Application notes
These are examples of application of PamGene's technology in different fields of interest. 
 Click to download the Application Note (PDF).
 
General Technology
 
PamChip® microarrays and PamStation® instruments; A novel platform to support kinase and kinase inhibitor research (201002)
 
Functional testing of PamStation®12 microarray instrument performance (201003)
 
PamGene Partnering Access to unique research capabilities in a partnership approach (201016)
 
Protein tyrosine kinase assay robustness on PamChip® microarrays and PamStation®12 (201102)
 
The use of kinetic profiles in the statistical analysis of PamChip® data. (201109)
 
PamIndex: biomarker discovery for Pamchip® assays (201110)
 
BioNavigator, software to interpret PamChip® measurements (201305)
 
 
Kinases
 
Prediction of response to preoperative chemoradiotherapy in rectal cancer by multiplex kinase activity profiling (201001)
 
PamChip® arrays to support mechanistic studies to understand why PTEN inactivation leads to resistance to EGFR kinase inhibitors. (201004)
 
Development of Selective Bisubstrate-Based Inhibitors against Protein Kinase C (PKC) Isozymes (201005)
 
Peptide microarrays for detailed, high-throughput substrate identification, kinetic characterization, and inhibition studies on protein kinase A (201007)
 
Kinome Profiling in Pediatric Brain Tumors; a New Approach for Target Discovery (201008)
 
Episodic Src activation in uveal melanoma revealed by kinase activity profiling (201009)
 
Prediction of survival in early stage non-small cell lung cancer (NSCLC) by kinase activity profiles (201010)
 
Application of kinase activity profiles to predict response to erlotinib in a neoadjuvant setting in early stage non-small cell lung cancer (NSCLC). (201011)
 
Intrinsic differences between the catalytic properties of the oncogenic NUP214-ABL1 and BCR-ABL1 fusion protein kinases (201012)
 
Protein-Tyrosine Kinase Activity Profiling in Knock Down Zebrafish Embryos (201013)
 
Endogenous Phosphotyrosine Signaling in Zebrafish Embryos (201014)
 
Kinase activity as a sensor for efficacy of doxorubicin and/or bevacuzimab treatment of breast cancer (201018)
 
Application of kinase activity profiles to predict upcoming TKI resistance in CML-patients (201019)
 
Understanding downstream signaling of the kinase RET WT and mutant. (201020)
 
Kinase activity profiling can visualize differential modulation of kinaseactivity by therapeutic Ab’s against the same growth factor receptor. (201101)
 
Using pathway analysis with PamChip® measurements to discover potential on/off target effects of a compound (201103)
 
Substrate identification and kinetic characterisation of JAK family kinases by multiplex kinase activity profiling (201104)
 
Substrate profiling of protein tyrosine kinases by multiplex kinase activity profiling (201105)
 
Multiplex serine/threonine kinase activity profiling using fine needle aspirates of thyroid gland (201201)
 
Effect of antiangiogenic therapy on tumor growth, vasculature and kinase activity in basal- and luminal-like breast cancer xenografts (201202)
 
Kinomic profiling identifies Trk as a novel radiation Modulator (201203)
 
Tumor kinase activity in locally advanced rectal cancer: angiogenic signaling and early systemic dessemination.  (201204)
 
Dual inhibition of Jak2 and STAT5 enhances killing of myeoloproliferative neoplasia cells (201205)
 
The platelet P2Y12 receptor contributes to granule secretion through Ephrin A4 receptor (201206)
 
Correlation of ex vivo PamChip® kinase inhibition profiles of erlotinib with in vivo tumour efficacy in pancreatic PDTX models  (201306)
 
Nuclear Receptors
 
Coregulator peptide binding profiling of PPARγ treated with agonist rosiglitazone and antagonist GW9662. (201006)
 
Detection of multiple nuclear receptor–coregulator interactions in a single sample using MARCoNI PamChip technology (201015) 
 
MARCoNI: analysis of Nuclear Receptor function in clinical samples (201108)
 
Phosphatases
 
Protein tyrosine phospatase (PTP) substrate specificity profiling (201301)
 
Evaluation of SHP inhibitor NSC87877 using a protein tyrosine  phosphatase (PTP) microarray (201302)
 
PamChip® protein tyrosine phospatase (PTP) arrays allow dynamic investigation of PTP activity in lysates (201303)
 
Protein tyrosine phosphatase (PTP) microarrays (201304)
 
 
Genomics
 
Using PamChip MPLA for the detection of European Bunyaviruses (201107)
 
White Papers
 
A 10-year summary of kinase small molecule research: Text mining AACR abstracts
This white paper describes trends over a decade of small molecule Protein Kinase Inhibitor (PKI) research by mining thousands of American Society for Cancer Research (AACR) abstracts covering the period of 2004-2013. 
 
Supervised classification for biomarker discovery with PamChip data
Supervised classification is the main tool for data analysis in biomarker discovery. PamGene has implemented a tool based on partial least squares discriminant analysis (PLS-DA) in BioNavigator data analysis package. This results in PamIndex plots that have become a standard way of reporting the results of PamChip based on biomarkers. In this White paper, some general concepts of supervised class prediction are discussed, ands its implementation in BioNavigator.