Mahmoud Ahmed

Bio

I graduated from Cairo University with a medical degree. After graduation, I spent a year traveling and volunteering with youth organizations to bring a bit of fun and nature to underserved school kids. In 2016, I joined a lab in Jinju, South Korea, to do research. I studied autophagy and its role in development and disease using high-throughput sequencing data. I developed several open-source R packages and Shiny apps to work with gene expression and regulation data. Now I am building an open-source platform to discover and repurpose drugs for cancer. I also try my hand at the exciting field of cancer evolution. I spend most days between the Linux terminal, the R console, and the LaTex editor.

Eduction

PhD. Gyeongsang National University - 2021
- Thesis: Transcriptional Regulation of Autophagy During Adipocyte Differentiation
MS. Gyeongsang National University - 2018
- Thesis: Systematic characterization of autophagy-related genes during the adipocyte differentiation using public-access data
MBBCh. Cairo University - 2014
Lots of online courses

Interests

Cancer evolution
Drug discovery and repurposing
Regulation of gene expression
Autophagy

Projects

Task specialization in evolving cancer cells

Studying task specialization and trade-offs in evolving cancer cells.

Perturbing biological networks in cancer cell lines

Studying causal biological networks and their perturbation using existing biological knowledge and data.

Chromatin segmentation analysis

Performing chromatin segmentation analysis in R.

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Publications

Tissue-specific gene expression in obese hyperglycemic mice

Mahmoud Ahmed, Omar Elashkar, Jong Youl Lee, Eun Ae Jeong, Kyung Eun Kim, Gu Seob Roh, Deok Ryong Kim

All Life, Taylor & Francis, 2022, pp. 555-561

Hierarchical Regulation of Autophagy During Adipocyte Differentiation

Mahmoud Ahmed, Trang Huyen Lai, Trang Minh Pham, Sahib Zada, Omar Elashkar, Jin Seok Hwang, Deok Ryong Kim

PLoS ONE, vol. 17(1), 2022 6, pp. e0250865

target: an R package to predict combined function of transcription factors

Mahmoud Ahmed, Deok Ryong Kim

F1000Research, 2021

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Posts

Jan 23, 2022

The non-genetic determinants in cancer evolution

When one lines up the genomes of related species, they vary in more than the protein-coding sequences. In fact, most differences fall outside these regions, given the small fraction they represent. Genomes differ with respect to sequences that regulate...

Jan 16, 2022

The evolution of self-consumption

To study the evolution of a body part or a trait, one needs to address two questions. First, what is the trait for? Second, how could it evolve by small steps that gave some advantage to the organism that carried them? It is also necessary to suggest a...

Jan 7, 2022

Cancer evolution by non-Darwinian mechanisms

In the Darwinian model of cancer evolution, the variations among cancer cells result in differential survival of some clones, which dominate the tumor mass. This view was challenged by discovering that tumors comprised multiple subclones that differ ge...

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Contact

Mahmoud Ahmed

Postdoc

[email protected]

Convergence Medical Science

Gyeongsang National University

Jinju, South Korea

Curriculum vitae