scholarly journals QSM reconstruction challenge 2.0: A realistic in silico head phantom for MRI data simulation and evaluation of susceptibility mapping procedures

2021 ◽  
Vol 86 (1) ◽  
pp. 526-542
Author(s):  
José P. Marques ◽  
Jakob Meineke ◽  
Carlos Milovic ◽  
Berkin Bilgic ◽  
Kwok‐Shing Chan ◽  
...  
Keyword(s):  
In Silico ◽  
Susceptibility Mapping ◽  
Data Simulation ◽  
Simulation And Evaluation

scholarly journals QSM Reconstruction Challenge 2.0–Part 1: A Realistic in silico Head Phantom for MRI data simulation and evaluation of susceptibility mapping procedures

2020 ◽  
Author(s):  
José P. Marques ◽  
Jakob Meineke ◽  
Carlos Milovic ◽  
Berkin Bilgic ◽  
Kwok-Shing Chan ◽  
...  
Keyword(s):  
In Silico ◽  
Ground Truth ◽  
Susceptibility Mapping ◽  
Quantitative Mri ◽  
Reconstruction Algorithms ◽  
Imaging Data ◽  
Post Processing ◽  
Simulation Code ◽  
Wide Range ◽  
Echo Time

AbstractPurposeTo create a realistic in-silico head phantom for the second QSM Reconstruction Challenge and for future evaluations of processing algorithms for Quantitative Susceptibility Mapping (QSM).MethodsWe created a whole-head tissue property model by segmenting and post-processing high-resolution, multi-parametric MRI data acquired from a healthy volunteer. We simulated the steady-state magnetization using a Bloch simulator and mimicked a Cartesian sampling scheme through Fourier-based post-processing. We demonstrated some of the phantom’s properties, including the possibility of generating phase data that do not evolve linearly with echo time due to partial volume effects or complex distributions of frequency shifts within the voxel. Computer code for generating the phantom and performing the MR simulation was designed to facilitate flexible modifications of the model, such as the inclusion of pathologies, as well as the simulation of a wide range of acquisition protocols.ResultsThe brain-part of the phantom features realistic morphology combined with realistic spatial variations in relaxation and susceptibility values. Simulation code allows adjusting the following parameters and effects: repetition time and echo time, voxel size, background fields, and RF phase biases. Additionally, diffusion weighted imaging data of the phantom is provided allowing future investigations of tissue microstructure effects in phase and QSM algorithms.ConclusionThe presented phantom and computer programs are publicly available and may serve as a ground truth in future assessments of the faithfulness of quantitative MRI reconstruction algorithms.

A systematic review with in silico analysis on transcriptomic profile of gallbladder carcinoma

2020 ◽  
Vol 47 (6) ◽  
pp. 398-408
Author(s):  
Sonam Tulsyan ◽  
Showket Hussain ◽  
Balraj Mittal ◽  
Sundeep Singh Saluja ◽  
Pranay Tanwar ◽  
...  
Keyword(s):  
Systematic Review ◽  
Gallbladder Carcinoma ◽  
In Silico ◽  
In Silico Analysis ◽  
Transcriptomic Profile ◽  
Silico Analysis

Common and well-documented Allele List: unverzichtbares Hilfsmittel für die moderne HLA-Typisierung

2019 ◽  
Vol 9 (04) ◽  
pp. 241-245
Author(s):  
Nils Lachmann ◽  
Diana Stauch ◽  
Axel Pruß
Keyword(s):  
In Silico ◽  
Regionale Unterschiede

ZusammenfassungDie Typisierung der humanen Leukozytenantigene (HLA) vor Organ- und hämatopoetischer Stammzelltransplantation zur Beurteilung der Kompatibilität von Spender und Empfänger wird heutzutage in der Regel molekulargenetisch mittels Amplifikation, Hybridisierung oder Sequenzierung durchgeführt. Durch die exponentiell steigende Anzahl an neu entdeckten HLA-Allelen treten vermehrt Mehrdeutigkeiten, sogenannte Ambiguitäten, in der HLA-Typisierung auf, die aufgelöst werden müssen, um zu einem eindeutigen Ergebnis zu gelangen. Mithilfe kategorisierter Allelfrequenzen (häufig, gut dokumentiert und selten) in Form von CWD-Allellisten (CWD: common and well-documented) ist die In-silico-Auflösung von Ambiguitäten durch den Ausschluss seltener Allele als mögliches Ergebnis realisierbar. Ausgehend von einer amerikanischen CWD-Liste existieren derzeit auch eine europäische, deutsche und chinesische CWD-Liste, die jeweils regionale Unterschiede in den Allelfrequenzen erkennbar werden lassen. Durch die Anwendung von CWD-Allelfiltern in der klinischen HLA-Typisierung können Zeit, Kosten und Arbeitskraft eingespart werden.

In silico strategy for the identification of cyclooxygenase inhibitors from the Thai medicinal mixture Prasaplai

Planta Medica ◽  
2010 ◽  
Vol 76 (12) ◽  
Author(s):  
B Waltenberger ◽  
D Schuster ◽  
S Paramapojn ◽  
W Gritsanapan ◽  
G Wolber ◽  
...  
Keyword(s):  
In Silico ◽  
Cyclooxygenase Inhibitors

microRNA regulation of WISP1 in pulmonary fibrosis: an in silico approach

Pneumologie ◽  
2011 ◽  
Vol 65 (12) ◽  
Author(s):  
B Berschneider ◽  
D Ellwanger ◽  
C Thiel ◽  
V Stümpflen ◽  
M Königshoff
Keyword(s):  
Pulmonary Fibrosis ◽  
In Silico ◽  
Microrna Regulation
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