuis R, Willemsen A, Slart RHJA, Franssen CFM.

Am J Physiol Renal Physiol. 2018 Mar 1;314(3):F445-F452. doi: 10.1152/ajprenal.00368.2017. Epub 2017 Nov 8.


Single-cell sequencing data reveal widespread recurrence and loss of mutational hits in the life histories of tumors.

Kuipers J, Jahn K, Raphael BJ, Beerenwinkel N.

Genome Res. 2017 Nov;27(11):1885-1894. doi: 10.1101/gr.220707.117. Epub 2017 Oct 13.


Particle-based modeling of heterogeneous chemical kinetics including mass transfer.

Sengar A, Kuipers JAM, van Santen RA, Padding JT.

Phys Rev E. 2017 Aug;96(2-1):022115. doi: 10.1103/PhysRevE.96.022115. Epub 2017 Aug 8.


Viscoelastic effects on residual oil distribution in flows through pillared microchannels.

De S, Krishnan P, van der Schaaf J, Kuipers JAM, Peters EAJF, Padding JT.

J Colloid Interface Sci. 2018 Jan 15;510:262-271. doi: 10.1016/j.jcis.2017.09.069. Epub 2017 Sep 20.


Computational Fluid Dynamics-Discrete Element Method (CFD-DEM) Study of Mass-Transfer Mechanisms in Riser Flow.

Carlos Varas ÁE, Peters EAJF, Kuipers JAM.

Ind Eng Chem Res. 2017 May 17;56(19):5558-5572. doi: 10.1021/acs.iecr.7b00366. Epub 2017 Apr 26.


Using Directed Acyclic Graphs in Epidemiological Research in Psychosis: An Analysis of the Role of Bullying in Psychosis.

Moffa G, Catone G, Kuipers J, Kuipers E, Freeman D, Marwaha S, Lennox BR, Broome MR, Bebbington P.

Schizophr Bull. 2017 Oct 21;43(6):1273-1279. doi: 10.1093/schbul/sbx013.


Guanine quadruplex structures localize to heterochromatin.

Hoffmann RF, Moshkin YM, Mouton S, Grzeschik NA, Kalicharan RD, Kuipers J, Wolters AHG, Nishida K, Romashchenko AV, Postberg J, Lipps H, Berezikov E, Sibon OCM, Giepmans BNG, Lansdorp PM.

Nucleic Acids Res. 2017 Jun 2;45(10):6253. doi: 10.1093/nar/gkx301. No abstract available.


Multi-color electron microscopy by element-guided identification of cells, organelles and molecules.

Scotuzzi M, Kuipers J, Wensveen DI, de Boer P, Hagen KC, Hoogenboom JP, Giepmans BN.

Sci Rep. 2017 Apr 7;7:45970. doi: 10.1038/srep45970.


Word meaning acquisition is reflected in brain potentials of isolated words.

Kuipers JR, Uminski A, Green Z, Hughes D, Aglietti T.

Sci Rep. 2017 Mar 3;7:43341. doi: 10.1038/srep43341.


Advances in understanding tumour evolution through single-cell sequencing.

Kuipers J, Jahn K, Beerenwinkel N.

Biochim Biophys Acta. 2017 Apr;1867(2):127-138. doi: 10.1016/j.bbcan.2017.02.001. Epub 2017 Feb 11. Review.


Detailed simulation of cancer exome sequencing data reveals differences and common limitations of variant callers.

Hofmann AL, Behr J, Singer J, Kuipers J, Beisel C, Schraml P, Moch H, Beerenwinkel N.

BMC Bioinformatics. 2017 Jan 3;18(1):8. doi: 10.1186/s12859-016-1417-7.


pathTiMEx: Joint Inference of Mutually Exclusive Cancer Pathways and Their Progression Dynamics.

Cristea S, Kuipers J, Beerenwinkel N.

J Comput Biol. 2017 Jun;24(6):603-615. doi: 10.1089/cmb.2016.0171. Epub 2016 Dec 12.


Causes and Consequences of Interdialytic weight gain.

Ipema KJ, Kuipers J, Westerhuis R, Gaillard CA, van der Schans CP, Krijnen WP, Franssen CF.

Kidney Blood Press Res. 2016;41(5):710-720. Epub 2016 Oct 14.


Large-scale inference of conjunctive Bayesian networks.

Montazeri H, Kuipers J, Kouyos R, Böni J, Yerly S, Klimkait T, Aubert V, Günthard HF, Beerenwinkel N; Swiss HIV Cohort Study.

Bioinformatics. 2016 Sep 1;32(17):i727-i735. doi: 10.1093/bioinformatics/btw459.


Enterovirus infection of human islets of Langerhans affects β-cell function resulting in disintegrated islets, decreased glucose stimulated insulin secretion and loss of Golgi structure.

Hodik M, Skog O, Lukinius A, Isaza-Correa JM, Kuipers J, Giepmans BN, Frisk G.

BMJ Open Diabetes Res Care. 2016 Aug 10;4(1):e000179. doi: 10.1136/bmjdrc-2015-000179. eCollection 2016.


Survival and Functionality of Human Induced Pluripotent Stem Cell-Derived Oligodendrocytes in a Nonhuman Primate Model for Multiple Sclerosis.

Thiruvalluvan A, Czepiel M, Kap YA, Mantingh-Otter I, Vainchtein I, Kuipers J, Bijlard M, Baron W, Giepmans B, Brück W, 't Hart BA, Boddeke E, Copray S.

Stem Cells Transl Med. 2016 Nov;5(11):1550-1561. doi: 10.5966/sctm.2016-0024. Epub 2016 Jul 11.


Large-scale Scanning Transmission Electron Microscopy (Nanotomy) of Healthy and Injured Zebrafish Brain.

Kuipers J, Kalicharan RD, Wolters AH, van Ham TJ, Giepmans BN.

J Vis Exp. 2016 May 25;(111). doi: 10.3791/53635.


Selection of polymers for application in scaffolds applicable for human pancreatic islet transplantation.

Smink AM, de Haan BJ, Paredes-Juarez GA, Wolters AH, Kuipers J, Giepmans BN, Schwab L, Engelse MA, van Apeldoorn AA, de Koning E, Faas MM, de Vos P.

Biomed Mater. 2016 May 13;11(3):035006. doi: 10.1088/1748-6041/11/3/035006.


Tree inference for single-cell data.

Jahn K, Kuipers J, Beerenwinkel N.

Genome Biol. 2016 May 5;17:86. doi: 10.1186/s13059-016-0936-x.


Multiparticle Correlations in Mesoscopic Scattering: Boson Sampling, Birthday Paradox, and Hong-Ou-Mandel Profiles.

Urbina JD, Kuipers J, Matsumoto S, Hummel Q, Richter K.

Phys Rev Lett. 2016 Mar 11;116(10):100401. doi: 10.1103/PhysRevLett.116.100401. Epub 2016 Mar 8.


ERPs Reveal the Time-Course of Aberrant Visual-Phonological Binding in Developmental Dyslexia.

Jones MW, Kuipers JR, Thierry G.

Front Hum Neurosci. 2016 Mar 1;10:71. doi: 10.3389/fnhum.2016.00071. eCollection 2016.


[Therapy of ANCA-associated vasculitis with severe renal manifestation under routine conditions].

Stille K, Kuipers JG, Herget-Rosenthal S.

Z Rheumatol. 2016 Nov;75(9):910-916. German.


Normothermic machine perfusion reduces bile duct injury and improves biliary epithelial function in rat donor livers.

Op den Dries S, Karimian N, Westerkamp AC, Sutton ME, Kuipers M, Wiersema-Buist J, Ottens PJ, Kuipers J, Giepmans BN, Leuvenink HG, Lisman T, Porte RJ.

Liver Transpl. 2016 Jul;22(7):994-1005. doi: 10.1002/lt.24436.


Prevalence of intradialytic hypotension, clinical symptoms and nursing interventions--a three-months, prospective study of 3818 haemodialysis sessions.

Kuipers J, Oosterhuis JK, Krijnen WP, Dasselaar JJ, Gaillard CA, Westerhuis R, Franssen CF.

BMC Nephrol. 2016 Feb 27;17:21. doi: 10.1186/s12882-016-0231-9.


Enzymes for Pancreatic Islet Isolation Impact Chemokine-Production and Polarization of Insulin-Producing β-Cells with Reduced Functional Survival of Immunoisolated Rat Islet-Allografts as a Consequence.

de Vos P, Smink AM, Paredes G, Lakey JR, Kuipers J, Giepmans BN, de Haan BJ, Faas MM.

PLoS One. 2016 Jan 29;11(1):e0147992. doi: 10.1371/journal.pone.0147992. eCollection 2016.


Long-Term In Vitro Expansion of Salivary Gland Stem Cells Driven by Wnt Signals.

Maimets M, Rocchi C, Bron R, Pringle S, Kuipers J, Giepmans BN, Vries RG, Clevers H, de Haan G, van Os R, Coppes RP.

Stem Cell Reports. 2016 Jan 12;6(1):150-62. doi: 10.1016/j.stemcr.2015.11.009. Epub 2015 Dec 24.


Overexpression of cystathionine γ-lyase suppresses detrimental effects of spinocerebellar ataxia type 3.

Snijder PM, Baratashvili M, Grzeschik NA, Leuvenink HG, Kuijpers L, Huitema S, Schaap O, Giepmans BN, Kuipers J, Miljkovic JL, Mitrovic A, Bos EM, Szabó C, Kampinga HH, Dijkers PF, Den Dunnen WF, Filipovic MR, Van Goor H, Sibon OC.

Mol Med. 2015 Oct 13. doi: 10.2119/molmed.2015.00221. [Epub ahead of print]


Guanine quadruplex structures localize to heterochromatin.

Hoffmann RF, Moshkin YM, Mouton S, Grzeschik NA, Kalicharan RD, Kuipers J, Wolters AH, Nishida K, Romashchenko AV, Postberg J, Lipps H, Berezikov E, Sibon OC, Giepmans BN, Lansdorp PM.

Nucleic Acids Res. 2016 Jan 8;44(1):152-63. doi: 10.1093/nar/gkv900. Epub 2015 Sep 17.


Scanning EM of non-heavy metal stained biosamples: Large-field of view, high contrast and highly efficient immunolabeling.

Kuipers J, de Boer P, Giepmans BN.

Exp Cell Res. 2015 Oct 1;337(2):202-7. doi: 10.1016/j.yexcr.2015.07.012. Epub 2015 Aug 10. Review.


Bilingualism and increased attention to speech: Evidence from event-related potentials.

Kuipers JR, Thierry G.

Brain Lang. 2015 Oct;149:27-32. doi: 10.1016/j.bandl.2015.07.004. Epub 2015 Jul 13.


Optimized testing for C. trachomatis DNA in synovial fluid samples in clinical practice.

Freise J, Bernau I, Meier S, Zeidler H, Kuipers JG.

Z Rheumatol. 2015 Nov;74(9):824-8. doi: 10.1007/s00393-015-1589-y.


Mitochondrial Dysfunction in Human Leukemic Stem/Progenitor Cells upon Loss of RAC2.

Capala ME, Maat H, Bonardi F, van den Boom V, Kuipers J, Vellenga E, Giepmans BN, Schuringa JJ.

PLoS One. 2015 May 27;10(5):e0128585. doi: 10.1371/journal.pone.0128585. eCollection 2015.


Changes in Plasma Copeptin Levels during Hemodialysis: Are the Physiological Stimuli Active in Hemodialysis Patients?

Ettema EM, Kuipers J, Assa S, Bakker SJ, Groen H, Westerhuis R, Gaillard CA, Gansevoort RT, Franssen CF.

PLoS One. 2015 May 14;10(5):e0127116. doi: 10.1371/journal.pone.0127116. eCollection 2015.


On the road to somewhere: Brain potentials reflect language effects on motion event perception.

Flecken M, Athanasopoulos P, Kuipers JR, Thierry G.

Cognition. 2015 Aug;141:41-51. doi: 10.1016/j.cognition.2015.04.006. Epub 2015 Apr 29.


Use of clinical scores to guide therapeutic decisions in patients with rheumatoid arthritis in daily care.

Malysheva O, Bedrich A, Kuipers JG, Kleine H, Wolff B, Baerwald CG.

Clin Exp Rheumatol. 2015 Mar-Apr;33(2):255-8. Epub 2015 Apr 9.


Large-Scale Electron Microscopy Maps of Patient Skin and Mucosa Provide Insight into Pathogenesis of Blistering Diseases.

Sokol E, Kramer D, Diercks GFH, Kuipers J, Jonkman MF, Pas HH, Giepmans BNG.

J Invest Dermatol. 2015 Jul;135(7):1763-1770. doi: 10.1038/jid.2015.109. Epub 2015 Mar 19.


FLIPPER, a combinatorial probe for correlated live imaging and electron microscopy, allows identification and quantitative analysis of various cells and organelles.

Kuipers J, van Ham TJ, Kalicharan RD, Veenstra-Algra A, Sjollema KA, Dijk F, Schnell U, Giepmans BN.

Cell Tissue Res. 2015 Apr;360(1):61-70. doi: 10.1007/s00441-015-2142-7. Epub 2015 Mar 19.


Language and culture modulate online semantic processing.

Ellis C, Kuipers JR, Thierry G, Lovett V, Turnbull O, Jones MW.

Soc Cogn Affect Neurosci. 2015 Oct;10(10):1392-6. doi: 10.1093/scan/nsv028. Epub 2015 Mar 12.


Numerical investigation of the vertical plunging force of a spherical intruder into a prefluidized granular bed.

Xu Y, Padding JT, Kuipers JA.

Phys Rev E Stat Nonlin Soft Matter Phys. 2014 Dec;90(6):062203. Epub 2014 Dec 15.


Intravital correlated microscopy reveals differential macrophage and microglial dynamics during resolution of neuroinflammation.

van Ham TJ, Brady CA, Kalicharan RD, Oosterhof N, Kuipers J, Veenstra-Algra A, Sjollema KA, Peterson RT, Kampinga HH, Giepmans BN.

Dis Model Mech. 2014 Jul;7(7):857-69. doi: 10.1242/dmm.014886.


Anomalous transfer of syntax between languages.

Vaughan-Evans A, Kuipers JR, Thierry G, Jones MW.

J Neurosci. 2014 Jun 11;34(24):8333-5. doi: 10.1523/JNEUROSCI.0665-14.2014.


[Evidence-based recommendations for the management of undifferentiated peripheral inflammatory arthritis (UPIA). The German perspective on the international 3e initiative].

Tarner IH, Albrecht K, Fleck M, Gromnica-Ihle E, Keyßer G, Köhler L, Kötter I, Krüger K, Kuipers J, Nüßlein H, Rubbert-Roth A, Wollenhaupt J, Schneider M, Manger B, Müller-Ladner U; internationalen 3e-Initiative.

Z Rheumatol. 2014 May;73(4):363-73. doi: 10.1007/s00393-013-1249-z. German.


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