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Towards personalised rapid label free miRNA detection for cancer and liver injury diagnostics in cell lysates and blood based samples.

Duffy J, Padovani F, Brunetti G, Noy P, Certa U, Hegner M.

Nanoscale. 2018 Jul 9;10(26):12797-12804. doi: 10.1039/c8nr03604g.


Monitoring and manipulating cellular crosstalk during kidney fibrosis inside a 3D in vitro co-culture.

Nugraha B, Mohr MA, Ponti A, Emmert MY, Weibel F, Hoerstrup SP, Moll S, Certa U, Prunotto M, Pantazis P.

Sci Rep. 2017 Nov 3;7(1):14490. doi: 10.1038/s41598-017-12683-y.


Draft Genome Sequences of Seven Streptococcus agalactiae Strains Isolated from Camelus dromedarius at the Horn of Africa.

Rothen J, Schindler T, Pothier JF, Younan M, Certa U, Daubenberger C, Pflüger V, Jores J.

Genome Announc. 2017 Jul 13;5(28). pii: e00525-17. doi: 10.1128/genomeA.00525-17.


Erratum to: Pathway reporter genes define molecular phenotypes of human cells.

Zhang JD, Küng E, Boess F, Certa U, Ebeling M.

BMC Genomics. 2017 May 2;18(1):337. doi: 10.1186/s12864-017-3730-6. No abstract available.


Molecular Phenotyping Combines Molecular Information, Biological Relevance, and Patient Data to Improve Productivity of Early Drug Discovery.

Drawnel FM, Zhang JD, Küng E, Aoyama N, Benmansour F, Araujo Del Rosario A, Jensen Zoffmann S, Delobel F, Prummer M, Weibel F, Carlson C, Anson B, Iacone R, Certa U, Singer T, Ebeling M, Prunotto M.

Cell Chem Biol. 2017 May 18;24(5):624-634.e3. doi: 10.1016/j.chembiol.2017.03.016. Epub 2017 Apr 20.


Diversity and regulatory impact of copy number variation in the primate Macaca fascicularis.

Gschwind AR, Singh A, Certa U, Reymond A, Heckel T.

BMC Genomics. 2017 Feb 10;18(1):144. doi: 10.1186/s12864-017-3531-y.


A porcine model of osteosarcoma.

Saalfrank A, Janssen KP, Ravon M, Flisikowski K, Eser S, Steiger K, Flisikowska T, Müller-Fliedner P, Schulze É, Brönner C, Gnann A, Kappe E, Böhm B, Schade B, Certa U, Saur D, Esposito I, Kind A, Schnieke A.

Oncogenesis. 2016 Mar 14;5:e210. doi: 10.1038/oncsis.2016.19.


Functional analysis and transcriptional output of the Göttingen minipig genome.

Heckel T, Schmucki R, Berrera M, Ringshandl S, Badi L, Steiner G, Ravon M, Küng E, Kuhn B, Kratochwil NA, Schmitt G, Kiialainen A, Nowaczyk C, Daff H, Khan AP, Lekolool I, Pelle R, Okoth E, Bishop R, Daubenberger C, Ebeling M, Certa U.

BMC Genomics. 2015 Nov 14;16:932. doi: 10.1186/s12864-015-2119-7.


Cargo Delivery into the Brain by in vivo identified Transport Peptides.

Urich E, Schmucki R, Ruderisch N, Kitas E, Certa U, Jacobsen H, Schweitzer C, Bergadano A, Ebeling M, Loetscher H, Freskgård PO.

Sci Rep. 2015 Sep 28;5:14104. doi: 10.1038/srep14104.


Generation of vascular endothelial and smooth muscle cells from human pluripotent stem cells.

Patsch C, Challet-Meylan L, Thoma EC, Urich E, Heckel T, O'Sullivan JF, Grainger SJ, Kapp FG, Sun L, Christensen K, Xia Y, Florido MH, He W, Pan W, Prummer M, Warren CR, Jakob-Roetne R, Certa U, Jagasia R, Freskgård PO, Adatto I, Kling D, Huang P, Zon LI, Chaikof EL, Gerszten RE, Graf M, Iacone R, Cowan CA.

Nat Cell Biol. 2015 Aug;17(8):994-1003. doi: 10.1038/ncb3205. Epub 2015 Jul 27.


Antiviral Innate Immune Activation in HIV-Infected Adults Negatively Affects H1/IC31-Induced Vaccine-Specific Memory CD4+ T Cells.

Lenz N, Schindler T, Kagina BM, Zhang JD, Lukindo T, Mpina M, Bang P, Kromann I, Hoff ST, Andersen P, Reither K, Churchyard GJ, Certa U, Daubenberger CA.

Clin Vaccine Immunol. 2015 Jul;22(7):688-96. doi: 10.1128/CVI.00092-15. Epub 2015 Apr 29.


Pathway reporter genes define molecular phenotypes of human cells.

Zhang JD, Küng E, Boess F, Certa U, Ebeling M.

BMC Genomics. 2015 Apr 24;16:342. doi: 10.1186/s12864-015-1532-2. Erratum in: BMC Genomics. 2017 May 2;18(1):337.


Highly sensitive amplicon-based transcript quantification by semiconductor sequencing.

Zhang JD, Schindler T, Küng E, Ebeling M, Certa U.

BMC Genomics. 2014 Jul 5;15:565. doi: 10.1186/1471-2164-15-565.


Genome typing of nonhuman primate models: implications for biomedical research.

Haus T, Ferguson B, Rogers J, Doxiadis G, Certa U, Rose NJ, Teepe R, Weinbauer GF, Roos C.

Trends Genet. 2014 Nov;30(11):482-7. doi: 10.1016/j.tig.2014.05.004. Epub 2014 Jun 18.


High throughput transcriptome analysis of lipid metabolism in Syrian hamster liver in absence of an annotated genome.

Schmucki R, Berrera M, Küng E, Lee S, Thasler WE, Grüner S, Ebeling M, Certa U.

BMC Genomics. 2013 Apr 10;14:237. doi: 10.1186/1471-2164-14-237.


High-resolution genotyping and mapping of recombination and gene conversion in the protozoan Theileria parva using whole genome sequencing.

Henson S, Bishop RP, Morzaria S, Spooner PR, Pelle R, Poveda L, Ebeling M, Küng E, Certa U, Daubenberger CA, Qi W.

BMC Genomics. 2012 Sep 23;13:503. doi: 10.1186/1471-2164-13-503.


Single base mismatches in the mRNA target site allow specific seed region-mediated off-target binding of siRNA targeting human coagulation factor 7.

Ravon M, Berrera M, Ebeling M, Certa U.

RNA Biol. 2012 Jan;9(1):87-97. doi: 10.4161/rna.9.1.18121. Epub 2012 Jan 1.


Determination of the human cardiomyocyte mRNA and miRNA differentiation network by fine-scale profiling.

Babiarz JE, Ravon M, Sridhar S, Ravindran P, Swanson B, Bitter H, Weiser T, Chiao E, Certa U, Kolaja KL.

Stem Cells Dev. 2012 Jul 20;21(11):1956-65. doi: 10.1089/scd.2011.0357. Epub 2012 Jan 4.


Genome-based analysis of the nonhuman primate Macaca fascicularis as a model for drug safety assessment.

Ebeling M, Küng E, See A, Broger C, Steiner G, Berrera M, Heckel T, Iniguez L, Albert T, Schmucki R, Biller H, Singer T, Certa U.

Genome Res. 2011 Oct;21(10):1746-56. doi: 10.1101/gr.123117.111. Epub 2011 Aug 23.


Interferon-alpha induces reversible DNA demethylation of the interferon-induced transmembrane protein-3 core promoter in human melanoma cells.

Scott R, Siegrist F, Foser S, Certa U.

J Interferon Cytokine Res. 2011 Aug;31(8):601-8. doi: 10.1089/jir.2010.0134. Epub 2011 Mar 17.


Microarrays-Current and Future Applications in Biomedical Research.

Certa U.

Microarrays (Basel). 2011 Nov 22;1(1):42-3. doi: 10.3390/microarrays1010042.


The small interferon-induced transmembrane genes and proteins.

Siegrist F, Ebeling M, Certa U.

J Interferon Cytokine Res. 2011 Jan;31(1):183-97. doi: 10.1089/jir.2010.0112. Epub 2010 Dec 19. Review.


Lack of insertional-deletional polymorphism in a collection of Mycobacterium ulcerans isolates from Ghanaian Buruli ulcer patients.

Käser M, Gutmann O, Hauser J, Stinear T, Cole S, Yeboah-Manu D, Dernick G, Certa U, Pluschke G.

J Clin Microbiol. 2009 Nov;47(11):3640-6. doi: 10.1128/JCM.00760-09. Epub 2009 Sep 2.


MicroRNA Expression Profiling by Bead Array Technology in Human Tumor Cell Lines Treated with Interferon-Alpha-2a.

Siegrist F, Singer T, Certa U.

Biol Proced Online. 2009 Jul 23;11:113-29. doi: 10.1007/s12575-009-9012-1.


Expression profiling and Ingenuity biological function analyses of interleukin-6- versus nerve growth factor-stimulated PC12 cells.

Kunz D, Walker G, Bedoucha M, Certa U, März-Weiss P, Dimitriades-Schmutz B, Otten U.

BMC Genomics. 2009 Feb 24;10:90. doi: 10.1186/1471-2164-10-90.


Hippocampal-dependent spatial memory functions might be lateralized in rats: An approach combining gene expression profiling and reversible inactivation.

Klur S, Muller C, Pereira de Vasconcelos A, Ballard T, Lopez J, Galani R, Certa U, Cassel JC.

Hippocampus. 2009 Sep;19(9):800-16. doi: 10.1002/hipo.20562.


Rapid and label-free nanomechanical detection of biomarker transcripts in human RNA.

Zhang J, Lang HP, Huber F, Bietsch A, Grange W, Certa U, McKendry R, Güntherodt HJ, Hegner M, Gerber Ch.

Nat Nanotechnol. 2006 Dec;1(3):214-20. doi: 10.1038/nnano.2006.134. Epub 2006 Nov 26.


Ongoing genome reduction in Mycobacterium ulcerans.

Rondini S, Käser M, Stinear T, Tessier M, Mangold C, Dernick G, Naegeli M, Portaels F, Certa U, Pluschke G.

Emerg Infect Dis. 2007 Jul;13(7):1008-15. doi: 10.3201/eid1307.060205.


Evolution of two distinct phylogenetic lineages of the emerging human pathogen Mycobacterium ulcerans.

Käser M, Rondini S, Naegeli M, Stinear T, Portaels F, Certa U, Pluschke G.

BMC Evol Biol. 2007 Sep 27;7:177.


Antiproliferative activity of the human IFN-alpha-inducible protein IFI44.

Hallen LC, Burki Y, Ebeling M, Broger C, Siegrist F, Oroszlan-Szovik K, Bohrmann B, Certa U, Foser S.

J Interferon Cytokine Res. 2007 Aug;27(8):675-80.


Interferon-alpha and transforming growth factor-beta co-induce growth inhibition of human tumor cells.

Foser S, Redwanz I, Ebeling M, Heizmann CW, Certa U.

Cell Mol Life Sci. 2006 Oct;63(19-20):2387-96.


Reversible inactivation of the dorsal hippocampus by tetrodotoxin or lidocaine: a comparative study on cerebral functional activity and motor coordination in the rat.

Pereira de Vasconcelos A, Klur S, Muller C, Cosquer B, Lopez J, Certa U, Cassel JC.

Neuroscience. 2006 Sep 15;141(4):1649-63. Epub 2006 Jun 22.


Polychaetoid/ZO-1 is required for cell specification and rearrangement during Drosophila tracheal morphogenesis.

Jung AC, Ribeiro C, Michaut L, Certa U, Affolter M.

Curr Biol. 2006 Jun 20;16(12):1224-31.


Transcriptional responses to epigallocatechin-3 gallate in HT 29 colon carcinoma spheroids.

McLoughlin P, Roengvoraphoj M, Gissel C, Hescheler J, Certa U, Sachinidis A.

Genes Cells. 2004 Jul;9(7):661-9.


Multiple sclerosis as a generalized CNS disease--comparative microarray analysis of normal appearing white matter and lesions in secondary progressive MS.

Lindberg RL, De Groot CJ, Certa U, Ravid R, Hoffmann F, Kappos L, Leppert D.

J Neuroimmunol. 2004 Jul;152(1-2):154-67.


Transcriptional response of yeast to aflatoxin B1: recombinational repair involving RAD51 and RAD1.

Keller-Seitz MU, Certa U, Sengstag C, Würgler FE, Sun M, Fasullo M.

Mol Biol Cell. 2004 Sep;15(9):4321-36. Epub 2004 Jun 23.


Transcriptional signature of an adult brain tumor in Drosophila.

Loop T, Leemans R, Stiefel U, Hermida L, Egger B, Xie F, Primig M, Certa U, Fischbach KF, Reichert H, Hirth F.

BMC Genomics. 2004 Apr 16;5(1):24.


Diazepam-induced adaptive plasticity revealed by alpha1 GABAA receptor-specific expression profiling.

Huopaniemi L, Keist R, Randolph A, Certa U, Rudolph U.

J Neurochem. 2004 Mar;88(5):1059-67.


Roles of AUF1 isoforms, HuR and BRF1 in ARE-dependent mRNA turnover studied by RNA interference.

Raineri I, Wegmueller D, Gross B, Certa U, Moroni C.

Nucleic Acids Res. 2004 Feb 19;32(4):1279-88. Print 2004.


Evaluation of procedures for amplification of small-size samples for hybridization on microarrays.

Klur S, Toy K, Williams MP, Certa U.

Genomics. 2004 Mar;83(3):508-17.


Improved biological and transcriptional activity of monopegylated interferon-alpha-2a isomers.

Foser S, Weyer K, Huber W, Certa U.

Pharmacogenomics J. 2003;3(6):312-9.


Inhibition of proliferation by 1-8U in interferon-alpha-responsive and non-responsive cell lines.

Brem R, Oraszlan-Szovik K, Foser S, Bohrmann B, Certa U.

Cell Mol Life Sci. 2003 Jun;60(6):1235-48.


Analysis of the eye developmental pathway in Drosophila using DNA microarrays.

Michaut L, Flister S, Neeb M, White KP, Certa U, Gehring WJ.

Proc Natl Acad Sci U S A. 2003 Apr 1;100(7):4024-9. Epub 2003 Mar 24.


Identification and characterization of a conserved, stage-specific gene product of Plasmodium falciparum recognized by parasite growth inhibitory antibodies.

Daubenberger CA, Diaz D, Curcic M, Mueller MS, Spielmann T, Certa U, Lipp J, Pluschke G.

Infect Immun. 2003 Apr;71(4):2173-81.


The staufen/pumilio pathway is involved in Drosophila long-term memory.

Dubnau J, Chiang AS, Grady L, Barditch J, Gossweiler S, McNeil J, Smith P, Buldoc F, Scott R, Certa U, Broger C, Tully T.

Curr Biol. 2003 Feb 18;13(4):286-96.


Multiple label-free biodetection and quantitative DNA-binding assays on a nanomechanical cantilever array.

McKendry R, Zhang J, Arntz Y, Strunz T, Hegner M, Lang HP, Baller MK, Certa U, Meyer E, Güntherodt HJ, Gerber C.

Proc Natl Acad Sci U S A. 2002 Jul 23;99(15):9783-8. Epub 2002 Jul 15.

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