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Incidental findings in population imaging revisited.

Bunnik EM, Vernooij MW.

Eur J Epidemiol. 2016 Jan;31(1):1-4. doi: 10.1007/s10654-016-0123-0. Epub 2016 Feb 9. No abstract available.


Analysis of nucleosome positioning landscapes enables gene discovery in the human malaria parasite Plasmodium falciparum.

Lu XM, Bunnik EM, Pokhriyal N, Nasseri S, Lonardi S, Le Roch KG.

BMC Genomics. 2015 Nov 25;16:1005. doi: 10.1186/s12864-015-2214-9.


PfAlba1: master regulator of translation in the malaria parasite.

Bunnik EM, Le Roch KG.

Genome Biol. 2015 Oct 8;16:221. doi: 10.1186/s13059-015-0795-x.


PuFFIN--a parameter-free method to build nucleosome maps from paired-end reads.

Polishko A, Bunnik EM, Le Roch KG, Lonardi S.

BMC Bioinformatics. 2014;15 Suppl 9:S11. doi: 10.1186/1471-2105-15-S9-S11. Epub 2014 Sep 10.


Do genomic tests enhance autonomy?

Bunnik EM.

J Med Ethics. 2015 Apr;41(4):315-6. doi: 10.1136/medethics-2014-102171. Epub 2014 Jun 30. No abstract available.


DNA-encoded nucleosome occupancy is associated with transcription levels in the human malaria parasite Plasmodium falciparum.

Bunnik EM, Polishko A, Prudhomme J, Ponts N, Gill SS, Lonardi S, Le Roch KG.

BMC Genomics. 2014 May 8;15:347. doi: 10.1186/1471-2164-15-347.


Personal utility in genomic testing: is there such a thing?

Bunnik EM, Janssens AC, Schermer MH.

J Med Ethics. 2015 Apr;41(4):322-6. doi: 10.1136/medethics-2013-101887. Epub 2014 May 28.


Three-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression.

Ay F, Bunnik EM, Varoquaux N, Bol SM, Prudhomme J, Vert JP, Noble WS, Le Roch KG.

Genome Res. 2014 Jun;24(6):974-88. doi: 10.1101/gr.169417.113. Epub 2014 Mar 26.


An Introduction to Functional Genomics and Systems Biology.

Bunnik EM, Le Roch KG.

Adv Wound Care (New Rochelle). 2013 Nov;2(9):490-498.


Naming and framing in genomic testing.

Bunnik EM, Schermer MH, Janssens AC.

Trends Mol Med. 2014 Feb;20(2):63-5. doi: 10.1016/j.molmed.2013.11.001.


Genome-wide mapping of DNA methylation in the human malaria parasite Plasmodium falciparum.

Ponts N, Fu L, Harris EY, Zhang J, Chung DW, Cervantes MC, Prudhomme J, Atanasova-Penichon V, Zehraoui E, Bunnik EM, Rodrigues EM, Lonardi S, Hicks GR, Wang Y, Le Roch KG.

Cell Host Microbe. 2013 Dec 11;14(6):696-706. doi: 10.1016/j.chom.2013.11.007.


The multifunctional autophagy pathway in the human malaria parasite, Plasmodium falciparum.

Cervantes S, Bunnik EM, Saraf A, Conner CM, Escalante A, Sardiu ME, Ponts N, Prudhomme J, Florens L, Le Roch KG.

Autophagy. 2014 Jan;10(1):80-92. doi: 10.4161/auto.26743. Epub 2013 Nov 11.


Polysome profiling reveals translational control of gene expression in the human malaria parasite Plasmodium falciparum.

Bunnik EM, Chung DW, Hamilton M, Ponts N, Saraf A, Prudhomme J, Florens L, Le Roch KG.

Genome Biol. 2013 Nov 22;14(11):R128. doi: 10.1186/gb-2013-14-11-r128.


The new genetics and informed consent: differentiating choice to preserve autonomy.

Bunnik EM, de Jong A, Nijsingh N, de Wert GM.

Bioethics. 2013 Jul;27(6):348-55. doi: 10.1111/bioe.12030. Epub 2013 May 30.


A tiered-layered-staged model for informed consent in personal genome testing.

Bunnik EM, Janssens AC, Schermer MH.

Eur J Hum Genet. 2013 Jun;21(6):596-601. doi: 10.1038/ejhg.2012.237. Epub 2012 Nov 21.


Informed consent in direct-to-consumer personal genome testing: the outline of a model between specific and generic consent.

Bunnik EM, Janssens AC, Schermer MH.

Bioethics. 2014 Sep;28(7):343-51. doi: 10.1111/bioe.12004. Epub 2012 Nov 8.


Reconstructing the dynamics of HIV evolution within hosts from serial deep sequence data.

Poon AF, Swenson LC, Bunnik EM, Edo-Matas D, Schuitemaker H, van 't Wout AB, Harrigan PR.

PLoS Comput Biol. 2012;8(11):e1002753. doi: 10.1371/journal.pcbi.1002753. Epub 2012 Nov 1.


The role of innate APOBEC3G and adaptive AID immune responses in HLA-HIV/SIV immunized SHIV infected macaques.

Wang Y, Whittall T, Rahman D, Bunnik EM, Vaughan R, Schøller J, Bergmeier LA, Montefiori D, Singh M, Schuitemaker H, Lehner T.

PLoS One. 2012;7(4):e34433. doi: 10.1371/journal.pone.0034433. Epub 2012 Apr 13.

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