Literature

Targeted Therapies

Sunakawa, Yu, et al.  "Alteration of ADCC-related genes as a novel predictor of efficacy of cetuximab (cet)-based chemotherapy in patients (pts) with metastatic colorectal cancer (mCRC) (JACCRO CC-05/06 AR)." Poster presented at 2016 ASCO Gastrointestinal Cancers Symposium; 2016 Jan 21 - 23; San Francisco, CA: J Clin Oncol 34, 2016 (suppl 4S; abstr 589) Download (PDF 463KB)

Semrad, T, et al.  "Phase II study of dovitinib in patients (Pts) progressing on anti-vascular endothelial growth factor (VEGF) therapy." Poster presented at 2016 ASCO Gastrointestinal Cancers Symposium; 2016 Jan 21 - 23; San Francisco, CA: J Clin Oncol 34, 2016 (supply 4S; abstr 616). Download (PDF 847KB)

Baker, Amanda F., et al. "Evaluation Of A Hypoxia Regulated Gene Panel In Ovarian Cancer." 2015 Apr; Cancer Microenviron. 8(1): 45-56 Download (PDF 864K)

Maddula K, et al. “FGFR and FGF ligand overexpression in lung cancer: Implications for targeted therapy." Poster presented at 2014 American Society of Clinical Oncology; 2014 May 31-Jun 3; Chicago, IL: 2014 ASCO Annual Meeting Abstract No: 11080 Citation: J Clin Oncol 32:5s, 2014 (suppl; abstr 11080). Download (PDF 3.82MB)

Shell S, et al. "Correlation of multiplex measurement of mRNA expression from FFPE tissues with protein expression."  Poster published on 2014 ASCO Meeting Library; 2014 May 31-Jun 3; Chicago, IL:  2014 ASCO Annual Meeting Abstract No: e22141 Citation: J Clin Oncol 32, 2014 (suppl; abstr e22141). http://meetinglibrary.asco.org/content/134741-144. Download (PDF 68.63KB)

Sequencing

Lipchik C, et al. "FFPE Tissue and the HTG Oncology Biomarker Panel: a Low-Input, Extraction-Free Gene Expression Pilot Study."  Poster presented at MAD SSCi 2016; June 8 - 10; Pittsburgh, PA: 2016 MAD SCCi Annual Meeting.  Download (PDF 2.93MB)

Reinholz M, et al. "Next-Generation Sequencing from DLBCL Classification." Poster presented at ASCO 2016; 2016 June 4 - June 6; Chicago, IL: 2016 ASCO Annual Meeting http://iplanner.asco.org/am2016/#/Download (PDF 740KB)

Reinholz M, et al.  "Verification of miRNA Expression Using Nuclease Protection and Targeted Next-Generation Sequencing (NGS)." Poster presented at ESHG 2016; 2016 May 21 - 23; Barcelona, Spain: 2016 ESHG Annual Meeting http://www.abstractsonline.com/Plan/ViewAbstract.aspx?sKey=09453252-427f-4bb1-a408-7e0a475e9762&cKey=617a5c21-7b42-4969-8177-bf3578ea44b0&mKey=724c3001-0be7-4c9f-b314-ddac3db6fc2a. Download (PDF 2.07MB)

​Reinholz M, et al.  "HTG EdgeSeq Oncology Biomarker Panel (OBP), an NGS-based Measurement of Gene Expression of 2,560 Oncology-Related Biomarkers in Formalin-fixed, Paraffin-embedded (FFPE) tissues." Poster presented at ESHG 2016; 2016 May 21 - 23; Barcelona, Spain: 2016  ESHG Annual Meeting http://www.abstractsonline.com/Plan/ViewAbstract.aspx?sKey=257caa9f-9f28-426d-a562-bee264768cbc&cKey=1cf76e08-c0e9-4464-92b9-f10cb82dc72f&mKey=%7b724C3001-0BE7-4C9F-B314-DDAC3DB6FC2A%7d​. Download (PDF 2.27MB)

Reinholz M, et al.  "Gene Expression Measurement of Immuno-Oncology Targets in a Single FFPE Section Using a Novel Targeted Sequencing Assay." Poster presented at AACR 2016; 2016 Apr 17 - 19; New Orleans, LA: 2016 AACR Annual Meeting Abstract No: 2237.  Download (PDF 1.52MB)

Reinholz M, et al.  "HTG EdgeSeq Oncology Biomarker Panel (OBP), an NGS-based Measurement of Gene Expression of 2,560 Oncology-Related Biomarkers in Formalin-fixed, Paraffin-embedded (FFPE) tissues." Poster presented at AACR 2016; 2016 Apr 17 - 19; New Orleans, LA: 2016 AACR Annual Meeting Abstract No: 1383 http://www.abstractsonline.com/Plan/ViewAbstract.aspx?mID=4017&sKey=78188e22-2da5-4b5b-a062-580e8614d15e&cKey=4ab46309-90c3-448d-aafe-2bfce34d4020&mKey=1d10d749-4b6a-4ab3-bcd4-f80fb1922267.  Download (PDF 2.62MB)

Reinholz M, et al.  "The HTG EdgeSeq Oncology Biomarker Panel enables NGS-based gene expression profiling from small samples."  Poster presented at ABRF 2016; February 20 - 23; Ft. Lauderdale, FL: 2016 ABRF 2016 Annual Meeting.  Download (PDF 1.13MB)

Botros I, et al.  "Unique Endogenous Controls for Extraction-Free Targeted RNA Sequencing Assays." Poster presented at AGBT 2016 Annual Meeting; Feb 10 - 13.  Download (PDF 2.2MB)

Reinholz M, et al. "HTG EdgeSeq Oncology Biomarker Panel Assay (OBP), an NGS-based gene expression assay for measuring 2,532 oncology-related genes in FFPE tissue in different sample types." Poster presented at GTC 2015 8th Oncology Biomarkers; 2015 Mar 18 - 20.  Download (PDF 1.09MB)

Maddula K, et al. "Targeted RNA Sequencing for simultaneous expression profiling and detection of gene rearrangements in FFPE biopsies." Poster presented at 2015 AGBT; 2015 February 25 - 28. Download (PDF 1.15MB)

Thompson D, et al.  "Automated high fidelity miRNA expression profiling using nuclease protection coupled with next generation sequencing."  Poster presented at 2014 ASHG; 2014 October 18-22. Download (PDF 906.11KB)

Thompson D, et al.  "Automated high fidelity miRNA expression profiling using nuclease protection coupled with next generation sequencing."  Poster presented at 2014 Merck Technology Symposium; 2014 May 6-7. Download (PDF 1.49MB)

Seligmann B, et al. “miRNA Biomarker Identification Using a Sequencing-Based Nuclease Protection Assay (NPSeq™): Building on Edge Automation of qNPA™ for RNA Measurement.” Poster presented at 2013 Association of Biomolecular Resource Facilities Annual Meeting; 2013 Mar 2-5. Download (PDF 694KB)

Thompson D, et al. “Targeted Gene Expression Screening from FFPE: NPSeq™.” Poster presented at the 104th Annual Meeting of the American Association for Cancer Research; 2013 Apr 6-10; Washington, DC. Philadelphia (PA): AACR; 2013. 4146. Download (PDF 733KB)

Drug Development

Modur V, et al. “Evidence-based laboratory medicine in oncology drug development: From biomarker to diagnostics.” Clin Chem. 2013 Jan;59(1):102-9. http://www.ncbi.nlm.nih.gov/pubmed/23034140

Frozen vs FFPE using HTG Edge Chemistry

Wang E, et al.  "Non-small cell lung cancer histological sub-typing by gene expression analysis from FFPE tissue." Poster presented at 2014 American Association for Cancer Research; 2014 Apr 5-9; http://cancerres.aacrjournals.org/content/74/19_Supplement/1877.short. Download (PDF 2.3MB)

Rounseville M, et al. “Comparison of qNPA vs qPCR on FFPE Tissue.” Poster presented at the 104th Annual Meeting of the American Association for Cancer Research; 2013 Apr 6-10; Washington, DC. Philadelphia (PA): AACR; 2013. 4133. Download (PDF 733KB)

Thompson D, et al. “Targeted Gene Expression Screening from FFPE: NPSeq™.” Poster presented at the 104th Annual Meeting of the American Association for Cancer Research; 2013 Apr 6-10; Washington, DC. Philadelphia (PA): AACR; 2013. 4146. Download (PDF 864KB)

Rounseville M, et al. “Automated Measurement of Gene Expression from FFPE: qNPA vs. qPCR.” Poster presented at the 2013 Molecular Med Tri-Con Annual Meeting; 2013 Feb 11-15 (abstr 29). Download (PDF 849KB)

Lymphoma

Yang D, et al. “Array-based Quantitative Nuclease Protection Assay Can Reproducibly Identify Prognostic mRNA Biomarkers in Archival Mantle Cell Lymphoma Specimens.” Poster presented at the 2013 United States & Canadian Academy of Pathology Annual Meeting; 2013 March 2-8 (abstr 164); http://www.abstracts2view.com/uscap13/view.php?nu=USCAP13L_1538Download (PDF 1.1MB)

Rimsza L, et al. “Classification of Diffuse Large B cell Lymphoma into Germinal Center and Activated B cell Subtypes Using a Nuclease Protection Assay on Paraffin Embedded Tissues.” Clin Cancer Res. 2011 Jun 1;17(11):3727-32. http://clincancerres.aacrjournals.org/content/17/11/3727

Yang D, et al. “Identification of Potential Prognostic Biomarkers in Mantle Cell Lymphoma by Array-Based Quantitative Nuclease Protection Assay.” Poster presented at the 2010 American Society of Hematology Annual Meeting; 2010 Dec 4-7: ASH 2010 116: (abstr 2007) http://abstracts.hematologylibrary.org/cgi/content/abstract/116/21/2007?maxtoshow=&hits=10&RESULTFORMAT=&fulltext=quantitative+nuclease+protection+assay&searchid=1&FIRSTINDEX=0&volume=116&issue=21&resourcetype=HWCIT

Rimsza L, et al. “ Gene Expression Predicts Overall Survival in Paraffin Embedded Tissues of Diffuse Large B Cell Lymphoma Treated with R-CHOP.” Blood October 15, 2008 vol. 112 no. 8 3425-3433. http://bloodjournal.hematologylibrary.org/content/112/8/3425.full.pdf+html

Roberts R, et al. “Quantitative Nuclease Protection Assay in Paraffin-Embedded Tissue Replicates Prognostic Microarray Gene Expression in Diffuse Large B-Cell Lymphoma.” Laboratory Investigation (2007) 87, 979–997.published online 13 August 2007 http://www.nature.com/labinvest/journal/v87/n10/abs/3700665a.html

Breast Cancer

Gerson K, et al. “Effects of β4 integrin expression on microRNA patterns in breast cancer.” Biol Open. 2012 July 15; 1(7): 658–666. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3507297/

Evangelist M, et al. “Quantitative Nuclease Protection Assay (qNPA) for Gene Expression Analysis on Breast Cancer Core Biopsies.” Poster presented at the 2011 Breast Cancer Symposium of the American Society of Clinical Oncology. J Clin Oncol 29, 2011 (suppl 27; abstr 49). http://meetinglibrary.asco.org/content/86710-111

Expressed Mutations and Fusions

Maddula K, et al.  "RNA expression based screening of ALK Gene Fusion from NSCLC FFPE samples." Poster presented at 2014 American Association for Cancer Research; 2014 Apr 5-9; http://www.abstractsonline.com/Plan/ViewAbstract.aspx?mID=3404&sKey=7be3d339-b6ae-4f15-98a5-8e588792e595&cKey=28f65fe8-03af-4d05-9327-bdefb537b2ca&mKey=6ffe1446-a164-476a-92e7-c26446874d93 Download (PDF2.1MB)

Rounseville M, et al. “Development of an automated RNA-based nuclease protection assay for the detection of expressed EML-ALK fusions, EGFR, and KRAS mutations in NSCLC.” J Clin Oncol 31, 2013 (suppl; abstr e22185). June 2013. http://meetinglibrary.asco.org/content/118379-132

Tox to DDI

LeCluyse, E, et al. "A multiplex approach to investigate drug-induced changes in p450 enzyme gene expression." Poster presented at 2015 ISSX; 2015 Oct 18 - 22. Download (PDF 616KB)

Schwartz, M, et al. "Repeatability and reproducibility of an automated, multiplex p450 enzyme gene expression assay." Poster presented at 2015 ISSX; 2015 Oct 18 - 22. Download (PDF 1.2MB)

Whitman S, et al. "A multiplex approach to investigate drug induced changes in p450 enzyme gene expression." Poster presented at 2014 ISSX; 2014 Oct 19 - 23. Download (PDF 2.5MB)

Rotroff, Daniel M., et al. 'Xenobiotic-Metabolizing Enzyme and Transporter Gene Expression in Primary Cultures of Human Hepatocytes Modulated by Toxcast Chemicals', Journal of Toxicology and Environmental Health, Part B, 13: 2, 329 — 346. Download (PDF​ 942KB).

Hunter E, et al. “Investigation of a Redox-Sensitive Predictive Model of Mouse Embryonic Stem Cell Differentiation via Quantitative Nuclease Protection Assays and Glutathione Redox Status.” Poster presented at the 52nd Annual Society of Toxicology Meeting; 2013 Mar 10-14 (abstr 1205). http://www.toxicology.org/AI/PUB/Tox/2013Tox.pdf

Sawada H, et al. “Improved Toxicogenomic Screening for Drug-Induced Phospholipidosis Using a Multiplexed Quantitative Gene Expression ArrayPlate Assay.” Toxicol In Vitro. 2006 Dec;20(8):1506-13. Epub 2006 Jun 3. http://www.ncbi.nlm.nih.gov/pubmed/16919414

HTG Edge Chemistry

Bourzac K, et al. “A High-Density Quantitative Nuclease Protection Microarray Platform For High Throughput Analysis Of Gene Expression.” J Biotechnol. 2011 Jun 10;154(1):68-75. Epub 2011 Apr 8. http://www.ncbi.nlm.nih.gov/pubmed/21504771

Brengues M, et al. “Biodosimetry on Small Blood Volume using Gene Expression Assay.” Health Phys. Author manuscript; available in PMC 2013 June 10. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3677703/

Kris R, et al. “High-Throughput, High-Sensitivity Analysis of Gene Expression in Arabidopsis.” Plant Physiology July 2007 vol. 144 no. 3 1256-1266 (2007) http://www.plantphysiol.org/content/144/3/1256.full.pdf+html

Martel R, et al. “Array Formats in Microarray Technologies and Applications.” Müller, U.R., and Dan Nicolau. Microarray Technology and Its Applications. Berlin, Heidelberg: Springer-Verlag Berlin Heidelberg, 2005. Print. http://link.springer.com/book/10.1007/b137842/page/1

Martel R, et al. “Multiplexed Chemiluminescence Assays in ArrayPlates for High-Throughput Measurement of Gene Expression.” Proc. SPIE 4626, Biomedical Nanotechnology Architectures and Applications, 35 (June 19, 2002); http://spiedigitallibrary.org/proceedings/resource/2/psisdg/4626/1/35_1?isAuthorized=no

Martel R, et al. “Multiplexed Screening Assay for mRNA Combining Nuclease Protection with Luminescent Array Detection.” ASSAY and Drug Development Technologies. November 2002, 1(1): 61-71. (2002) http://www.liebertonline.com/doi/abs/10.1089/154065802761001310

Other Research Topics

Altar C, et al. “Target Identification for CNS diseases by transcriptional profiling.” Neuropsychopharmacology. 2009 January; 34(1): 18–54. npp.2008.172. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2675576/?tool=pubmed

Fichorova R, et al. “Polyanionic Microbicides Modify Toll-Like Receptor-Mediated Cervicovaginal Immune Responses.” Antimicrob Agents Chemother. 2009 Apr;53(4):1490-500. Epub 2009 Jan 12. http://www.ncbi.nlm.nih.gov/pubmed/19139286

Pechhold S, et al. “Transcriptional Analysis of Intracytoplasmically Stained, FACS-Purified Cells By High Throughput, Quantitative Nuclease Protection.” Nat Biotechnol. 2009 Nov;27(11):1038-42. Epub 2009 Oct 18.
http://www.ncbi.nlm.nih.gov/pubmed/?term=T+ranscriptional+analysis+of+intracytoplasmically+stained%2C+FACS-purified+cells+by+high-throughput%2C+quantitative+nuclease+protection

Altar C, et al. “Insulin, IGF-1, and Muscarinic Agonists Modulate Schizophrenia-Associated Genes in Human Neuroblastoma Cells.” Biol Psychiatry. 2008 Dec 15;64(12):1077-87. Epub 2008 Oct 30. http://www.ncbi.nlm.nih.gov/pubmed/18973876

Seligmann B, et al. “The Center for Chemical Genomics & Translational Research: A Joint Venture between the University of Arizona and HTG, Inc.” J Biomol Tech. 2008 February; 19(1): 1–72. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2359594/

Bakir F, et al. “Discovery and Structure-Activity Relationship Studies Of Indole Derivatives as Liver X Receptor (LXR) Agonists.” Bioorg Med Chem Lett. 2007 Jun 15;17(12):3473-9. Epub 2007 Mar 27. http://www.ncbi.nlm.nih.gov/pubmed/17416521\

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Last updated: 08/15/2016 - 15:43