A computational approach to microarray universal reference sample

Author(s):  
Georgia Tsiliki ◽  
Sofia Kaforou ◽  
Manouela Kapsetaki ◽  
George Potamias ◽  
Dimitris Kafetzopoulos
Author(s):  
George Potamias ◽  
Sofia Kaforou ◽  
Dimitris Kafetzopoulos

In this paper, the authors present an assessment of the reliability of microarray experiments as well as their cross-laboratory/platform reproducibility rise as the major need. A critical challenge concerns the design of optimal universal reference rna (urr) samples to maximize detectable spots in two-color/channel microarray experiments, decrease the variability of microarray data, and finally ease the comparison between heterogeneous microarray datasets. Toward this target, the authors present an in-silico (binary) optimization process the solutions of which present optimal urr sample designs. Setting a cut-off threshold value over which a gene is considered as detectably expressed enables the process. Experimental results are quite encouraging and the related discussion highlights the suitability and flexibility of the approach.


2009 ◽  
Vol 8 (1) ◽  
pp. 290-299 ◽  
Author(s):  
Wei-Jun Qian ◽  
Tao Liu ◽  
Vladislav A. Petyuk ◽  
Marina A. Gritsenko ◽  
Brianne O. Petritis ◽  
...  

2013 ◽  
pp. 1676-1687
Author(s):  
George Potamias ◽  
Sofia Kaforou ◽  
Dimitris Kafetzopoulos

In this paper, the authors present an assessment of the reliability of microarray experiments as well as their cross-laboratory/platform reproducibility rise as the major need. A critical challenge concerns the design of optimal universal reference rna (urr) samples to maximize detectable spots in two-color/channel microarray experiments, decrease the variability of microarray data, and finally ease the comparison between heterogeneous microarray datasets. Toward this target, the authors present an in-silico (binary) optimization process the solutions of which present optimal urr sample designs. Setting a cut-off threshold value over which a gene is considered as detectably expressed enables the process. Experimental results are quite encouraging and the related discussion highlights the suitability and flexibility of the approach.


Author(s):  
S. Nakahara ◽  
D. M. Maher

Since Head first demonstrated the advantages of computer displayed theoretical intensities from defective crystals, computer display techniques have become important in image analysis. However the computational methods employed resort largely to numerical integration of the dynamical equations of electron diffraction. As a consequence, the interpretation of the results in terms of the defect displacement field and diffracting variables is difficult to follow in detail. In contrast to this type of computational approach which is based on a plane-wave expansion of the excited waves within the crystal (i.e. Darwin representation ), Wilkens assumed scattering of modified Bloch waves by an imperfect crystal. For localized defects, the wave amplitudes can be described analytically and this formulation has been used successfully to predict the black-white symmetry of images arising from small dislocation loops.


TAPPI Journal ◽  
2016 ◽  
Vol 15 (11) ◽  
pp. 731-738 ◽  
Author(s):  
KARITA KINNUNEN-RAUDASKOSKI ◽  
KRISTIAN SALMINEN ◽  
JANI LEHMONEN ◽  
TUOMO HJELT

Production cost savings by lowering basis weight has been a trend in papermaking. The strategy has been to decrease the amount of softwood kraft pulp and increase use of fillers and recycled fibers. These changes have a tendency to lower strength properties of both the wet and dry web. To compensate for the strength loss in the paper, a greater quantity of strength additives is often required, either dosed at the wet end or applied to the wet web by spray. In this pilot-scale study, it was shown how strength additives can be effectively applied with foam-based application technology. The technology can simultaneously increase dryness after wet pressing and enhance dry and wet web strength properties. Foam application of polyvinyl alcohol (PVA), ethylene vinyl alcohol (EVOH), carboxymethyl cellulose (CMC), guar gum, starch, and cellulose microfibrils (CMF) increased web dryness after wet pressing up to 5.2%-units compared to the reference sample. The enhanced dewatering with starch, guar gum, and CMF was detected with a bulk increase. Additionally, a significant increase in z-directional tensile strength of dry web and and in-plane tensile strength properties of wet web was obtained. Based on the results, foam application technology can be a very useful technology for several applications in the paper industry.


Author(s):  
Elizabeth S Baranowski ◽  
Sreejita Ghosh ◽  
Cedric HL Shackleton ◽  
Angela E Taylor ◽  
Beverly A Hughes ◽  
...  

2020 ◽  
Author(s):  
Francisco Andújar-Vera ◽  
Cristina García-Fontana ◽  
Sheila González-Salvatierra ◽  
Manuel Muñoz-Torres ◽  
Beatriz García-Fontana

Sign in / Sign up

Export Citation Format

Share Document