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For the experiments looking at Nrp2 expression over developmental time by tissue sectioning in Figure 3, identical processing, immunostaining and image acquisition procedures and settings were used.
A constant high level of agreement between RCs probably requires the development of a quality control programme and RCs may need to consider establishing and maintaining cooperative programs to harmonise their measuring and grading procedures and settings.
The extracted data included study design and methodology (including randomisation procedures and settings), participants' characteristics, details of the interventions, dropouts and withdrawals, and outcome measure's change from baseline to endpoint.
Because the samples were obtained according to normal clinical procedures and settings, they may include proteins that were at least partially digested, proteolysed, or degraded during sample handling (Richter et al. 1999).
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In this study we have improved a set of experimental procedures and software settings that permits the quantification of mitosis, ploidy, supernumerary centrosomes and apoptotic cell death by fluorescence (video microscopy coupled to automated image analysis.
The impact of different procedures and experimental settings on results is shown, evidencing the need for scientifically consistent and internationally agreed procedures.
Although previous investigators have depicted protocols for producing uniformly sized MBs [ 24], methods that often involve several preparation procedures and parameter settings, in this study we produced different-sized MBs through a simple laboratory method by adjusting the concentration of albumin and dextrose.
The procedure and parameter settings are given in the Appendix.
For each marker, the microscope and the camera were calibrated according to a standardized procedure and these settings were used for all biopsies.
To compare XBSeq and DESeq under circumstances with increased non-exonic mapped reads, we carried out the simulation to generate low, intermediate, and high levels of non-exonic mapped reads (see Methods section for detailed simulation procedure and parameter settings).
Assembling these sequences using the same procedure and threshold settings as for HvPG and HvLN resulted in a total of 3,947 gene objects, 2,153 (55%) of which were singletons.
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