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Items: 39

1.

Correction: Clonality analysis of pulmonary tumors by genome-wide copy number profiling.

Vincenten JPL, van Essen HF, Lissenberg-Witte BI, Bulkmans NWJ, Krijgsman O, Sie D, Eijk PP, Smit EF, Ylstra B, Thunnissen E.

PLoS One. 2019 Nov 19;14(11):e0225733. doi: 10.1371/journal.pone.0225733. eCollection 2019.

2.

Clonality analysis of pulmonary tumors by genome-wide copy number profiling.

Vincenten JPL, van Essen HF, Lissenberg-Witte BI, Bulkmans NWJ, Krijgsman O, Sie D, Eijk PP, Smit EF, Ylstra B, Thunnissen E.

PLoS One. 2019 Oct 16;14(10):e0223827. doi: 10.1371/journal.pone.0223827. eCollection 2019. Erratum in: PLoS One. 2019 Nov 19;14(11):e0225733.

3.

Combination of a six microRNA expression profile with four clinicopathological factors for response prediction of systemic treatment in patients with advanced colorectal cancer.

Neerincx M, Poel D, Sie DLS, van Grieken NCT, Shankaraiah RC, van der Wolf-de Lijster FSW, van Waesberghe JTM, Burggraaf JD, Eijk PP, Verhoef C, Ylstra B, Meijer GA, van de Wiel MA, Buffart TE, Verheul HMW.

PLoS One. 2018 Aug 3;13(8):e0201809. doi: 10.1371/journal.pone.0201809. eCollection 2018.

4.

Loss of Chromosome 18q11.2-q12.1 Is Predictive for Survival in Patients With Metastatic Colorectal Cancer Treated With Bevacizumab.

van Dijk E, Biesma HD, Cordes M, Smeets D, Neerincx M, Das S, Eijk PP, Murphy V, Barat A, Bacon O, Prehn JHM, Betge J, Gaiser T, Fender B, Meijer GA, McNamara DA, Klinger R, Koopman M, Ebert MPA, Kay EW, Hennessey BT, Verheul HMW, Gallagher WM, O'Connor DP, Punt CJA, Loupakis F, Lambrechts D, Byrne AT, van Grieken NCT, Ylstra B.

J Clin Oncol. 2018 Jul 10;36(20):2052-2060. doi: 10.1200/JCO.2017.77.1782. Epub 2018 May 24.

PMID:
29792754
5.

MiR expression profiles of paired primary colorectal cancer and metastases by next-generation sequencing.

Neerincx M, Sie DL, van de Wiel MA, van Grieken NC, Burggraaf JD, Dekker H, Eijk PP, Ylstra B, Verhoef C, Meijer GA, Buffart TE, Verheul HM.

Oncogenesis. 2015 Oct 5;4:e170. doi: 10.1038/oncsis.2015.29.

6.

DNA copy number analysis of fresh and formalin-fixed specimens by shallow whole-genome sequencing with identification and exclusion of problematic regions in the genome assembly.

Scheinin I, Sie D, Bengtsson H, van de Wiel MA, Olshen AB, van Thuijl HF, van Essen HF, Eijk PP, Rustenburg F, Meijer GA, Reijneveld JC, Wesseling P, Pinkel D, Albertson DG, Ylstra B.

Genome Res. 2014 Dec;24(12):2022-32. doi: 10.1101/gr.175141.114. Epub 2014 Sep 18.

7.

Performance of amplicon-based next generation DNA sequencing for diagnostic gene mutation profiling in oncopathology.

Sie D, Snijders PJ, Meijer GA, Doeleman MW, van Moorsel MI, van Essen HF, Eijk PP, Grünberg K, van Grieken NC, Thunnissen E, Verheul HM, Smit EF, Ylstra B, Heideman DA.

Cell Oncol (Dordr). 2014 Oct;37(5):353-61. doi: 10.1007/s13402-014-0196-2. Epub 2014 Sep 11.

PMID:
25209392
8.

Targeted sequencing by proximity ligation for comprehensive variant detection and local haplotyping.

de Vree PJ, de Wit E, Yilmaz M, van de Heijning M, Klous P, Verstegen MJ, Wan Y, Teunissen H, Krijger PH, Geeven G, Eijk PP, Sie D, Ylstra B, Hulsman LO, van Dooren MF, van Zutven LJ, van den Ouweland A, Verbeek S, van Dijk KW, Cornelissen M, Das AT, Berkhout B, Sikkema-Raddatz B, van den Berg E, van der Vlies P, Weening D, den Dunnen JT, Matusiak M, Lamkanfi M, Ligtenberg MJ, ter Brugge P, Jonkers J, Foekens JA, Martens JW, van der Luijt R, van Amstel HK, van Min M, Splinter E, de Laat W.

Nat Biotechnol. 2014 Oct;32(10):1019-25. doi: 10.1038/nbt.2959. Epub 2014 Aug 17.

PMID:
25129690
9.

An exploration of pathways involved in lung carcinoid progression using gene expression profiling.

Swarts DR, Van Neste L, Henfling ME, Eijkenboom I, Eijk PP, van Velthuysen ML, Vink A, Volante M, Ylstra B, Van Criekinge W, van Engeland M, Ramaekers FC, Speel EJ.

Carcinogenesis. 2013 Dec;34(12):2726-37. doi: 10.1093/carcin/bgt271. Epub 2013 Aug 8.

10.

Transcription forms and remodels supercoiling domains unfolding large-scale chromatin structures.

Naughton C, Avlonitis N, Corless S, Prendergast JG, Mati IK, Eijk PP, Cockroft SL, Bradley M, Ylstra B, Gilbert N.

Nat Struct Mol Biol. 2013 Mar;20(3):387-95. doi: 10.1038/nsmb.2509. Epub 2013 Feb 17.

11.

Detection limits of DNA copy number alterations in heterogeneous cell populations.

Krijgsman O, Israeli D, van Essen HF, Eijk PP, Berens ML, Mellink CH, Nieuwint AW, Weiss MM, Steenbergen RD, Meijer GA, Ylstra B.

Cell Oncol (Dordr). 2013 Feb;36(1):27-36. doi: 10.1007/s13402-012-0108-2. Epub 2012 Nov 2.

PMID:
23117839
12.

An 82-year-old woman with small-cell lung cancer: relapse after 9 years or a new primary?

Groenendijk MR, Thunnissen E, Ylstra B, van de Wiel MA, Eijk PP, Paul MA, Smit EF, Postmus PE.

J Thorac Oncol. 2012 Aug;7(8):e3-5. doi: 10.1097/JTO.0b013e31825bcead. No abstract available.

13.

CGH arrays compared for DNA isolated from formalin-fixed, paraffin-embedded material.

Krijgsman O, Israeli D, Haan JC, van Essen HF, Smeets SJ, Eijk PP, Steenbergen RD, Kok K, Tejpar S, Meijer GA, Ylstra B.

Genes Chromosomes Cancer. 2012 Apr;51(4):344-52. doi: 10.1002/gcc.21920. Epub 2011 Dec 8.

PMID:
22162309
14.

Small bowel adenocarcinoma copy number profiles are more closely related to colorectal than to gastric cancers.

Haan JC, Buffart TE, Eijk PP, van de Wiel MA, van Wieringen WN, Howdle PD, Mulder CJ, van de Velde CJ, Quirke P, Nagtegaal ID, van Grieken NC, Grabsch H, Meijer GA, Ylstra B.

Ann Oncol. 2012 Feb;23(2):367-74. doi: 10.1093/annonc/mdr122. Epub 2011 May 17.

15.

Integrative analysis of array-comparative genomic hybridisation and matched gene expression profiling data reveals novel genes with prognostic significance in oesophageal adenocarcinoma.

Goh XY, Rees JR, Paterson AL, Chin SF, Marioni JC, Save V, O'Donovan M, Eijk PP, Alderson D, Ylstra B, Caldas C, Fitzgerald RC.

Gut. 2011 Oct;60(10):1317-26. doi: 10.1136/gut.2010.234179. Epub 2011 Apr 8.

PMID:
21478220
16.

Trifluorothymidine resistance is associated with decreased thymidine kinase and equilibrative nucleoside transporter expression or increased secretory phospholipase A2.

Temmink OH, Bijnsdorp IV, Prins HJ, Losekoot N, Adema AD, Smid K, Honeywell RJ, Ylstra B, Eijk PP, Fukushima M, Peters GJ.

Mol Cancer Ther. 2010 Apr;9(4):1047-57. doi: 10.1158/1535-7163.MCT-09-0932. Epub 2010 Apr 6.

17.

Anti-proliferative action of vitamin D in MCF7 is still active after siRNA-VDR knock-down.

Costa JL, Eijk PP, van de Wiel MA, ten Berge D, Schmitt F, Narvaez CJ, Welsh J, Ylstra B.

BMC Genomics. 2009 Oct 28;10:499. doi: 10.1186/1471-2164-10-499.

18.

Genomic profiles associated with early micrometastasis in lung cancer: relevance of 4q deletion.

Wrage M, Ruosaari S, Eijk PP, Kaifi JT, Hollmén J, Yekebas EF, Izbicki JR, Brakenhoff RH, Streichert T, Riethdorf S, Glatzel M, Ylstra B, Pantel K, Wikman H.

Clin Cancer Res. 2009 Mar 1;15(5):1566-74. doi: 10.1158/1078-0432.CCR-08-2188. Epub 2009 Feb 10.

19.

DNA copy number profiles of primary tumors as predictors of response to chemotherapy in advanced colorectal cancer.

Postma C, Koopman M, Buffart TE, Eijk PP, Carvalho B, Peters GJ, Ylstra B, van Krieken JH, Punt CJ, Meijer GA.

Ann Oncol. 2009 Jun;20(6):1048-56. doi: 10.1093/annonc/mdn738. Epub 2009 Jan 15.

20.

The genomic profile of human malignant glioma is altered early in primary cell culture and preserved in spheroids.

De Witt Hamer PC, Van Tilborg AA, Eijk PP, Sminia P, Troost D, Van Noorden CJ, Ylstra B, Leenstra S.

Oncogene. 2008 Mar 27;27(14):2091-6. Epub 2007 Oct 15.

PMID:
17934519
21.

Gastric cancers in young and elderly patients show different genomic profiles.

Buffart TE, Carvalho B, Hopmans E, Brehm V, Kranenbarg EK, Schaaij-Visser TB, Eijk PP, van Grieken NC, Ylstra B, van de Velde CJ, Meijer GA.

J Pathol. 2007 Jan;211(1):45-51.

PMID:
17117405
22.

Micro-array analysis of resistance for gemcitabine results in increased expression of ribonucleotide reductase subunits.

Smid K, Bergman AM, Eijk PP, Veerman G, van Haperen VW, van den Ijssel P, Ylstra B, Peters GJ.

Nucleosides Nucleotides Nucleic Acids. 2006;25(9-11):1001-7.

PMID:
17065054
23.

Profiling of apoptosis genes allows for clinical stratification of primary nodal diffuse large B-cell lymphomas.

Muris JJ, Ylstra B, Cillessen SA, Ossenkoppele GJ, Kluin-Nelemans JC, Eijk PP, Nota B, Tijssen M, de Boer WP, van de Wiel M, van den Ijssel PR, Jansen P, de Bruin PC, van Krieken JH, Meijer GA, Meijer CJ, Oudejans JJ.

Br J Haematol. 2007 Jan;136(1):38-47. Epub 2006 Oct 25.

PMID:
17062006
24.

Cross-platform array comparative genomic hybridization meta-analysis separates hematopoietic and mesenchymal from epithelial tumors.

Jong K, Marchiori E, van der Vaart A, Chin SF, Carvalho B, Tijssen M, Eijk PP, van den Ijssel P, Grabsch H, Quirke P, Oudejans JJ, Meijer GA, Caldas C, Ylstra B.

Oncogene. 2007 Mar 1;26(10):1499-506. Epub 2006 Aug 28.

PMID:
16936777
25.

In vivo induction of resistance to gemcitabine results in increased expression of ribonucleotide reductase subunit M1 as the major determinant.

Bergman AM, Eijk PP, Ruiz van Haperen VW, Smid K, Veerman G, Hubeek I, van den Ijssel P, Ylstra B, Peters GJ.

Cancer Res. 2005 Oct 15;65(20):9510-6.

26.

Microarray analysis reveals pivotal divergent mRNA expression profiles early in the development of either compensated ventricular hypertrophy or heart failure.

Buermans HP, Redout EM, Schiel AE, Musters RJ, Zuidwijk M, Eijk PP, van Hardeveld C, Kasanmoentalib S, Visser FC, Ylstra B, Simonides WS.

Physiol Genomics. 2005 May 11;21(3):314-23. Epub 2005 Feb 22.

PMID:
15728335
27.

Assessment of Chlamydia trachomatis infection of semen specimens by ligase chain reaction.

Pannekoek Y, Westenberg SM, Eijk PP, Repping S, van der Veen F, van der Ende A, Dankert J.

J Med Microbiol. 2003 Sep;52(Pt 9):777-9.

PMID:
12909654
28.

Normal IncA expression and fusogenicity of inclusions in Chlamydia trachomatis isolates with the incA I47T mutation.

Pannekoek Y, van der Ende A, Eijk PP, van Marle J, de Witte MA, Ossewaarde JM, van den Brule AJ, Morré SA, Dankert J.

Infect Immun. 2001 Jul;69(7):4654-6.

29.

PCR assessment of Chlamydia trachomatis infection of semen specimens processed for artificial insemination.

Pannekoek Y, Westenberg SM, de Vries J, Repping S, Spanjaard L, Eijk PP, van der Ende A, Dankert J.

J Clin Microbiol. 2000 Oct;38(10):3763-7.

30.

Stimulation of the adherence of Haemophilus influenzae to human lung epithelial cells by antimicrobial neutrophil defensins.

Gorter AD, Eijk PP, van Wetering S, Hiemstra PS, Dankert J, van Alphen L.

J Infect Dis. 1998 Oct;178(4):1067-74.

PMID:
9806036
31.

The fimbria gene cluster of nonencapsulated Haemophilus influenzae.

Geluk F, Eijk PP, van Ham SM, Jansen HM, van Alphen L.

Infect Immun. 1998 Feb;66(2):406-17.

32.

Molecular variation in the major outer membrane protein P5 gene of nonencapsulated Haemophilus influenzae during chronic infections.

Duim B, Bowler LD, Eijk PP, Jansen HM, Dankert J, van Alphen L.

Infect Immun. 1997 Apr;65(4):1351-6.

33.

Haemophilus influenzae infections in patients with chronic obstructive pulmonary disease despite specific antibodies in serum and sputum.

Groeneveld K, Eijk PP, van Alphen L, Jansen HM, Zanen HC.

Am Rev Respir Dis. 1990 May;141(5 Pt 1):1316-21.

PMID:
2339850
34.
35.

Antigenic drift of Haemophilus influenzae in patients with chronic obstructive pulmonary disease.

Groeneveld K, van Alphen L, Voorter C, Eijk PP, Jansen HM, Zanen HC.

Infect Immun. 1989 Oct;57(10):3038-44.

36.

Nonculture detection of Haemophilus influenzae in sputum with monoclonal antibodies specific for outer membrane lipoprotein P6.

Groeneveld K, van Alphen L, van Ketel RJ, Geelen-van den Broek L, Eijk PP, Zanen HC.

J Clin Microbiol. 1989 Oct;27(10):2263-7.

37.

Comparison of two nonculture techniques for detection of Hemophilus influenzae in sputum. In situ hybridization and immunoperoxidase staining with monoclonal antibodies.

Terpstra WJ, Groeneveld K, Eijk PP, Geelen LJ, Schoone GJ, ter Schegget J, van Nierop JC, Griffioen RW, van Alphen L.

Chest. 1988 Aug;94(2 Suppl):126S-129S.

PMID:
3293938
38.

Changes in outer membrane proteins of nontypable Haemophilus influenzae in patients with chronic obstructive pulmonary disease.

Groeneveld K, van Alphen L, Eijk PP, Jansen HM, Zanen HC.

J Infect Dis. 1988 Aug;158(2):360-5.

PMID:
2841377
39.

Detection of Haemophilus influenzae with monoclonal antibody.

Groeneveld K, van Alphen L, Geelen-van-den Broek NJ, Eijk PP, Zanen HC, van Ketel RJ.

Lancet. 1987 Feb 21;1(8530):441-2. No abstract available.

PMID:
2880229

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