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Protein Array Analyzer for ImageJ

Friday 15 October 2010, by Gilles Carpentier

  Table of contents  

 References:

[1] Gilles Carpentier. Contribution: Protein Array Analyzer for ImageJ. ImageJ News, 15 October 2010.

[2] Gilles Carpentier and Emilie Henault, Protein Array Analyzer for ImageJ.
Proceedings of the ImageJ User and Developer Conference, Centre de Recherche Public Henri Tudor, ed., (ISBN 2-919941- 11-9), pp. 238-240, 2010. Online abstract.

Articles citing this work (Protein Array and Dot Blot Analyzers):

- Berndt S, Issa ME, Carpentier G, Cuendet M. A Bivalent Role of Genistein in Sprouting Angiogenesis. Planta Med. 2018 Mar 14. doi: 10.1055/a-0587-5991. Abstract.

- Dionne U, Chartier FJM, López de Los Santos Y, Lavoie N, Bernard DN, Banerjee SL, Otis F, Jacquet K, Tremblay MG, Jain M, Bourassa S, Gish GD, Gagné JP, Poirier GG, Laprise P, Voyer N, Landry CR, Doucet N, Bisson N. Direct Phosphorylation of SRC Homology 3 Domains by Tyrosine Kinase Receptors Disassembles Ligand-Induced Signaling Networks. Mol Cell. 2018 Jun 21;70(6):995-1007. Abstract

- Rowe EM, Biggar KK. An optimized method using peptide arrays for the identification of in vitro substrates of lysine methyltransferase enzymes. MethodsX. 2018 Jan 31;5:118-124. Abstract.

- Fujita-Yamaguchi Y, Bagramyan K, Yamaguchi Y, Ikeda A, Dohmae N, Hong TB, Kalkum M. Mass spectrometric revival of an l-rhamnose- and d-galactose-specific lectin from a lost strain of Streptomyces. J Biol Chem. 2018 Jan 5;293(1):368-378. Abstract.

- Ezrin-anchored PKA phosphorylates serine 369 and 373 on connexin 43 to enhance gap junction assembly, communication, and cell fusion. Dukic AR, Gerbaud P, Guibourdenche J, Thiede B, Taskén K, Pidoux G. Biochem J. 2018 Jan 31;475(2):455-476. Abstract.

- Sebastian Beyer, Maria Koch, Yie Hou Lee, Friedrich Jung and Anna Blocki An In Vitro Model of Angiogenesis during Wound Healing Provides Insights into the Complex Role of Cells and Factors in the Inflammatory and Proliferation Phase. Int. J. Mol. Sci. 2018, 19(10), 2913. Abstract.

- Kiely AP, Murray CE, Foti SC, Benson BC, Courtney R, Strand C, Lashley T, Holton JL. Immunohistochemical and Molecular Investigations Show Alteration in the Inflammatory Profile of Multiple System Atrophy Brain. J Neuropathol Exp Neurol. 2018 Jul 1;77(7):598-607. Abstract.

- Finimundy TC, Abreu RMV, Bonetto N, Scariot FJ, Dillon AJP, Echeverrigaray S, Barros L, Ferreira ICFR, Henriques JAP, Roesch-Ely M. Apoptosis induction by Pleurotus sajor-caju (Fr.) Singer extracts on colorectal cancer cell lines. Food Chem Toxicol. 2018 Feb;112:383-392. Abstract.

- Lee J, Abdeen AA, Hedhli J, Wycislo KL, Dobrucka IT, Fan TM, Dobrucki LW, Kilian KA. Melanoma topology reveals a stem-like phenotype that promotes angiogenesis. Sci Adv. 2017 Oct 25;3(10):e1701350. Abstract.

- Gomez-Chou SB, Swidnicka-Siergiejko AK, Badi N, Chavez-Tomar M, Lesinski GB, Bekaii-Saab T, Farren MR, Mace TA, Schmidt C, Liu Y, Deng D, Hwang RF, Zhou L, Moore T, Chatterjee D, Wang H, Leng X, Arlinghaus RB, Logsdon CD, Cruz-Monserrate Z. Lipocalin-2 Promotes Pancreatic Ductal Adenocarcinoma by Regulating Inflammation in the Tumor Microenvironment. Cancer Res. 2017 May 15;77(10):2647-2660. Abstract.

- Seeber A, Hegnauer AM, Hustedt N, Deshpande I, Poli J, Eglinger J, Pasero P, Gut H, Shinohara M, Hopfner KP, Shimada K, Gasser SM. RPA Mediates Recruitment of MRX to Forks and Double-Strand Breaks to Hold Sister Chromatids Together. Mol Cell. 2016 Dec 1;64(5):951-966. Abstract.

- Hermanns M.I., Kasper J., Unger R.E., Carpentier G.,. Roggen E.L, and Kirkpatrick C.J. Assessment of respiratory sensitizers: Cytokine responses in a 3D alveolo-capillary barrier model in vitro. Advanced Biomaterials and Devices in Medicine 2 (2015) 1-9. Article.

- Farkas AE, Hilgarth RS, Capaldo CT, Gerner-Smidt C, Powell DR, Vertino PM, Koval M, Parkos CA, Nusrat A. HNF4α Regulates Claudin-7 Protein Expression during Intestinal Epithelial Differentiation. Am J Pathol. 2015 Aug;185(8):2206-18. Abstract.

- Tokarz A, Szuścik I, Kuśnierz-Cabala B, Kapusta M, Konkolewska M, Żurakowski A, Georgescu A, Stępień E. Extracellular vesicles participate in the transport of cytokines and angiogenic factors in diabetic patients with ocular complications. Folia Med Cracov. 2015;55(4):35-48. Abstract.

- Monaghan M, Browne S, Schenke-Layland K, Pandit A. A collagen-based scaffold delivering exogenous microrna-29B to modulate extracellular matrix remodeling. Mol Ther. 2014 Apr;22(4):786-96. Abstract.

- Orgaz JL, Pandya P, Dalmeida R, Karagiannis P, Sanchez-Laorden B, Viros A, Albrengues J, Nestle FO, Ridley AJ, Gaggioli C, Marais R, Karagiannis SN, Sanz-Moreno V. (2014) Diverse matrix metalloproteinase functions regulate cancer amoeboid migration. Nat Commun. 2014 Jun 25;5:4255. doi: 10.1038/ncomms5255. Abstract.

- Minella AL, Mowat FM, Willett KL, Sledge D, Bartoe JT, Bennett J, Petersen-Jones SM. Differential targeting of feline photoreceptors by recombinant adeno-associated viral vectors: implications for preclinical gene therapy trials. Gene Ther. 2014 Oct;21(10):913-20.
Abstrcat.

- Orgaz JL, Pandya P, Dalmeida R, Karagiannis P, Sanchez-Laorden B, Viros A, Albrengues J, Nestle FO, Ridley AJ, Gaggioli C, Marais R, Karagiannis SN, Sanz-Moreno V. (2014) Diverse matrix metalloproteinase functions regulate cancer amoeboid migration. Nat Commun. 2014 Jun 25;5:4255. doi: 10.1038/ncomms5255. Abstract.

- Lodowski KH, Lee R, Ropelewski P, Nemet I, Tian G, Imanishi Y. Signals governing the trafficking and mistrafficking of a ciliary GPCR, rhodopsin. J Neurosci. 2013 Aug 21;33(34):13621-38. Abstract.

- Cady RJ, Denson JE, Durham PL. (2013). Inclusion of cocoa as a dietary supplement represses expression of inflammatory proteins in spinal trigeminal nucleus in response to chronic trigeminal nerve stimulation. Mol Nutr Food Res.. 2013 Jun;57(6):996-1006. Abstract.

- Tsai HF, Huang CW, Chang HF, Chen JJ, Lee CH, Cheng JY. (2013) Evaluation of EGFR and RTK Signaling in the Electrotaxis of Lung Adenocarcinoma Cells under Direct-Current Electric Field Stimulation. PLoS One. 2013 Aug 9;8(8):e73418. Abstract.

- Qiu H, Jiang JL, Liu M, Huang X, Ding SJ, Wang L. (2013). Quantitative phosphoproteomics analysis reveals broad regulatory role of heparan sulfate on endothelial signaling. Mol Cell Proteomics. 2013 Aug;12(8):2160-73. Abstract.

- Takezawa K, Pirazzoli V, Arcila ME, Nebhan CA, Song X, de Stanchina E, Ohashi K, Janjigian YY, Spitzler PJ, Melnick MA, Riely GJ, Kris MG, Miller VA, Ladanyi M, Politi K, Pao W (2012). HER2 Amplification: A Potential Mechanism of Acquired Resistance to EGFR Inhibition in EGFR-Mutant Lung Cancers That Lack the Second-Site EGFRT790M Mutation. Cancer Discov. 2012 Oct;2(10):922-933. Abstract.

- Morin C, Roumegous A, Carpentier G, Barbier-Chassefière V, Garrigue-Antar L, Caredda S, Courty J. (2012). Modulation of inflammation by Cicaderma ointment accelerates skin wound healing. J Pharmacol Exp Ther. 2012 Oct;343(1):115-24. Abstract.

- Fischer C, Ahlrichs WH, Buma AG, van de Poll WH, Bininda-Emonds OR (2013). How does the ’ancient’ asexual Philodina roseola (Rotifera: Bdelloidea) handle potential UVB-induced mutations? J Exp Biol 2013 Aug 15;216(Pt 16):3090-5. doi: 10.1242/jeb.087064. Abstract.

- Gambino M, Cappitelli F, Cattò C, Carpen A, Principi P, Ghezzi L, Bonaduce I, Galano E, Pucci P, Birolo L, Villa F, Forlani F. (2013). A simple and reliable methodology to detect egg white in art samples. J Biosci.. 2013 Jun;38(2):397-408. Abstract.

- D. Ghosh, J. Bernstein. Serum Cytokine Profiles In Trimellitic Anhydride Exposed Factory Workers. The Journal of Allergy and Clinical Immunology February 2012 Volume 129, Issue 2, Supplement, Page AB168. Abstract.

- Caraballo DA, Belluscio PM, Rossi MS (2011). The library model for satellite DNA evolution: a case study with the rodents of the genus Ctenomys (Octodontidae) from the Iberá marsh, Argentina. Genetica 2011, 138(11-12):1201-10. Abstract.

- Rahimi F, Murakami K, Summers JL, Chen C-HB, Bitan G (2009). RNA Aptamers Generated against Oligomeric Aβ40 Recognize Common Amyloid Aptatopes with Low Specificity but High Sensitivity. PLoS ONE 2009, 4(11): e7694. doi:10.1371/journal.pone.0007694. Abstract.

- Ouidja, M. O., Petit, E., Kerros, M. E., Ikeda, Y., Morin, C., Carpentier, G., Barritault, D., Brugere-Picoux, J., Deslys, J. P., Adjou, K., and Papy-Garcia, D. (2007). Structure-activity studies of heparan mimetic polyanions for anti-prion therapies. Biochem Biophys Res Commun. 2007, 363, 95-100. Abstract.

The code in the following frame is available in full page on the ImageJ web site at this link.

Citing this work:

You can use a formula similar to that found by Rahimi et al. in the "Material and Methods" of this article [4], or use in references a formula like "Carpentier G. Protein Array Analyze for ImageJ (2010) available online: http ://rsb.info.nih.gov/ij/macros/toolsets/Protein Array Analyzer.txt"

logoij ImageJ (http://rsb.info.nih.gov/ij/) is a public domain Java image processing program inspired by NIH Image for the Macintosh. It runs, either as an online applet or as a downloadable application, on any computer with a Java 1.1 or later virtual machine. Downloadable distributions are available for Windows, Mac OS, Mac OS X and Linux. The author, Wayne Rasband (wayne@codon.nih.gov), is at the Research Services Branch, National Institute of Mental Health, Bethesda, Maryland, USA.
Gilles Carpentier, Faculte des Sciences et Technologie,
Universite Paris Est Creteil Val-de-Marne, France.

Special thanks to Alessandra Albano for the English correction of these sites.
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