Publications

Please find some of our work below


Published Papers & Letters


Phylogenetic Cladograms: Tools for Analyzing Biomedical Data.

Abu-Asab MS, and Jim DeLeo.

In Springer Handbook of Bio-/Neuroinformatics


Systems Biology Profiling of AMD on the Basis of Gene Expression.

Abu-Asab MS, Salazar J, Tuo J, Chan CC.


Identifying Early Events of Gene Expression in Breast Cancer with Systems Biology Phylogenetics

Abu-Asab MS, Abu-Asab N, Loffredo CA, Clarke R, Amri H.


Analyzing Heterogeneous Complexity in Complementary and Alternative Medicine Research: A Systems Biology Solution via Parsimony Phylogenetics

Abu-Asab M, Koithan M, Shaver J, Amri H.


Endometriosis Gene Expression Heterogeneity and Biosignature: A Phylogenetic Analysis 

Abu-Asab M, Zhang M, Amini D, Abu-Asab N, Amri H.


Biomarkers in the Age of Omics: Time for a Systems Biology Approach

Abu-Asab MS, Chaouchi M, Alesci S, Galli S, Laassri M, Cheema AK, Atouf F, Vanmeter J, Amri H.


Algorithmic Assessment of Vaccine-Induced Selective Pressure and its Implications on Future Vaccine Candidates

Abu-Asab MS, Laassri M, Amri H.


Microarrays Need Phylogenetics

Mones Abu-Asab


Phylogenetic Modeling of Heterogeneous Gene-Expression Microarray Data from Cancerous Specimens

Mones Abu-Asab, Mohamed Chaouchi, and Hakima Amri


Evolutionary medicine: A Meaningful Connection Between Omics, Disease, and Treatment

Mones Abu-Asab, Mohamed Chaouchi, and Hakima Amri


Phyloproteomics: What Phylogenetic Analysis Reveals about Serum Proteomics

Mones Abu-Asab, Mohamed Chaouchi, and Hakima Amri




Published Abstracts


Modeling cancer heterogeneity using parsimony phylogenetics: a systems biology approach.

Amri H, Abu-Asab MS, Chaouchi M, Alesci S, Galli S, Laassri M, Cheema KA, Atouf F, VanMeter


A Phylogenetic Paradigm for Dynamic Systems Biology: An Integrative Modeling of the Heterogeneities of the Omics Data and Disease. 


Phyloarray: a phylogenetic approach to cancer gene-expression microarray analysis.

Annual Meeting of the American Association for Cancer Research


Phyloproteomics: What Phylogenetic Analysis Reveals About Serum Proteomics.

Annual Meeting of the American Association for Cancer Research 




Recommended Readings



Vincent M.D: Cancer: Beyond Speciation



Berman, J.J. and Moore, G.W.: Precancer: The Beginning and the End of Cancer



Heng HH, Liu G, Stevens JB, Bremer SW, Ye KJ, Ye CJ. Genetic and Epigenetic Heterogeneity in Cancer: The Ultimate Challenge for Drug Therapy.



Ziliak ST.; The Validus Medicus and a New Gold Standard.



Heng HH, Bremer SW, Stevens JB, Ye KJ, Liu G, Ye CJ. Genetic and epigenetic heterogeneity in cancer: a genome-centric perspective.



Randolph M. Nesse, Stephen C. Stearns: The great opportunity: Evolutionary applications to medicine and public health



Albert, V. A. (Ed.), Parsimony, Phylogeny, and Genomics



Shibata, D. Stem Cells as Common Ancestors in a Colorectal Cancer Ancestral Tree.



Wong KM, Suchard MA, Huelsenbeck JP. Alignment Uncertainty and Genomic Analysis.



Frank, S. A..Dynamics of Cancer: Incidence, Inheritance, and Evolution.




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