Ali MotahharyniaIsfahan University of Medical Sciences · Alzahra-Hospital
Ali Motahharynia
Doctor of Medicine
About
18
Publications
35,808
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33
Citations
Introduction
I am a medical doctor with a background in computational neuroscience and systems biology. Driven by a passion for brain emulation, I've gained experience in computational neuroscience, artificial intelligence, and wet lab techniques. My research includes designing novel drugs using large language models, computational modeling of memory impairment in patients with multiple sclerosis, and investigating the role of olfactory receptors in kidney fibrosis through both in silico and in vivo methods.
Additional affiliations
October 2022 - October 2024
February 2020 - July 2024
February 2017 - September 2020
Education
February 2015 - June 2022
Publications
Publications (18)
Working memory (WM) is one of the most affected cognitive domains in multiple sclerosis (MS), which is mainly studied by the previously established binary model for information storage (slot model). However, recent observations based on the continuous reproduction paradigms have shown that assuming dynamic allocation of WM resources (resource model...
Traditional drug design faces significant challenges due to inherent chemical and biological complexities, often resulting in high failure rates in clinical trials. Deep learning advancements, particularly generative models, offer potential solutions to these challenges. One promising algorithm is DrugGPT, a transformer-based model, that generates...
Target discovery is crucial in drug development, especially for complex chronic diseases. Recent advances in high-throughput technologies and the explosion of biomedical data have highlighted the potential of computational druggability prediction methods. However, most current methods rely on sequence-based features with machine learning, which oft...
Olfactory receptors (ORs) which are mainly known as odor-sensors in the olfactory epithelium are shown to be expressed in several non-sensory tissues. Despite the specified role of some of these receptors in normal physiology of the kidney, little is known about their potential effect in renal disorders. In this study, using the holistic view of sy...
When studying the working memory (WM), the ‘slot model’ and the ‘resource model’ are two main theories used to describe how information retention occurs. The slot model shows that WM capacity consists of a certain number of predefined slots available for information storage. This theory explains that there is a binary condition during information r...
The ‘slot model’ and ‘resource model’ are two well-established theories used to explain working memory (WM) organization. With newer computational models suggesting that WM may not strictly conform to one model, this study aimed to understand the relationship between these models. By implementing correlational assessments of subject performances in...
Working memory (WM) is one of the most affected cognitive domains in multiple sclerosis (MS), which is mainly studied by the previously established binary model for information storage (slot model). However, recent observations based on the continuous reproduction paradigms have shown that assuming dynamic allocation of WM resources (resource model...
Delayed radiation myelopathy (DRM) is a rare yet severe complication of radiotherapy. This condition has a progressive pattern that is often irreversible. Several therapeutic strategies have been introduced to alleviate disease complications, including corticosteroids, hyperbaric oxygen, anticoagulants, and antivascular endothelial growth factor (V...
Working memory (WM) is one of the most affected cognitive domains in multiple sclerosis (MS), which is mainly studied by the previously established binary model for information storage (slot model). Recent observations based on the continuous reproduction paradigms showed that assuming dynamic allocation of WM resources (resource model) instead of...
ELife digest
Working memory is a system that temporarily stores and manipulates information used in tasks like decision-making and reasoning. Patients with multiple sclerosis – a condition that can affect the brain and spinal cord – often have impaired working memory, which can negatively affect their quality of life.
Traditionally, working memory...
Familial Mediterranean fever (FMF) is a rare autoinflammatory disorder characterized mainly by recurrent self-limited episodes of fever and polyserositis. FMF-related neurologic complication is an old debate, and the correlation between FMF and demyelinating disorders has been a matter of dispute for a long time. Few reports demonstrated a relation...
Working memory (WM) is one of the most affected cognitive domains in multiple sclerosis (MS), which is mainly studied by the previously established binary model for information storage (slot model). However, recent observations based on the continuous reproduction paradigms have shown that assuming dynamic allocation of WM resources (resource model...
Background.
Cognitive dysfunction is relatively common in patients with multiple sclerosis (MS). Although it occurs in all stages and all phenotypes of MS, it is more prevalent in secondary progressive MS (SPMS) compared to relapsing MS (RMS). It is unclear whether the higher frequency of cognitive impairment in SPMS is linked to the progressive ph...
During the coronavirus disease 2019 (COVID-19) pandemic, mass vaccination was a beneficial strategy in many countries. Nevertheless, reports of serious complications such as postvaccination neuromyelitis optica spectrum disorder (NMOSD) raised concerns about the safety of vaccines. Anamnart and colleagues explained postvaccination NMOSD following d...
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) could prompt various neurological complications. Abrupt visual disturbance was reported as a rare severe manifestation of post-coronavirus disease 2019 (COVID-19). Autoimmune conditions were assumed to have an undeniable role in creation of such circumstances. This report presents a 69-ye...
The olfactory receptors (ORs) which are mainly known as odor-sensors in the olfactory epithelium are distributed in several non-sensory tissues. Despite the specified role of some of these receptors in normal physiology of the kidney, little is known about their potential effect in renal disorders. In this study, using the holistic view of systems...
Questions
Questions (20)
Is the hierarchical structure observed in the Gene Ontology (GO) OBO-basic file limited to the 'is a' relationship, or do the relationships 'has part' and 'regulates' also exhibit a similar hierarchical nature and can be propagated to the root?
I want to annotate each gene in the Homo sapiens taxon with its respective GO terms and its hierarchical parent terms in the GO database. How can I systematically do that? While I am aware that the obo file contains information such as "is a," "part of," and "regulates," it lacks a comprehensive hierarchy from child GO terms to all their parent terms. Is there an existing method available to achieve this systematic annotation, or do I need to develop a custom script to extract this information from the obo file?
I conducted an extensive search for a comprehensive database that encompasses the biological processes involved in various diseases. Although there are existing resources, such as KEGG and Reactome, that provide valuable insights into the pathways implicated in certain diseases, their coverage is limited to only a minority of diseases. While indirect methods, such as utilizing gene ontology analysis, can be employed to identify relevant biological processes, I am interested in exploring more standardized approaches or databases that can reliably identify disease-related biological processes.
I have samples with repeated measure observation that don't have a normal distribution. Since groups are not balanced and I need sth like a two-way ANOVA, I need an equivalent non-parametric test for an unbalanced two-way ANOVA.
I developed a time-course study of kidney fibrosis and evaluated the expression of nominated genes using real-time PCR. Evaluation of genes expression during time-course demonstrated oscillatory patterns of expression in both sham and treated mice groups, now my question is how can I interpret the oscillatory pattern of these genes. I have 5 diagrams with different oscillatory pattern and I'm not sure how to discuss them.
