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    A Metabonomics Study of Samples of Different Diseases: Investigation of Linear and Non-Linear Model by Nuclear Magnetic Resonance

    , Ph.D. Dissertation Sharif University of Technology Fathi, Fariba (Author) ; Tafazzoli, Mohsen (Supervisor)
    Abstract
    Metabonomics is a quantitative measurement of time dependent metabolic interactions for living systems in response to the pathological or genetic variations. NMR spectroscopy has emerged as a key tool for understanding metabolic processes in living systems. In this project, the study of metabolomics was performed as classification and regression on samples of parkinson’s disease, multiple sclerosis disease, celiac disease and crohn’s disease. In classification part, various methods were applied using optimal parameters.classification methods in Parkinson’s disease, multiple sclerosis disease, celiac disease and crohn’s disease were RF, CART, PLS-DA, RF and RF respectively. Based on the... 

    1H NMR based metabolic profiling in Crohn's disease by random forest methodology

    , Article Magnetic Resonance in Chemistry ; Vol. 52, issue. 7 , July , 2014 , p. 370-376 Fathi, F ; Majari-Kasmaee, L ; Mani-Varnosfaderani, A ; Kyani, A ; Rostami-Nejad, M ; Sohrabzadeh, K ; Naderi, N ; Zali, M. R ; Rezaei-Tavirani, M ; Tafazzoli, M ; Arefi-Oskouie, A ; Sharif University of Technology
    Abstract
    The present study was designed to search for metabolic biomarkers and their correlation with serum zinc in Crohn's disease patients. Crohn's disease (CD) is a form of inflammatory bowel disease that may affect any part of the gastrointestinal tract and can be difficult to diagnose using the clinical tests. Thus, introduction of a novel diagnostic method would be a major step towards CD treatment.Proton nuclear magnetic resonance spectroscopy ( 1H NMR) was employed for metabolic profiling to find out which metabolites in the serum have meaningful significance in the diagnosis of CD. CD and healthy subjects were correctly classified using random forest methodology. The classification model for... 

    Metabonomics exposes metabolic biomarkers of Crohn's disease by 1HNMR

    , Article Gastroenterology and Hepatology from Bed to Bench ; Volume 6, Issue SUPPL , 2013 , Pages S19-S22 ; 2008-4234 (EISSN) Fathi, F ; Ektefa, F ; Hagh-Azali, M ; Aghdaie, H. A ; Sharif University of Technology
    2013
    Abstract
    Metabonomics and other "omic" fields are essential science in analytical chemistry. Modern analytical instruments such as proton nuclear magnetic resonance (1H-NMR) can provide the great quantity of analytical information. In order to assign unknown samples, chemometric methods recognition build classification model based on experimental data. Firstly, some current strategies regarding disease diagnosis are exhibited in metabonomic studies. Some diseases such as crohn's disease can be difficult to diagnose since its signs and symptoms may be similar to other medical problems or often mimic other symptoms. Applications of NMR and supervised pattern recognition in the field of metabonomics are... 

    Metabonomics based NMR in Crohn's disease applying PLS-DA

    , Article Gastroenterology and Hepatology from Bed to Bench ; Volume 6, Issue SUPPL , 2013 , Pages S82-S86 ; 20082258 (ISSN) Fathi, F ; Oskouie, A. A ; Tafazzoli, M ; Naderi, N ; Sohrabzedeh, K ; Fathi, S ; Norouzinia, M ; Nejad, M. R ; Sharif University of Technology
    2013
    Abstract
    Aim: The aim of this study was to search for metabolic biomarkers of Crohn's disease (CD). Background: Crohn's disease (CD) is a type of inflammatory bowel disease that causes a wide variety of symptoms. CD can influence any part of the gastrointestinal tract from mouth to anus. CD is not easily diagnosed because monitoring tools are currently insufficient. Thus, the discovery of proper methods is needed for early diagnosis of CD. Patients and methods: We utilized metabolic profiling using proton nuclear magnetic resonance spectroscopy (1HNMR) to find the metabolites in serum. Classification of CD and healthy subject was done using partial least squares discriminant analysis (PLS-DA).... 

    NMR based metabonomics study on celiac disease in the blood serum

    , Article Gastroenterology and Hepatology from Bed to Bench ; Volume 6, Issue 4 , 2013 , Pages 190-194 ; 20082258 (ISSN) Fathi, F ; Ektefa, F ; Arefi Oskouie, A ; Rostami, K ; Rezaei Tavirani, M ; Mohammad Alizadeh, A. H ; Tafazzoli, M ; Rostami Nejad, M ; Sharif University of Technology
    2013
    Abstract
    Aim: The aim of this study is to look for the proper methods that would be a major step towards untreated CD diagnosis and seek the metabolic biomarkers causes of CD and compare them to control group. Background: Celiac disease (CD) is a common autoimmune disorder that is not easily diagnosed using the clinical tests. Patients and methods: Thirty cases and 30 controls were entered into this study. Metabolic profiling was obtained using proton nuclear magnetic resonance spectroscopy (1HNMR) to seek metabolites that are helpful for the detection of CD. Classification of CD and healthy subject was done using random forest (RF). Results: The obtained classification model showed an 89% correct... 

    Early detection of immunization: A study based on an animal model using 1H nuclear magnetic resonance spectroscopy

    , Article Pakistan Journal of Biological Sciences ; Volume 14, Issue 3 , 2011 , Pages 195-203 ; 10288880 (ISSN) Zamani, Z ; Arjmand, M ; Tafazzoli, M ; Ghohzadeh, A ; Pourfallah, F ; Sadeghi, S ; Mirzazadeh, R ; Mirkham, F ; Tahen, S ; Iravam, A ; Bayat, P ; Vahabi, F ; Sharif University of Technology
    2011
    Abstract
    Vaccines require a period of at least three months for clinical trials, hence a method that can identify elicitation of immune response a few days after the first dose is a necessity. Evolutionary variable selections are modeling approaches for proper manipulation of available data which were used to set up an animal model for classification of time dependent 'HNMR metabolomic profiles and pattern recognition of fluctuations of metabolites in two groups of male rabbits. One group of rabbits was immunized with human red blood cells and the other used as control. Blood was obtained every 48 h from each rabbit for a period of six weeks and the serum monitored for antibodies and metabolites by...