Optimisation of colour schemes to accurately display mass spectrometry imaging data based on human colour perception

Analytical and Bioanalytical Chemistry

Volumn 407, Issue 8, 2015, Pages 2047-2054

  Race, Alan M ^a,b   Bunch, Josephine ^b,c  

^a UNIVERSITY OF BIRMINGHAM   (United Kingdom)

^b NATIONAL PHYSICAL LABORATORY   (United Kingdom)

^c UNIVERSITY OF NOTTINGHAM   (United Kingdom)

Author keywords

Colour scheme; Data visualisation; Mass spectrometry imaging

Indexed keywords

COLOR VISION; DATA VISUALIZATION; MASS SPECTROMETRY; MULTIVARIANT ANALYSIS; PRINCIPAL COMPONENT ANALYSIS; SPECTROMETRY;

COLOUR PERCEPTION; COLOUR SCHEMES; COMPOSITE IMAGES; MASS SPECTROMETRY IMAGING (MSI); MASS-SPECTROMETRY IMAGING; MULTIVARIATE ANALYSIS TECHNIQUES; OBSERVED SYSTEMS; OPTIMISATIONS;

COLOR;

COLOR VISION; DIAGNOSTIC IMAGING; HUMAN; MASS SPECTROMETRY; PRINCIPAL COMPONENT ANALYSIS;

COLOR PERCEPTION; DIAGNOSTIC IMAGING; HUMANS; MASS SPECTROMETRY; PRINCIPAL COMPONENT ANALYSIS;

EID: 84938307111     PISSN: 16182642     EISSN: 16182650     Source Type: Journal    
DOI: 10.1007/s00216-014-8404-5     Document Type: Review

References (25)

1. Moreland K (2009) Diverging color maps for scientific visualization. In: Bebis G et al. (eds) Advances in visual computing. Springer, Berlin, pp 92-103
2. Rogowitz BE, Treinish LA, Bryson S (1996) How not to lie with visualization. Comput Phys 10(3):268-273
3. Borland D, Taylor RM II (2007) Rainbow color map (still) considered harmful. IEEE Comput Graph Appl 27(2):14-17
4. Light A, Bartlein PJ (2004) The end of the rainbow? Color schemes for improved data graphics. Eos Trans Am Geophys Union 85(40):385-391
5. Stauffer R, Mayr GJ, Dabernig M, Zeileis A (2013) Somewhere over the rainbow: how to make effective use of colors in meteorological visualizations. Department of Public Finance, University of Innsbruck, Innsbruck
6. Tkalcic M, Tasic JF (2003) Colour spaces: perceptual, historical and applicational background. In: Eurocon 2003, Ljubljana, Slovenia, 22-24 Sept 2003, 1:304-308
7. Race AM, Styles IB, Bunch J (2012) Inclusive sharing of mass spectrometry imaging data requires a converter for all. J Proteomics 75(16):5111-5112
8. Race AM, Steven RT, Palmer AD, Styles IB, Bunch J (2013) Memory efficient principal component analysis for the dimensionality reduction of large mass spectrometry imaging data sets. Anal Chem 85(6):3071-3078
9. Dougherty B, Wade A (2014) Vischeck. http://www.vischeck.com/. Accessed 24 July 2014
10. Khatib-Shahidi S, Andersson M, Herman JL, Gillespie TA, Caprioli RM (2006) Direct molecular analysis of whole-body animal tissue sections by imaging MALDI mass spectrometry. Anal Chem 78(18):6448-6456
11. Adelson EH (1993) Perceptual organization and the judgment of brightness. Science 262(5142):2042-2044
12. Kimpe T, Tuytschaever T (2007) Increasing the number of gray shades in medical display systems: how much is enough? J Digit Imaging 20(4):422-432
13. Simunovic M (2009) Colour vision deficiency. Eye 24(5):747-755
14. Jordan G, Deeb SS, Bosten JM, Mollon J (2010) The dimensionality of color vision in carriers of anomalous trichromacy. J Vis 10(8):1-19
15. Robichaud G, Garrard KP, Barry JA, Muddiman DC (2013) MSiReader: an open-source interface to view and analyze high resolving power MS imaging files on Matlab platform. J Am Soc Mass Spectrom 24(5):718-721
16. Parry RM, Galhena AS, Gamage CM, Bennett RV, Wang MD, Fernández FM (2013) omniSpect: an open MATLAB-based tool for visualization and analysis of matrix-assisted laser desorption/ionization and desorption electrospray ionization mass spectrometry images. J Am Soc Mass Spectrom 24(4):646-649
17. Luo MR, Cui G, Rigg B (2001) The development of the CIE 2000 colour-difference formula: CIEDE2000. Color Res Appl 26(5):340-350
18. Sharma G, Wu W, Dalal EN (2005) The CIEDE2000 color-difference formula: Implementation notes, supplementary test data, and mathematical observations. Color Res Appl 30(1):21-30
19. Habekost M (2013) Which color differencing equation should be used? Int Circular Graphic Educat Res 6:20-33
20. Ware C (2004) Information visualization: perception for design. Elsevier, Amsterdam
21. Sugiura Y, Konishi Y, Zaima N, Kajihara S, Nakanishi H, Taguchi R, Setou M (2009) Visualization of the cell-selective distribution of PUFA-containing phosphatidylcholines in mouse brain by imaging mass spectrometry. J Lipid Res 50(9):1776-1788
22. Sodhi RN (2004) Time-of-flight secondary ion mass spectrometry (TOF-SIMS): versatility in chemical and imaging surface analysis. Analyst 129(6):483-487
23. Pachuta SJ (2004) Enhancing and automating TOF-SIMS data interpretation using principal component analysis. Appl Surf Sci 231:217-223
24. Cleveland WS, Cleveland WS (1983) A color-caused optical illusion on a statistical graph. Am Stat 37(2):101-105
25. Brewer CA, Harrower M, Sheesley B, Woodruff A, Heyman D (2014) Colorbrewer 2.0. http://colorbrewer2.org/