Scientific Publications-Other

The number of peer-reviewed publications using PamGene's technology is continuing to increase.

On this page you will find a selection of scientific publications where PamGene's technology has been applied.

Publications for the Sections: 
Phosphatases
Genomics
Other


Publications for the Sections:
Kinases
Nuclear Receptors


For further information or reprints, please contact us or send an email to info@pamgene.com
 

Phosphatases


Peptide Microarrays for Real-Time Kinetic Profiling of Tyrosine Phosphatase Activity of Recombinant Phosphatases and Phosphatases in Lysates of Cells or Tissue Samples.
Hovestad-Bijl L, van Ameijde J, Pijnenburg D, Hilhorst R, Liskamp R, Ruijtenbeek R. Methods Mol Biol. 2016;1447:67-78. 

Intracellular and extracellular domains of protein tyrosine phosphatase PTPRZ-B differentially regulate glioma cell growth and motility.
Bourgonje AM, Navis AC, Schepens JT, Verrijp K, Hovestad L, Hilhorst R, Harroch S, Wesseling P, Leenders WP, Hendriks WJ. Oncotarget. (2014) Aug 19. [Epub ahead of print] PMID:25238264

A versatile spectrophotometric protein tyrosine phosphatase assay based on 3-nitrophosphotyrosine containing substrates.
van Ameijde J, Overvoorde J, Knapp S, den Hertog J, Ruijtenbeek R, Liskamp RM. Anal Biochem. (2014) Mar 1;448:9-13.

Real-Time Monitoring of the Dephosphorylating Activity of Protein Tyrosine Phosphatases Using Microarrays with 3-Nitrophosphotyrosine Substrates.
van Ameijde J, Overvoorde J, Knapp S, den Hertog J, Ruijtenbeek R, Liskamp RM. ChemPlusChem (2013) 78, 1349-1357.

 

Genomics


Rapidscreening for chromosomal aneuploidies using array-MLPA.
Yan JB, Xu M, Xiong C, Zhou DW, Ren ZR, Huang Y, Mommersteeg M, van Beuningen R, Wang YT, Liao SX, Zeng F, Wu Y, Zeng YT. BMC Med Genet. (2011) May 17;12:68.

Development of a Flow-Trough Microarray based Reverse Transcriptase Multiplex Ligation-Dependent Probe Amplification Assay for the Detection of European Bunyaviruses.
Hasib L, Dilcher M, Hufert F, König-Meyer U, Weidmann  M.Mol Biotechnol. (2011) Mar 10.

Array-based MLPA to detect recurrent copy number variations in patients with idiopathic mental retardation.
Rooms L, Vandeweyer G, Reyniers E, van Mol K, de Canck I, Van der Aa N, Rossau R, Kooy RF.  Am J. Med Genet A. (2011) Feb;155A(2):343-8.

Array-MLPA: comprehensive detection of deletions and duplications and its application to DMD patients.
Zeng F, Ren ZR, Huang SZ, Kalf M, Mommersteeg M, Smit M, White S, Jin CL, Xu M, Zhou DW, Yan JB, Chen MJ, van Beuningen R, Huang SZ, den Dunnen J, Zeng YT, Wu Y.  Hum. Mutat. (2008) Jan. 29 (1):190-7

A COX-2 Inhibitor, SC58125, Promotes Liver Carcinogenesis in a Rat Medium-Term Liver Bioassay, Possibly due to Induction of CYP 2B1 and 3A1.
Yokohira M, Takeuchi H, Yamakawa K, Saoo K, Matsuda Y, Zeng Y, Hosokawa K, Maeta H and Imaida K.  J Toxicol Pathol Vol. (2006) 19; 37-45.

MLPA and MAPH: sensitive detection of deletions and duplications.
den Dunnen JT, White SJ. Curr Protoc Hum Genet. (2006) Nov; Chapter 7:Unit 7.14. Review.

Microarray MAPH: accurate array-based detection of relative copy number in genomic DNA.
Gibbons B, Datta P, Wu Y, Chan A, Al Armour J. BMC Genomics. (2006) Jun 30; 7: 163.

Use of hybridization melting kinetics for detecting Phytophthora species using three-dimensional microarrays: demonstration of a novel concept for the differentiation of detection targets.
Anderson N, Szemes M, O'Brien P, de Weerdt M, Schoen C, Boender P, Bonants P.  Mycol Res. (2006) Jun;110(Pt 6):664-71.

Lack of modification of 2-amino-3,8-dimethylimidazo[4,5-f]quinoxaline (MeIQx) rat hepatocarcinogenesis by caffeine, a CYP1A2 inducer, points to complex counteracting influences.
Kuribayashi M, Asamoto M, Suzuki S, Hokaiwado N, Ogawa K, Shirai T.  Cancer Lett. (2006) Feb 8;232 (2):289-99.

Use of a three-dimensional microarray system for detection of levofloxacin resistance and the mec A gene in Staphylococcus aureus.
Nagaoka T, Horii T, Satoh T, Ito T, Monji A, Takeshita A, Maekawa M. J Clin Microbiol. (2005) Oct;43(10):5187-94.

Direct detection of Staphylococcus aureus mRNA using a flow through microarray.
Anthony RM, Schuitema AR, Oskam L, Klatser PR. J Microbiol Methods. (2005) Jan; 60(1): 47-54.

Quantitative assessment of a novel flow-through porous microarray for the rapid analysis of gene expression profiles.
Wu Y, de Kievit P, Vahlkamp L, Pijnenburg D, Smit M, Dankers M, Melchers D, Stax M, Boender PJ, Ingham C, Bastiaensen N, de Wijn R, van Alewijk D, van Damme H, Raap AK, Chan AB, van Beuningen R.  Nucleic Acids Res. (2004) Aug 27;32(15):e123.

Three-dimensional microarray compared with PCR-single-strand conformation polymorphism analysis/DNA sequencing for mutation analysis of K-ras codons 12 and 13.
Maekawa M, Nagaoka T, Taniguchi T, Higashi H, Sugimura H, Sugano K, Yonekawa H, Satoh T, Horii T, Shirai N, Takeshita A, Kanno T. Clin Chem. (2004) Aug; 50(8):1322-7.

Beta-Globin mutation detection by tagged single-base extension and hybridization to universal glass and flow-through microarrays.
van Moorsel CH, van Wijngaarden EE, Fokkema IF, den Dunnen JT, Roos D, van Zwieten R, Giordano PC, Harteveld CL. Eur J Hum Genet. (2004) Jul;12(7):567-73.

Rapid analysis of gene expression changes caused by liver carcinogens and chemopreventive agents using a newly developed three-dimensional microarray system.
Hokaiwado N, Asamoto M, Tsujimura K, Hirota T, Ichihara T, Satoh T, Shirai T.  Cancer Sci. (2004) Feb;95(2):123-30.

Multiplex detection of plant (quarantine) pathogens by micro-arrays.
Schoen, C.D., de Weerdt, M., Szemes, M., Bonants, P., van Beuningen, R., Chan, A., Hilhorst, R. and Boender, P. An innovative tool for plant health management Acta Hort. (2004). (ISHS) 657:553-558

Effect of secondary structure on single nucleotide polymorphism detection with a porous microarray matrix; implications for probe selection.
Anthony RM, Schuitema AR, Chan AB, Boender PJ, Klatser PR, Oskam L. Biotechniques. (2003) May;34(5):1082-6, 1088-9.

Basic studies on mutation analysis of K-ras codon 12 by use of three-dimensional microarray system.
Maekawa M, Taniguchi T, Tatebayashi C, Horii T, Takeshita A, Sugimura H, Sugano K, Yonekawa H, Nagaoka T, Kanno T.  Rinsho Byori. (2003) Apr;51(4):306-12. (Japanese)

    

Other

 
Inhibition of O-GlcNAc transferase (OGT) by peptidic hybrids.
Zhang H, Tomašič T, Shi J, Weiss M, Ruijtenbeek R, Anderluh M, Pieters RJ. Medchemcomm. 2018 Apr 18;9(5):883-887.
 
Demystifying O-GlcNAcylation: hints from peptide substrates.
Shi J, Ruijtenbeek R, Pieters RJ. Glycobiology. 2018 Mar 22. doi: 10.1093/glycob/cwy031. [Epub ahead of print] PMID: 29635275

Peptide Microarray Analysis of the Cross-talk Between O-GlcNAcylation and Tyrosine Phosphorylation.
Shi J, Tomasi T, Sharif S, Brouwer AJ, Anderluh M, Ruijtenbeek R, Pieters RJ. (2017) FEBS Lett. Jun 5. doi: 10.1002/1873-3468.12708

Measuring O-GlcNAc cleavage by OGA and cell lysates on a peptide microarray.
Sharif S, Shi J, Bourakba M, Ruijtenbeek R, Pieters RJ. (2017) Anal Biochem. May 29;532:12-18. 

Activity Based High-Throughput Screening for Novel O-GlcNAc Transferase Substrates Using a Dynamic Peptide Microarray.
Shi J, Sharif S, Ruijtenbeek R, Pieters RJ. (2016) PLoS One. 11(3):e0151085. doi: 10.1371/journal.pone.0151085. eCollection 2016.
Open access

Functionalization of a Rigid Divalent Ligand for LecA, a Bacterial Adhesion Lectin
Fu O, Pukin AV, van Ufford HCQ, Kemmink J, de Mol NJ and Pieters RJ (2015) Chemistry Open. DOI: 10.1002/open.201402171.
Open access 
 

Azide-alkyne cycloaddition affording enzymatically tunable bisubstrate based inhibitors of histone acetyltransferase PCAF.
van Ameijde J, Zwiebel AP, Ruijtenbeek R, Liskamp RM. Bioorg Med Chem Lett. 2014 Jan 1;24(1):113-6.
  

Functional assay for shiga-like toxin via detection by antibody capture and multivalent galabiose binding. 
van Hattum H, van der Zwaluw K, Visser GM, van Putten J, Ruijtenbeek R, Pieters RJ. Methods Mol Biol.(2013); 977:259-71.
 
 

Application of cost-effectiveness analysis to demonstrate the potential value of companion diagnostics in chronic myeloid leukemia.
Gaultney JG, Sanhueza E, Janssen JJ, Redekop WK, Uyl-de Groot CA. Pharmacogenomics. (2011) Mar;12(3):411-21.
 

Rapid screening of lectins for multivalency effects with a glycodendrimer microarray.
Parera Pera N, Branderhorst HM, Kooij R, Maierhofer C, van der Kaaden M, Liskamp RM, Wittmann V, Ruijtenbeek R, Pieters RJ. Chembiochem. (2010) Sep 3;11(13):1896-904.
 
 

High-resolution microcontact printing and transfer of massive arrays of microorganisms on planar and compartmentalized nanoporous aluminium oxide.
Ingham C, Bomer J, Sprenkels A, van den Berg A, de Vos W, van Hylckama Vlieg J.  Lab Chip. (2010) Jun 7;10(11):1410-6.
 
 

Preparation of novel alkylated arginine derivatives suitable for click-cycloaddition chemistry and their incorporation into pseudosubstrate- and bisubstrate-based kinase inhibitors.
van Ameijde J, Poot AJ, van Wandelen LT, Wammes AE, Ruijtenbeek R, Rijkers DT, Liskamp RM. Org Biomol Chem. (2010) Apr 7;8(7):1629-39.
 
 

Bioactivity-guided mapping and navigation of chemical space.
Renner S, van Otterlo WA, Dominguez Seoane M, Möcklinghoff S, Hofmann B, Wetzel S, Schuffenhauer A, Ertl P, Oprea TI, Steinhilber D, Brunsveld L, Rauh D, Waldmann H.
Nat Chem Biol. (2009) Aug;5(8):585-92.
 
 

Population heterogeneity of Lactobacillus plantarum WCFS1 microcolonies in response to and recovery from acid stress.
Ingham CJ, Beerthuyzen M, van Hylckama Vlieg J.  Appl Environ Microbiol. (2008) Dec; 74(24): 7750-8.
 
 

Multivalent carbohydrate recognition on a glycodendrimer-functionalized flow-through chip.
Branderhorst HM, Ruijtenbeek R, Liskamp RM, Pieters RJ. Chembiochem. (2008) Jul 21;9(11):1836-44.
 
 

Rapid drug susceptibility testing of mycobacteria by culture on a highly porous ceramic support.
Ingham CJ, Ayad AB, Nolsen K, Mulder B.  Int J Tuberc Lung Dis. (2008) Jun;12(6):645-50.
 
 

The micro-Petri dish, a million-well growth chip for the culture and high-throughput screening of microorganisms.
Ingham CJ, Sprenkels A, Bomer J, Molenaar D, van den Berg A, van Hylckama Vlieg JE, de Vos WM. Proc Natl Acad Sci U S A. (2007) Nov 13;104(46):18217-22.
 
 

Quantitative analysis of population heterogeneity of the adaptive salt stress response and growth capacity of Bacillus cereus ATCC 14579.
den Besten HM, Ingham CJ, van Hylckama Vlieg JE, Beerthuyzen MM, Zwietering MH, Abee T.  Appl Environ Microbiol. (2007) Aug;73(15):4797-804.
 
 

Rapid antibiotic sensitivity testing and trimethoprim-mediated filamentation of clinical isolates of the Enterobacteriaceae assayed on a novel porous culture support.
Ingham CJ, van den Ende M, Wever PC, Schneeberger PM.  J Med Microbiol. (2006) Nov;55 (Pt 11):1511-9.
 
 

Growth and multiplexed analysis of microorganisms on a subdivided, highly
porous, inorganic chip manufactured from anopore.

Ingham CJ, van den Ende M, Pijnenburg D, Wever PC, Schneeberger PM. Appl Environ Microbiol. (2005) Dec;71(12):8978-81.
 
 

Fast and specific hybridization using flow-through microarrays on porous metal oxide.
van Beuningen, R., van Damme, H., Boender, P., Bastiaensen, N., Chan, A, and Kievits, T. (2001 ) Clin. Chem. 47, 1931 –1933
 
 

Fast and reliable protein microarray production by a new drop-in-drop technique.
Gutmann O, Kuehlewein R, Reinbold S, Niekrawietz R, Steinert CP, de Heij B, Zengerle R, Daub M. F. Lab Chip. (2005) Jun;5(6):675-81.