En
  • دکتری (1388)

    ریاضی

    شهید بهشتی، تهران، ایران

  • کارشناسی‌ارشد (1383)

    ریاضی

    شهید بهشتی، تهران، ایران

  • کارشناسی (1381)

    ریاضی

    شهید بهشتی، تهران، ایران

  • بیوانفورماتیک و علوم داده
  • نظریه بازی
  • آزمایشگاه زیست محاسباتی

    زمینه های پژوهشی:

    کارشناس مسئول:

    تلفن:

    مکان: تهران - جلال ال احمد - پل نصر- دانشگاه تربیت مدرس

اینجانب در سال 1388 دکتری خود را از دانشگاه شهید بهشتی اخذ کرده سپس به مدت 4 سال در دانشگاه علوم پزشکی شهید بهشتی مشغول به کار شدم. از 1393 تاکنون عضو هیات علمی دانشگاه تربیت مدرس می باشم. بیوانفورماتیک، زیست شناسی سامانه ای، نظریه بازیها و علوم داده از حوزه های مورد علاقه من می باشد.

ارتباط

رزومه

Amino acids targeted based metabolomics study in non-segmental Vitiligo: a pilot study

Rezvan Marzabani, Hassan Rezadoost, Peyman Chopanian, Nikoo Mozafari, Mohieddin Jafari, Mehdi Mirzaie, Mehrdad Karimi
Journal PapersbioRxiv , 2021 January 5, {Pages 2021.01. 04.425209 }

Abstract

Introduction: Vitiligo is an asymptomatic disorder which results from losing pigments (melanin), and causes skin blemishes or mucous, and impairs beauty. Objective: The pathogenesis of Vitiligo is complicated, and several possibilities were suggested including self-safety, oxidative stress, neurological, and internal defects of melanocytes. However, it is well-known that the metabolism of pigments plays a significant role in the pathogenicity of the disease. The present study aimed to explore the role of amino acids in this disorder using targeted metabolomics for amino acids in order to find possible biomarkers for dialogizing and evaluating disease severity among patients. Methodology: The amino acid profile was studied in plasma samples

Metabolomic Signature of Amino Acids in Plasma of Patients with non-segmental Vitiligo

Rezvan Marzabani, Hassan Rezadoost, Peyman Choopanian, Sima Kolahdooz, Nikoo Mozafari, Mehdi Mirzaie, Mehrdad Karimi, Anni I Nieminen, Mohieddin Jafari
Journal PapersbioRxiv , 2021 January 1, {Pages }

Abstract

Introduction: Vitiligo is an asymptomatic disorder which results from losing pigments (melanin), and causes skin blemishes or mucous, and impairs beauty. Objective: The pathogenesis of Vitiligo is complicated, and several possibilities were suggested including self-safety, oxidative stress, neurological, and internal defects of melanocytes. However, it is well-known that the metabolism of pigments plays a significant role in the pathogenicity of the disease. The present study aimed to explore the role of amino acids in this disorder using targeted metabolomics for amino acids in order to find possible biomarkers for dialogizing and evaluating disease severity among patients. Methodology: The amino acid profile was studied in plasma samples

Facilitating the design of combination therapy in cancer using multipartite network models: Emphasis on acute myeloid leukemia

Mohieddin Jafari, Mehdi Mirzaie, Jie Bao, Farnaz Barneh, Shuyu Zheng, Johanna Eriksson, Jing Tang
Journal PapersbioRxiv , 2021 January 1, {Pages }

Abstract

From the drug discovery perspective, combination therapy is recommended in cancer due to efficiency and safety compared to the common cytotoxic and single-targeted monotherapies. However, identifying effective drug combinations is time- and cost-consuming. Here, we offer a novel strategy of predicting potential drug combinations and patient subclasses by constructing multipartite networks using drug response data on patient samples. In the present study, we used Beat AML and GDSC, two comprehensive datasets based on patient-derived and cell line-based samples, to show the potential of multipartite network modeling in cancer combinatorial therapy. We used the median values of cell viability to compare drug potency and form a weighted biparti

IrGO: Iranian traditional medicine General Ontology and knowledge base

Ayeh Naghizadeh, Mahdi Salamat, Donya Hamzeian, Shaghayegh Akbari, Hossein Rezaeizadeh, Mahdi Alizadeh Vaghasloo, Reza Karbalaei, Mehdi Mirzaie, Mehrdad Karimi, Mohieddin Jafari
Journal PapersJournal of Biomedical Semantics , Volume 12 , Issue 1, 2021 December , {Pages 11-Jan }

Abstract

Iranian traditional medicine, also known as Persian Medicine, is a holistic school of medicine with a long prolific history. It describes numerous concepts and the relationships between them. However, no unified language system has been proposed for the concepts of this medicine up to the present time. Considering the extensive terminology in the numerous textbooks written by the scholars over centuries, comprehending the totality of concepts is obviously a very challenging task. To resolve this issue, overcome the obstacles, and code the concepts in a reusable manner, constructing an ontology of the concepts of Iranian traditional medicine seems a necessity. Makhzan al-Advieh, an encyclopedia of materia medica compiled by Mohammad Hossein

Extracting Potential New Targets for Treatment of Adenoid Cystic Carcinoma Using Bioinformatic Methods

TF Pordanjani, B Dabirmanesh, P Choopanian, M Mirzaie, S Mohebbi, ...
Journal Papers , , {Pages }

Abstract

Nkx3-1 and Fech Genes Might be Switch Genes Involved in Pituitary Non-Functioning Adenoma Invasiveness

N Khayer, M Jalessi, A Jahanbakhshi, M Mirzaie
Journal Papers , , {Pages }

Abstract

Serum metabolomics study of women with different annual decline rates of anti-Müllerian hormone: an untargeted gas chromatography–mass spectrometry-based study

N Moslehi, P Mirmiran, R Marzbani, H Rezadoost, M Mirzaie, F Azizi, ...
Journal Papers , , {Pages }

Abstract

Identification of key genes and convergent pathways disrupted in autism spectrum disorder via comprehensive bioinformatic analysis

M Rahnama, HA Tehrani, M Mirzaie
Journal Papers , , {Pages }

Abstract

Proteomics analysis of trastuzumab toxicity in H9c2 cardiomyoblast cell line and its inhibition by carvedilol.

E Beiranvand, F Torkashvand, SN Ostad, M Mirzaie, EM Ardakani, F Zandi, S Sardari, GH Salekdeh, MA Shokrgozar, B Vaziri
Journal PapersCurrent Pharmaceutical Biotechnology , 2020 May 15, {Pages }

Abstract

Heart dysfunctions are the major complications of trastuzumab in patients with human epidermal growth factor receptor-2 (HER2)-positive breast cancers. In this study, the cytotoxicity of trastuzumab on H9c2 cardiomyoblasts was demonstrated, and the proteome changes of cells were investigated by a tandem mass tagging quantitative approach. The differentially abundant proteins (DAPs) were identified and functionally enriched. We determined that carvedilol, a non-selective beta blocker, could effectively inhibit trastuzumab toxicity when administrated in a proper dose and at the same time. The proteomics analysis of carvedilol cotreated cardiomyoblasts showed complete or partial reversion in expressional levels of trastuzumab-induced DAPs. Dow

Structural analysis

Tomasz Zok, Mariusz Popenda, Marta Szachniuk, Martin Raden, Teresa M?ller, Stefan Mautner, Rick Gelhausen, Rolf Backofen, Vincent Demolombe, Alexandre G de Brevern, Franck Molina, G?raldine Lavigne, Claude Granier, Violaine Moreau, Huiwen Wang, Jiadi Qiu,
Journal PapersBMC Bioinformatics , Volume 21 , 2020 January , {Pages 40 }

Abstract

This section incorporates all aspects of structural analysis including but not limited to: methods and applications for the analysis of biological structures, protein structural and biophysical analysis, and structure-based drug design.

Molecular Network Analysis in Rabies Pathogenesis using Cooperative Game Theory

Razieh Bostani, Mehdi Mirzaie
Journal PapersIranian Journal of Biotechnology , 2020 August 18, {Pages }

Abstract

Background: Recently, many researchers from different fields of science have been used networks to analyze complex relational big data. The identification of which nodes are more important than the others, known as centrality analysis, is a key issue in biological network analysis. Although, several centralities have been introduced degree, closeness, and betweenness centralities are the most popular. These centralities are based on the individual position of each node and the cooperation and synergies between nodes have been ignored. Objectives: Since in many cases, the network function is a consequence of cooperation and interaction between nodes, classical centralities were extended to a group of nodes instead of only individual nodes us

Optimal control and differential game solutions for social distancing in response to epidemics of infectious diseases on networks

Mehdi Mirzaie Mohammadali Dashtbali, Alaeddin Malek
Journal PapersOptimal Control, Applications and Methods , 2020 August 2, {Pages }

Abstract

In this paper, the problem of social distancing in the spread of infectious diseases in the human network is extended by optimal control and differential game approaches. Hear, SEAIR model on simulation network is used. Total costs for both approaches are formulated as objective functions. SEAIR dynamics for group k that contacts with k individuals including susceptible, exposed, asymptomatically infected, symptomatically infected and improved or safe individuals is modeled. A novel random model including the concept of social distancing and relative risk of infection using Markov process is proposed. For each group, an aggregate investment is derived and computed using adjoint equations and maximum principle. Results show that for each gr

Rps27a might act as a controller of microglia activation in triggering neurodegenerative diseases

Nasibeh Khayer, Mehdi Mirzaie, Sayed-Amir Marashi, Maryam Jalessi
Journal PapersPlos one , Volume 15 , Issue 9, 2020 September 17, {Pages e0239219 }

Abstract

Neurodegenerative diseases (NDDs) are increasing serious menaces to human health in the recent years. Despite exhibiting different clinical phenotypes and selective neuronal loss, there are certain common features in these disorders, suggesting the presence of commonly dysregulated pathways. Identifying causal genes and dysregulated pathways can be helpful in providing effective treatment in these diseases. Interestingly, in spite of the considerable researches on NDDs, to the best of our knowledge, no dysregulated genes and/or pathways were reported in common across all the major NDDs so far. In this study, for the first time, we have applied the three-way interaction model, as an approach to unravel sophisticated gene interactions, to tra

Serum metabolomics study of women with different annual decline rates of anti-M?llerian hormone: an untargeted gas chromatography–mass spectrometry-based study

Nazanin Moslehi, Parvin Mirmiran, Rezvan Marzbani, Hassan Rezadoost, Mehdi Mirzaie, Fereidoun Azizi, Fahimeh Ramezani Tehrani
Journal PapersHuman Reproduction , 2020 December 15, {Pages }

Abstract

STUDY QUESTION Which metabolites are associated with varying rates of ovarian aging, measured as annual decline rates of anti-M?llerian hormone (AMH) concentrations? SUMMARY ANSWER Higher serum concentrations of metabolites of phosphate, N-acetyl-d-glucosamine, branched chained amino acids (BCAAs), proline, urea and pyroglutamic acid were associated with higher odds of fast annual decline rate of AMH. WHAT IS KNOWN ALREADY Age-related rate of ovarian follicular loss varies among women, and the factors underlying such inter-individual variations are mainly unknown. The rate of ovarian aging is clinically important due to its effects on both reproduction and health of women. Metabolomics, a global investigation of metabolites in biological sa

A Compartmental Model that Predicts the Effect of Social Distancing and Vaccination on Controlling COVID-19

Mohammadali Dashtbali, Mehdi Mirzaie
Journal Papers , 2020 November 10, {Pages }

Abstract

The understanding of the interaction between disease dynamics and human behavior is an important and essential point to control infectious. Disease outbreak can be influenced by social distancing and vaccination. In this study, we introduce two compartmental models to derive the epidemic curve and analyze the individual’s behavior in spreading and controlling the COVID-19 epidemic. The first model includes Susceptible, Exposed, Infectious, Hospitalized, Recovered and Death compartments and in the second model, we added a new compartment namely, semi-susceptible individuals that are assumed to be more immune than the susceptible. A comparison of the two models shows that the second model provides a better fit to the daily infected cases fr

Discrimination power of knowledge-based potential dictated by the dominant energies in native protein structures

Mehdi Mirzaie
Journal PapersAmino acids , 2019 May 16, {Pages 10-Jan }

Abstract

Extracting a well-designed energy function is important for protein structure evaluation. Knowledge-based potential functions are one type of the energy functions which can be obtained from known protein structures. The pairwise potential between atom types is approximated using Boltzmann’s law which relates the frequency of atom types to its potential. The total energy is approximated as a summation of pairwise potential between the atomic pairs. In the present study, the performance of knowledge-based potential function was assessed based on the strength of interaction between groups of amino acids. The dominant energies involved in the pairwise potentials were revealed by eigenvalue analysis of the matrix, the elements of

UNaProd: A Universal Natural Product Database for Materia Medica of Iranian Traditional Medicine

Ayeh Naghizadeh, Donya Hamzeheian, Jehad Aldahdooh, Shaghayegh Akbari, Fahimeh Mohammadi, Tohid Otoufat, Saeme Asgari, Azadeh Zarei, Samane Noroozi, Najmeh Nasiri, Mahdi Salamat, Reza Karbalaei, Mehdi Mirzaie, Hossein Rezaeizadeh, Jing Tang, Mehrdad Karim
Journal Papers , 2019 May 8, {Pages }

Abstract

As a holistic medical school, Iranian traditional medicine (ITM) considers the human body as a dynamic and intricate network of interconnecting processes. Currently, systems biology and more precisely systems medicine and pharmacology can be an aid in providing rationalizations for many traditional medications and treatments and elucidating a great deal of knowledge they can offer to guide future research in medicine. Therefore, re-organization and standardization of traditional medicine data are requested more than ever before. To address this issue, we have constructed UNaProd, a Universal Natural Product database for materia medica of ITM. Primarily based on Makhzan al-Advieh, which is the most recent encyclopedia of materia medica in IT

Protein complex prediction: A survey

Javad Zahiri, Abbasali Emamjomeh, Samaneh Bagheri, Asma Ivazeh, Ghasem Mahdevar, Hessam Sepasi Tehrani, Mehdi Mirzaie, Barat Ali Fakheri, Morteza Mohammad-Noori
Journal Papers , 2019 January 17, {Pages }

Abstract

Protein complexes are one of the most important functional units for deriving biological processes within the cell. Experimental methods have provided valuable data to infer protein complexes. However, these methods have inherent limitations. Considering these limitations, many computational methods have been proposed to predict protein complexes, in the last decade. Almost all of these in-silico methods predict protein complexes from the ever-increasing protein–protein interaction (PPI) data. These computational approaches usually use the PPI data in the format of a huge protein–protein interaction network (PPIN) as input and output various sub-networks of the given PPIN as the predicted protein complexes. Some of these methods have al

Do signaling networks and whole-transcriptome gene expression profiles orchestrate the same symphony?

Mehran Piran, Reza Karbalaee, Mehrdad Piran, Mehdi Mirzaie, Naser Ansari-Pour, Jing Tang, Mohieddin Jafari
Journal PapersbioRxiv , 2019 January 1, {Pages 643866 }

Abstract

Studying relationships among gene-product expression profiles is a common approach in systems biology. Many studies have generalized this subject to different levels of the central dogma information flow and assumed correlation of transcript and protein expression levels. All these efforts have updated the signaling network models and expanded the current signaling databases, which include interactions among the gene-products extracted based on either the literature or direct and indirect experiments. In fact, due to unavailability or high-cost of the experiments, most of the studies do not look for the direct interactions (gene-protein or protein-protein) and some of them are contradictory. In addition, it is now a standard practice to und

Revisiting Temperaments with a Fine-Tuned Categorization Using Iranian Traditional Medicine General Ontology

Ayeh Naghizadeh, Donya Hamzeheian, Shaghayegh Akbari, Hossein Rezaeizadeh, Mahdi Alizadeh Vaghasloo, Mehdi Mirzaie, Mehrdad Karimi, Mohieddin Jafari
Journal Papers , 2019 November 3, {Pages }

Abstract

Background: Iranian traditional medicine is a holistic school of medicine with a long prolific history. It describes numerous concepts and the relationships between them. However, no unified terminology has been proposed for the concepts of this medicine up to the present time. Considering the extensive use of concepts in the numerous textbooks written by the scholars over centuries, comprehending the totality of the terminology is obviously a very challenging task. To resolve this issue and overcome the obstacles, and code the concepts in a reusable manner, constructing an ontology of the concepts of Iranian traditional medicine seems a necessity. Methods: Makhzan al-Advieh, an encyclopedia of materia medica compiled by Mohammad Hossein Ag

دروس نیمسال جاری

    داده ای یافت نشد

دروس نیمسال قبل

    داده ای یافت نشد
  • 1397
    غلامي, محبوبه
    بررسي روش هاي تحليل داده هاي ترنسكريپتوم در پشه هاي آنوفل
  • 1396
    محمدسلطاني, نسرين
    تشخيص انجمن ها در شبكه هاي پيچيده بر اساس نظريه بازي ها
    داده ای یافت نشد
    داده ای یافت نشد

مهم

جدید

    اطلاعیه ای درج نشده است