Publications, Talks, and Abstracts

Welcome to my publications page. Below, you’ll find an overview of my peer-reviewed articles, conference abstracts, and talks.

Publications

  1. Manoharan VT, Abdelkareem A, et al. Spatiotemporal modeling reveals high-resolution invasion states in glioblastoma. Genome Biology (2023). DOI Link

  2. Abdelkareem AO, Khalil MI, Elaraby M, et al. Virnet: Deep attention model for viral reads identification. IEEE ICCES (2018).

  3. Johnston MJ, Nikolic A, Abdelkareem A, et al. High-resolution structural genomics reveals new therapeutic vulnerabilities in glioblastoma. Genome Research (2019).

  4. Abdelkareem AO, Khalil MI, Elbehery AH, Abbas HM. Viral Sequence Identification in Metagenomes using Natural Language Processing Techniques. bioRxiv. (2020).

  5. Elaraby M, …, Osama A. Gender aware spoken language translation applied to English-Arabic. In 2nd International Conference on Natural Language and Speech Processing (ICNLSP) (2018).

Abstracts

  1. A. Abdelkareem, S. Morrissy. Leveraging Topic Modeling to Deconvolve Cell Programs in Complex Spatial Transcriptomic Data. Poster and lightning talk at Biological Data Science Meeting 2024, Cold Spring Harbor Laboratory.

  2. V.T. Manoharan, A. Abdelkareem, K. Osz, J. Chan, S. Morrissy. Spatiotemporal Modelling of Glioblastoma for Drug Prediction. Poster presented at NEURO-ONCOLOGY Conference, Volume 25, November 2023. Published by Oxford University Press Inc.

  3. A.O. Abdelkareem, K. Osz, D. Senger, J.A. Chan, S. Morrissy. Understanding the glioblastoma microenvironment with spatial resolution in PDX models. Poster presented at American Association for Cancer Research Annual Meeting, New Orleans LA, USA, April 2022. (Cancer Research)

  4. A. Abdelkareem, S. Morrissy. Discerning cell types and states in spatial transcriptomics data using topic modelling. Poster presented at Cancer Genomics Consortium, St Louis, MO, USA, August 2022. (Cancer Genetics)

  5. S. Brown, A. Abdelkareem, A. Gillmor, H. Seo, J.A. Chan, S. Morrissy. Inferring copy number events in Glioblastoma using spatial gene expression data. Poster presented at Cancer Genomics Consortium, St Louis, MO, USA, August 2022. (Cancer Genetics)

  6. A.O. Abdelkareem, K. Osz, D. Senger, J.A. Chan, S. Morrissy. Tracking tumor-TME interactions using in vivo models of glioblastoma. Poster presented at Canadian Student Health Research Forum, Winnipeg, Manitoba, Canada, July 2022.

  7. A.O. Abdelkareem, S. Morrissy. Tracking Cell Transitions in scRNA-Seq Time Series Data. Poster presented at Learning Meaningful Representation of Life (LMRL) workshop, NeurIPS, Vancouver, BC, Canada, Dec 2019.

  8. A.O. Abdelkareem, S. Morrissy. Tracking Cell Differentiation in scRNA-Seq Time Series Data. Poster presented at BioNet, Lethbridge, AB, Canada, Sep 2019.

Talks

  1. A. Abdelkareem. Discerning cell types and states in spatial transcriptomics data using topic modelling. 21st Annual Workshop at Bellairs Cell in Space, Barbados. Jan 27th - Feb 3rd, 2023.

  2. A. Abdelkareem. Tracking Cell Transitions in scRNA-Seq Time Series Data. Flash talk at Learning Meaningful Representation of Life (LMRL) workshop, NeurIPS, Vancouver, BC, Canada, 2019.

  3. A. Abdelkareem. Practical Deep Learning Tricks. International Workshop on Deep and Representation Learning (IWDRL 2018), Masr International University (MIU), Cairo, Egypt, 2017.

  4. A. Abdelkareem. How to use deep learning on biological data. 2nd Egyptian Bioinformatics Workshop, Nile University, Giza, Egypt, 2017.

Thank you for your interest in my work! Please feel free to reach out if you would like more information on any publication, talk, or abstract.