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Results: 1 to 20 of 77


Improving small RNA-seq by using a synthetic spike-in set for size-range quality control together with a set for data normalization.

Locati MD, Terpstra I, de Leeuw WC, Kuzak M, Rauwerda H, Ensink WA, van Leeuwen S, Nehrdich U, Spaink HP, Jonker MJ, Breit TM, Dekker RJ.

Nucleic Acids Res. 2015 Apr 13. pii: gkv303. [Epub ahead of print]


Staphylococcus aureus ST398 gene expression profiling during ex vivo colonization of porcine nasal epithelium.

Tulinski P, Duim B, Wittink FR, Jonker MJ, Breit TM, van Putten JP, Wagenaar JA, Fluit AC.

BMC Genomics. 2014 Oct 20;15:915. doi: 10.1186/1471-2164-15-915.


A novel toxicogenomics-based approach to categorize (non-)genotoxic carcinogens.

Schaap MM, Wackers PF, Zwart EP, Huijskens I, Jonker MJ, Hendriks G, Breit TM, van Steeg H, van de Water B, Luijten M.

Arch Toxicol. 2014 Oct 2. [Epub ahead of print]


A range finding protocol to support design for transcriptomics experimentation: examples of in-vitro and in-vivo murine UV exposure.

Bruning O, Rodenburg W, van Oostrom CT, Jonker MJ, de Jong M, Dekker RJ, Rauwerda H, Ensink WA, de Vries A, Breit TM.

PLoS One. 2014 May 13;9(5):e97089. doi: 10.1371/journal.pone.0097089. eCollection 2014.


A day and night difference in the response of the hepatic transcriptome to cyclophosphamide treatment.

Van Dycke KC, Nijman RM, Wackers PF, Jonker MJ, Rodenburg W, van Oostrom CT, Salvatori DC, Breit TM, van Steeg H, Luijten M, van der Horst GT.

Arch Toxicol. 2015 Feb;89(2):221-31. doi: 10.1007/s00204-014-1257-z. Epub 2014 May 13.


Absence/presence calling in microarray-based CGH experiments with non-model organisms.

Jonker MJ, de Leeuw WC, Marinković M, Wittink FR, Rauwerda H, Bruning O, Ensink WA, Fluit AC, Boel CH, Jong Md, Breit TM.

Nucleic Acids Res. 2014 Jun;42(11):e94. doi: 10.1093/nar/gku343. Epub 2014 Apr 25.


In vivo murine hepatic microRNA and mRNA expression signatures predicting the (non-)genotoxic carcinogenic potential of chemicals.

Melis JP, Derks KW, Pronk TE, Wackers P, Schaap MM, Zwart E, van Ijcken WF, Jonker MJ, Breit TM, Pothof J, van Steeg H, Luijten M.

Arch Toxicol. 2014 Apr;88(4):1023-34. doi: 10.1007/s00204-013-1189-z. Epub 2014 Jan 5.


Aging on a different scale--chronological versus pathology-related aging.

Melis JP, Jonker MJ, Vijg J, Hoeijmakers JH, Breit TM, van Steeg H.

Aging (Albany NY). 2013 Oct;5(10):782-8.


Life spanning murine gene expression profiles in relation to chronological and pathological aging in multiple organs.

Jonker MJ, Melis JP, Kuiper RV, van der Hoeven TV, Wackers PF, Robinson J, van der Horst GT, Dollé ME, Vijg J, Breit TM, Hoeijmakers JH, van Steeg H.

Aging Cell. 2013 Oct;12(5):901-9. doi: 10.1111/acel.12118. Epub 2013 Jul 14.


Rifampicin-induced transcriptome response in rifampicin-resistant Mycobacterium tuberculosis.

de Knegt GJ, Bruning O, ten Kate MT, de Jong M, van Belkum A, Endtz HP, Breit TM, Bakker-Woudenberg IA, de Steenwinkel JE.

Tuberculosis (Edinb). 2013 Jan;93(1):96-101. doi: 10.1016/ Epub 2012 Nov 22.


Combining next-generation sequencing and microarray technology into a transcriptomics approach for the non-model organism Chironomus riparius.

Marinković M, de Leeuw WC, de Jong M, Kraak MH, Admiraal W, Breit TM, Jonker MJ.

PLoS One. 2012;7(10):e48096. doi: 10.1371/journal.pone.0048096. Epub 2012 Oct 25.


Gene expression patterns and life cycle responses of toxicant-exposed chironomids.

Marinković M, de Leeuw WC, Ensink WA, de Jong M, Breit TM, Admiraal W, Kraak MH, Jonker MJ.

Environ Sci Technol. 2012 Nov 20;46(22):12679-86. doi: 10.1021/es3033617. Epub 2012 Nov 9.


Comparison of Timothy grass pollen extract- and single major allergen-induced gene expression and mediator release in airway epithelial cells: a meta-analysis.

Röschmann KI, van Kuijen AM, Luiten S, Jonker MJ, Breit TM, Fokkens WJ, Petersen A, van Drunen CM.

Clin Exp Allergy. 2012 Oct;42(10):1479-90. doi: 10.1111/j.1365-2222.2012.04033.x.


Dissecting modes of action of non-genotoxic carcinogens in primary mouse hepatocytes.

Schaap MM, Zwart EP, Wackers PF, Huijskens I, van de Water B, Breit TM, van Steeg H, Jonker MJ, Luijten M.

Arch Toxicol. 2012 Nov;86(11):1717-27. doi: 10.1007/s00204-012-0883-6. Epub 2012 Jun 19.


Transcriptome analysis of a long-lived natural Drosophila variant: a prominent role of stress- and reproduction-genes in lifespan extension.

Doroszuk A, Jonker MJ, Pul N, Breit TM, Zwaan BJ.

BMC Genomics. 2012 May 4;13:167. doi: 10.1186/1471-2164-13-167.


Purified Timothy grass pollen major allergen Phl p 1 may contribute to the modulation of allergic responses through a pleiotropic induction of cytokines and chemokines from airway epithelial cells.

Röschmann KI, van Kuijen AM, Luiten S, Jonker MJ, Breit TM, Fokkens WJ, Petersen A, van Drunen CM.

Clin Exp Immunol. 2012 Mar;167(3):413-21. doi: 10.1111/j.1365-2249.2011.04522.x.


Human testis-derived embryonic stem cell-like cells are not pluripotent, but possess potential of mesenchymal progenitors.

Chikhovskaya JV, Jonker MJ, Meissner A, Breit TM, Repping S, van Pelt AM.

Hum Reprod. 2012 Jan;27(1):210-21. doi: 10.1093/humrep/der383. Epub 2011 Nov 15.


RNA isolation for transcriptomics of human and mouse small skin biopsies.

Bruning O, Rodenburg W, Radonic T, Zwinderman AH, de Vries A, Breit TM, de Jong M.

BMC Res Notes. 2011 Oct 24;4:438. doi: 10.1186/1756-0500-4-438.


Single cell transcriptomics of neighboring hyphae of Aspergillus niger.

de Bekker C, Bruning O, Jonker MJ, Breit TM, Wösten HA.

Genome Biol. 2011 Aug 4;12(8):R71. doi: 10.1186/gb-2011-12-8-r71.


Gene expression profiling in a mouse model identifies fetal liver- and placenta-derived potential biomarkers for Down Syndrome screening.

Pennings JL, Rodenburg W, Imholz S, Koster MP, van Oostrom CT, Breit TM, Schielen PC, de Vries A.

PLoS One. 2011 Apr 14;6(4):e18866. doi: 10.1371/journal.pone.0018866.

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