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These analyses were conducted using IMa [ 56] by running an initial M-mode run with the identical settings to the IM runs (full 6-parameter model) and sampling 3*105 genealogies followed by a subsequent L-mode run analyzing all possible nested models.
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The performance of the HBM and MLM is illustrated using two simulated examples with the identical simulation settings but different number of random effects.
The analyses were conducted with identical settings to those used for the estimation of divergence time, with the exception that the prior tree was set as the coalescent: Bayesian Skyline.
Like-stained wild-type and homozygous mutant samples were mounted on the same microscope slide and were imaged in the same session, with identical settings.
On the fluorescence microscope, the background fluorescence was set to a barely detectable level by adjusting the gain of the CCD camera before all the images were captured with identical settings.
Thus, Wen B., an IT consultant in Nanjing, mentioned that when he and his colleague shared their respective wedding photos on WeChat the most popular social media platform in China they were not surprised that they had used the same studio, opted for the same package, and ended up with almost identical settings and backdrops.
Controls with incubations of solitary secondary antibodies were carried out routinely with identical settings of the microscope.
The DrugBank small molecules subset was downloaded from www.drugbank.ca/downloads and submitted to conformational analysis using DiscoveryStudio 2.5, using the Build 3D Database protocol with identical settings as described for the ChEMBL database.
Randomly selected images for spinal neurons were digitally-processed by ImageJ 1.39u (NIH) to demarcate the outline of the cell body, and fluorescent intensities for p62 signals within the demarcated area (corresponding to the cell body for the single cell) were measured using the fluorescence microscopy (Leica) with identical settings.
A hierarchical cluster analysis with identical settings to the method we developed was applied, and the genes were clustered into 16 categories using the default cluster number formula described above (see Section 2).
All preparations were processed in parallel and images acquired with identical settings using the 40× or 50× (zoomed 1 4×) objectives of a Leica TCS SP2 confocal microscope.
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