Mahmoud Ahmed, a postdoc researcher in genomics

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Check out our recent article on integrating gene expression and DNA-binding data (here).
Check out our recent article on RKIP and metastasis (here)
Check out our recent perspective article on using public genomics data (here)

Bio

I graduated from Cairo University with a medical degree. After graduation, I spent a year traveling and volunteering with youth organizations to bring some joy and nature to underserved school children. In 2016, I joined a graduate school in South Korea, where I received my PhD. I studied autophagy and its role in development and disease using high-throughput sequencing data. I also developed several open-source R packages and Shiny apps to work with gene expression and chromatin data. I have recently joined the cancer genomics team at the Institute of Cancer Research in London to work on the genetics of familial cancer. I spend most days between the Linux terminal, the R console, and the LaTex editor.

Work Experience

Postdoctoral Fellow. The Institute of Cancer Research, UK (2023 - Present)
Senior Researcher. Gyeongsang National University, South Korea (2021 - 2023)

Education

PhD. Gyeongsang National University - 2021
MS. Gyeongsang National University - 2018
MBBCh. Cairo University - 2014
Lots of online courses

Awards & Fellowships

Fellowship. Center for Human Resource Development in Bio-medicine (2021 - 2022)
Young Scientist Program Award. FAOBMB (2021)
Young Scientist Program Award. KSBMB (2020 & 2021)
Young Pioneer Research Award. Gyeongsang National University (2018 & 2019)

Interests

Cancer genomics
Drug discovery and repurposing
Regulation of gene expression
Autophagy in development and disease

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.

Transcriptional regulation of RKIP in cancer

Deciphering the regulatory circuits responsible for RKIP loss in different cancer cell models.

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Publications

Editorial: Opportunities and challenges in reusing public genomics data

Mahmoud Ahmed, Deok Ryong Kim

Frontiers in Pharmacology, vol. 14, 2023

Manipulating RKIP reverses the metastatic potential of breast cancer cells

Trang Huyen Lai, Mahmoud Ahmed, Jin Seok Hwang, Md Entaz Bahar, Trang Minh Pham, Jinsung Yang, Wanil Kim, Rizi Firman Maulidi, Dong-Kun Lee, Dong-Hee Kim, Hyun Joon Kim, Deok Ryong Kim

Frontiers in Oncology, vol. 13, 2023

Validating a re-implementation of an algorithm to integrate transcriptome and ChIP-seq data

Mahmoud Ahmed, Deok Ryong Kim

PeerJ, vol. 11, 2023 Oct, pp. e16318

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Posts

Jan 5, 2023

Public data for the public good

The human genome project galvanized the scientific community around an ambitious goal. It produced several crucial discoveries, and a new era of research began. For the first time, it became possible to estimate the number of human genes and compile a ...

The evolutionary war — how to beat cancer in its own game

Cancer evolves. That much is known and agreed upon. Researchers still, however, debate the detailed picture of how cancer came to be and why it still plages our species is subject to debate. Studying cancer through an evolutionary lens could provide an...

Gene expression adaptation in yeast, mice, and humans

Coding vs. non-coding variants Mutations produce novelty. The kind of novel variants on which selection acts. These variants fall within two broad categories depending on location in the genome: protein-coding and regulatory sequences. The former pro...

Contact

Mahmoud Ahmed

Postdoc

Genetics & Epidemiology

The Institute of Cancer Research

London, UK

Curriculum vitae

Bio