After visual inspection for acquisition artifacts including movement distortions, high-resolution structural T1-weighted images were used as an anatomical reference, and for co-registration during multiple data processing steps, including to T2-FLAIR image space and diffusion image space, as well as between anatomical template space and diffusion space utilized in subsequent processing. Additionally, to covary for differences in head size, intracranial volume was derived by manually tracing 9 coronal slices (every 12th slice) using Analyze version 12.0 (AnalyzeDirect, Overland Park, KS), summing these slices into an area, and multiplying by slice thickness to create volume in mm3 (as in Raz et al., 2004 (link)).
Analyze version 12
Manufactured by AnalyzeDirect
Analyze version 12.0 is a laboratory equipment product designed for data analysis and processing. It provides core functionalities for handling and interpreting scientific data.
Automatically generated - may contain errors
Lab products found in correlation
2 protocols using analyze version 12
1
Structural and Diffusion Image Registration
2
Quantitative Lung Tumor Imaging in Mice
Check if the same lab product or an alternative is used in the 5 most similar protocols
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Mice were scanned 1 day before start of treatment and on the last day of treatment. Mice were anesthetised by inhalation of isoflurane (Abbott Labs) and CT scanned using the Quantum GX2 microCT imaging system (Perkin Elmer). Breathing rate and body temperature were measured throughout the scan using in-built physiological monitoring devices. Scanning parameters were as follows: copper and aluminium filter 0.06 mm + 0.5 mm, respectively, 1° rotation step over 360°, source current 40 μA, source voltage 90 kV, image isotropic pixel size 50 μm. Scan mode at High Speed & Gating 4 min. Gating technique set at respiratory gating. Lung images were grouped into bins based on the respiratory cycle and images reconstructed using the Quantum GX2 programme with parameters set at Acquisition FOV 36 mm and Recon FOV 25 mm. Estimations of lung tumour volumes were generated by highlighting 3D ROIs in the imaging programme Analyze, version 12.0, from AnalyzeDirect.
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