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 +====== CEST sources ====== 
 +Welcome to //CEST sources//! CEST stands for Chemical Exchange Saturation Transfer, a Magnetic Resonance Imaging ([[http://en.wikipedia.org/wiki/MRI|MRI]]) technique which promises insight into pathologies on a molecular level. If you want to know more about CEST, find details in the [[CEST intro]] or [[the reviews]]. //CEST sources// is a project to share code, link resources, and bundle knowledge about CEST. //CEST sources// is intended for helping researchers and students in the field of CEST and magnetization transfer. Most code is in Matlab but we try to upload other implementations, too.
  
 +==== Overview====
 +Find below the different sections of CEST sources. For now the focus is on Z-spectra evaluation methods, and Z-spectra simulation and fitting. Each subsection contains links to code and video tutorials. All code is kept simple to be easily adjustable for your scientific question. If you have a suggestion for a video tutorial feel free to [[http://www.kyb.tuebingen.mpg.de/nc/de/employee/details/mzaiss.html|contact us]]. 
 +
 +Download links to all packages can be found on the github page [[https://github.com/cest-sources|github.com/cest-sources]]. ([[About github]])
 +
 +===== - Data evaluation tools =====
 +
 +==== - Image data preprocessing - Normalization, B0 correction, Lorentzian fitting, and contrast computation====
 +
 +{{::cest_eval.png?direct&200|}} [[CEST_eval|CEST data evaluation tool]]
 +
 +
 +
 +==== - Z-spectra B1-correction ====
 +
 +{{::b1_corr.png?direct&200|}}[[B1-correction|Correction for B1 inhomogeneity artifacts in CEST images]]
 +
 +
 +===== - Analytical solutions of the Bloch-McConnell equations =====
 +Here you find Z-spectrum simulations in the case of a two and three pool systems under continous wave (cw) irradiation. For a two pool system also the solution for pulsed spinlock irradiation is given.
 +
 +{{::z_cw_b1.png?160|}}[[Analytic Z-spectra-cw-2pool|Analytical solution for 2-pools under cw irradiation]]      
 +
 +{{::z_cw_b1_mt.png?160|}}
 +[[Analytic Z-spectra-cw-3pool|Analytical solution for 3-pools under cw irradiation: water, CEST and semi-soild MT]] 
 +
 +{{::z_plsd_b1.png?160|}}
 +[[Analytic Z-spectra - pulsed SL|Analytical solution for 2-pools under pulsed spin-lock irradiation (ISAR2)]]
 +
 +===== - Full numerical solutions of the Bloch-McConnell equations =====
 +
 +{{::bm.png?direct&250|}}[[BM_sim_fit|Full numerical Bloch-McConnell solution]]
 +
 +===== - Quantitative CEST =====
 +Here you find methods for CEST quantification. This means to achieve access to the CEST pool parameters as defined in the Bloch-McConnell equations such as exchange rate, concentration and transverse relaxation of the CEST site.
 +
 +{{::b1fit.png?direct&160|}}[[Multi-B1-fit-cw|CEST quantification by a Multi-B1-fit under cw irradiation - 2 pools]]
 +
 +===== - CEST Theory =====
 +Here you find some Mupad codes for getting more theoretical insight into the eigenspace solution that forms the analytical CEST solution. 
 +
 +{{::bm.png?direct&250|}}[[Bloch-McConnell-Theory|Bloch, Bloch-McConnell, and CEST-Theory]]
 +
 +
 +===== - standard CEST protocols  =====
 +For reproducible CEST we need to agree on some standard protocols.
 +Find a collection of used sequences here.
 +[[standard CEST protocols]] 
 +
 +
 +
 +===== - Literature =====
 +
 +[[CEST intro]] 
 +
 +[[the reviews]]
 +
 +[[glucoCEST]]
 +
 +----
 +----
 +{{ ::logo_dkfz.png?direct&250|}}
 +//CEST sources// was initiated 2014 at the [[http://www.dkfz.de/en/index.html|German Cancer Research Center (DKFZ)]], Heidelberg Germany  by the project group CEST imaging.
 +
 +{{ ::kyblogo.jpg?100|}} {{ ::wordmark-full.png?150|}}
 +
 +It is now hosted at [[http://www.kyb.tuebingen.mpg.de/nc/employee/details/mzaiss.html|Max Planck Institute for Biological Cybernetics]], Tübingen and part of the european [[http://www.eibir.org/projects/h2020-projects/glint/|GLINT project]].
 +If you want to publish or link to code here, too, feel free to [[http://www.kyb.tuebingen.mpg.de/nc/employee/details/mzaiss.html|contact us]]. 
 +
 +[[Impressum]]
 + 
 +----