Abbas Salavaty

Abbas Salavaty
Monash University (Australia) · Australian Regenerative Medicine Institute

PhD Candidate
Bioinformatician and Systems Biologist

About

27
Publications
7,726
Reads
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406
Citations
Introduction
Abbas was born in 1993. He completed his diploma in biology at the age of 18 years (2011) from Shahid Beheshti High School. He obtained a B.Sc. degree in Genetics from the Shahid Chamran University of Ahvaz in spring 2015. Then, he studied Masters of Biology-Biochemistry at the University of Kashan. He is now pursuing his Ph.D. at the Australian Regenerative Medicine Institute (ARMI), Monash University, Melbourne. His special research interests focus on Bioinformatics and Systems Biology, especially their application in melanoma and lung cancer research. He is also an enthusiastic fan of cancer epigenetic topics. https://www.abbassalavaty.com/
Additional affiliations
September 2011 - January 2015
Shahid Chamran University of Ahvaz
Position
  • Research Assistant

Publications

Publications (27)
Article
Full-text available
Long non-coding RNAs (lncRNAs) refer to a group of RNAs that are usually more than 200 nucleotides and are not involved in protein generation. Instead, lncRNAs are involved in different regulatory processes, such as regulation of gene expression. Different lncRNAs exist throughout the genome. LncRNAs are also known for their roles in different huma...
Article
Full-text available
Circadian rhythms refer to the endogenous rhythms that are generated to synchronize physiology and behavior with 24-h environmental cues. These rhythms are regulated by both external cues and molecular clock mechanisms in almost all cells. Disruption of circadian rhythms, which is called circadian disruption, affects many biological processes withi...
Article
Background: Long non-coding RNAs (lncRNAs) refer to a group of non-protein coding RNAs that are usually more than 200 nucleotides. These long transcripts play significant roles in diverse cellular processes mostly through epigenetic mechanisms. Thus, dysregulation of lncRNAs is associated with various diseases especially cancer. This study aims to...
Article
Full-text available
Long non‐coding RNAs (lncRNAs) are a subclass of non‐protein coding transcripts that are involved in several regulatory processes and are considered as potential biomarkers for almost all cancer types. This study aims to investigate the prognostic value of lncRNAs for lung adenocarcinoma (LUAD), the most prevalent subtype of lung cancer. To this en...
Article
Full-text available
Biological systems are composed of highly complex networks, and decoding the functional significance of individual network components is critical for understanding healthy and diseased states. Several algorithms have been designed to identify the most influential regulatory points within a network. However, current methods do not address all the to...
Preprint
SARS-CoV-2 primarily infects the respiratory tract, but pulmonary and cardiac complications occur in severe COVID-19. To elucidate molecular mechanisms in the lung and heart, we conducted paired experiments in human stem cell-derived lung alveolar type II (AT2) epithelial cell and cardiac cultures infected with SARS-CoV-2. With CRISPR- Cas9 mediate...
Preprint
Full-text available
Biological systems are composed of highly complex networks and decoding the functional significance of individual network components is critical for understanding healthy and diseased states. Several algorithms have been designed to identify the most influential regulatory points, or hub nodes, within a network. However, none of the current methods...
Article
Full-text available
Long non-coding RNAs (lncRNAs) are a group of transcripts over 200 nucleotides in length that do not code for proteins. The association of the dysregulation of numerous lncRNAs with several malignancies, including lung cancer, has been frequently reported. This study aims to inspect the association of genomic and transcriptomic alterations to the l...
Article
Full-text available
Background Circadian rhythms are physiological and behavioral cycles with a period of approximately 24 hours that control various functions including gene expression. Circadian disruption is associated with a variety of diseases, especially cancer. Although some of the oncogenes and tumor suppressor genes (TSGs) are known as clock-controlled genes...
Poster
Full-text available
Nanobioinformatics is a convergent field which integrates the science of nanotechnology with bioinformatics. Nanobioinformatics has the potential to solve problems regarding high throughput genomics data, novel biomarker discovery, complex biological systems, computer-aided drug design (CADD), and nanobiology. Also, nanobioinformatics can be used f...
Article
Full-text available
Different mechanisms, including transcriptional and post transcriptional processes, regulate tissue specific expression of genes. In this study, we report differences in gene/protein compositional features between apoptosis involved genes selectively expressed in human tissues. We found some correlations between codon/amino acid usage and tissue sp...
Data
The coefficients of codon frequencies which have the significant correlations with genes expression levels in different tissues
Data
Correlation coefficients between tAI/CAI and genes expression levels in different human tissues
Data
The coefficients of amino acid frequencies which have the significant correlations with genes expression levels in different tissues
Data
The coefficients of relative synonymous codon usage features which have the significant correlations with genes expression levels in different tissues
Article
Full-text available
Background The second leading cause of cancer deaths in women is breast cancer. Germline mutations in susceptibility breast cancer gene BRCA1 increase the lifetime risk of breast cancer. Eighty-one large genomic rearrangements (LGRs) have been reported up to date in BRCA1 gene, and evaluation of these rearrangements helps with precise risk assessme...
Article
Full-text available
Epigenetic complexes control various pathways within the cells. Their abnormalities can be involved in the initiation and the progression of different types of cancer. Nucleosome remodeling and deacetylase (NuRD) is an epigenetic complex that comprises several subunits such as PHF6. Although PHF6 is reported as a tumor suppressor in some of the hem...
Conference Paper
Full-text available
Epigenetic modifications are implicated in various intracellular changes that altogether result in regulation of proteinic content within the cells. These epigenetic modifications are exerted mostly by epigenetic complexes such as PRC2 and ASCOM which their misregulation is implicated in development of different diseases including cancer. Herein a...

Questions

Question (1)
Question
Dear Researchgate fellows,
My colleague and I are working on the KG1 cell line with the purpose of testing some drugs and doing some gene knockouts. Can you please advise us on the following matters?
1. How fast is the proliferation rate of AML cells in the KG1 cell line?
2. What is the best timing for passaging the KG1 cell line?
3. What cell density should we use for drug treatment?
4. What dosage of the drug should we use for this cell line (does it only depends on the drug type)? For instance, for Amitriptyline and Zonisamide
5. What would be the best strategy/technique for gene knockout in this cell line?
6. Why a significant proportion of genes are dead even after only 24 hours of post-passage proliferation and before drug treatment?
I would really appreciate any help

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Projects

Projects (2)
Archived project
We performed some epigenetic and bioinformatic investigations on circadian rhythms.
Project
In this project, we are studying long non-coding RNAs involved in lung adenocarcinoma and melanoma with the purpose of discovering new potential biomarkers.