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The cultural probe packages included local and world maps, postcards, disposable camera, photo album and a diary.
Similar commercially available optical probe packages, such as those from NeuroNexus (50 or 105- μm core fiber attached to a linear silicon probe with 16 electrical recording sites) [ 33], and an optetrode consisting of four microwires surrounding a multimode optical fiber [ 34] were also utilized successfully.
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Kinetic parameters were obtained from the Shimadzu UV Probe software package.
We used Version 1.0.0 of the "PROBE distribution" packages.
The diaphragm size is 0.8 mm × 0.8 mm and the probe is packaged with parylene of 0.25-μm thickness.
The distal end of the detachable probe is packaged with a high resolution lens, CMOS sensor, and four LEDs.
Genetrix uses the Probe Profiler package and performs a GeneScreen analysis using Cox regression.
R libraries of the probe and CDF packages, and annotation of the remapped probe sets are provided in Additional File 3. The probe remapping protocol is implemented in a Perl script, and provided in Additional File 4. Exlink, the gene definition proposed by Ensembl was used in the study in order to organize transcripts from multiple databases [ 6].
Quality control of the array data was performed using the BioConductor "oligo package" probe level models (Gentleman et al. 2004; Carvalho and Irizarry 2010; Draghici 2012) and using the experimental metrics report provided by NimbleGen (Roche Nimblegen 2011).
To analyze jointly differences between breeds and gestational ages, the following mixed linear model was fitted to each probe (R nlme package, lme function [ 50]): 1 with i∈{ d90, d110}, j∈{ L W, M S, L W M S, M S L W}, k=1,…18, independent and identically distributed (iid) and iid.
A commercially available scanning probe image processor v5.110 software package from Image Metrology (Horsholm, Denmark) was used to measure the height and diameter distributions of the Ag nano-particles.
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