Manually quantified counts from the microscope were plotted into patients’ individual scans with Adobe Photoshop
TM. In the next step these results were manually transposed from the individual scans to an average brain (
Supplementary Fig. 1). These average brain data were then quantified with ImageJ at a resolution of 10 000 pixels/image and imported into IBM SPSS
TM. The raw results were then corrected for the area that the regions of interest covered on each individual patient’s Klüver-Pas scan, to control for variation of section level within the mid-thalamus and interindividual variation. Venous density was determined in a 7 T MRI venous atlas of the normal human brain (
Fig. 1G) (
Grabner
et al., 2014
), based on venous-sensitive susceptibility weighted imaging. A corridor of ∼1 cm adjacent to border zones of the anterior-, medial-, posterior- cerebral and anterior choroidal arterial territory was considered as watershed area (
Fig. 1I) (
van der Zwan and Hillen, 1991 (
link)
). Iron content in different brain regions was depicted by Turnbull staining (
Fig. 1H) (
Hametner
et al., 2013
). Structures in the fissura longitudinalis cerebri, in the sulcus lateralis and individual sulci were considered as areas with low CSF flow (
Fig. 1I).
Haider L., Zrzavy T., Hametner S., Höftberger R., Bagnato F., Grabner G., Trattnig S., Pfeifenbring S., Brück W, & Lassmann H. (2016). The topograpy of demyelination and neurodegeneration in the multiple sclerosis brain. Brain, 139(3), 807-815.
