Update media.md

media.md

@@ -59,6 +59,9 @@ MRI is an extremely versatile modality that allows us to acquire 3D images of th
 
 ### Diffusion MRI
 We have a long research history in **diffusion MRI** (dMRI) which, by tracking the motion of water within the brain tissue, enables us to reconstruct the 3D anatomy of the brain white matter (**tractography**), identify the different neural connections between cortical regions of the brain (**connectivity**), and quantify the tissue composition at every voxel (**microstructure imaging**), e.g. quantity and size of cells, axons, myelin, etc.. When multiple MRI contrasts are acquired of the same brain we refer to **multi-dimensional MRI** analysis. These analyses not only are of clinical relevance but are also fundamental in basic **neuroscience** where they can be integrated with different other types of modalities such as functional and metabolic imaging as well as other non-MRI imaging techniques.
+[Dyrby et al., 2018, Neuroimage] (https://doi.org/10.1016/j.neuroimage.2018.06.049)
+[Alexander et al., 2019, NMR in Biomedicine] (https://doi.org/10.1002/nbm.3841)
+[Maier-Heinn et al., 2017, Nature Communications] (https://doi.org/10.1038/s41467-017-01285-x)
 
 ![MRI denoising.](images/brain_imaging_denoising.png)
 
@@ -67,9 +70,14 @@ A key aspect of quantitative imaging is precision, for which the attenuation of
 
 ### Synchrotron imaging for validation and prediction models of diffusion MRI
 **X-ray synchrotron imaging** uses a large-scale synchrotron research facility that basically can be seen as a gigantic nano-scope to create unique 3D images of intact tissue samples. There exist different synchrotron facilities in the world and we mostly use the MAXIV in Sweden, the ESRF in France, and the Swiss Light Source (SLS) in Switzerland etc.. Each synchrotron facility has different beamlines with highly specialized experimental setups, some of which allow us to observe anatomical features with nanometer resolution. As an example, we use phase-contrast imaging to map 3D anatomical morphology and architecture of axons, their myelin, and cell bodies, as well as the effects of pathology. We develop methods to segment, analyze and quantify 3D morphology and architecture features from synchrotron images. These are used for the prediction and validation of microstructural estimates obtained from the low-image resolution MRI scannings i.e., diffusion MRI.
+[Andersson et al 2020, PNAS] (https://doi.org/10.1073/pnas.2012533117)
+[Andersson et al 2022, Neuroimage] (https://doi.org/10.1016/j.neuroimage.2021.118718)
+[Pingel et al 2022, Scientific Reports] (https://doi.org/10.1038/s41598-022-21741-z)
 
 ### Light-sheet Fluorescence microscopy is crosslinked with MRI 
 Light-Sheet Fluorescence microscopy imaging is a microscope technique that can generate 3D images of fluorescence-labeled substances of whole rodent brains. To scan a brain with light we first need to make the brain transparent and we use the DISCO+ technique where the brain becomes hard like a glass brain. The tissue-clearing technique introduces non-linear deformations of the tissue making it hard to align with standard brain atlases such as the world-known Allan Mouse Atlas (AIBS CCFv3). With collaborators, we are creating a framework to non-linearly align the 3D light-sheet images to the Allan Mouse Atlas as well as to MRI e.g. diffusion MRI. This allows us to find a voxel-by-voxel correspondence between modalities which enables a rigorous cross-modality image correlation analysis.
+[Johanna et al 2021, Neuroinfomatics] (https://doi.org/10.1007/s12021-020-09490-8)
+[Johanna et al 2022, Research Square] (https://doi.org/10.21203/rs.3.rs-1832101/v1)