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= Mohamed Helmy, PhD =

[[MohamedHelmy|Bio]] | [[MohamedHelmyFields|Education]] | [[MohamedHelmyPostions|Academic and Research Positions]] | [[MohamedHelmyAffiliations|Affiliations]] | [[MohamedHelmyGrants|Grants, Awards & Fellowships]] | [[MohamedHelmyPublications|Publications]] | [[MohamedHelmyConferences|Conferences & Academic Presentations]] 

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|| {{attachment:mhelmy2.png|mhelmy.png}} <<BR>> Postdoc Researcher, Bader Lab<<BR>>The Donnelly Centre,<<BR>>University of Toronto (UofT)<<BR>><<BR>>'''Contact Address''': [[http://maps.google.com/maps?f=q&hl=en&q=160+College+St,+Toronto+ON&om=1|Map]]<<BR>>160 College Street, Room 630<<BR>>The Donnelly Centre<<BR>>University of Toronto<<BR>>Toronto, Ontario<<BR>>Canada, M5S 3E1<<BR>><<BR>>'''Email''': mohamed.attiashahata AT utoronto.ca||<<BR>><<BR>>''' __Publications__ ''' [[http://scholar.google.com/citations?hl=en&user=Ccx_2agAAAAJ&view_op=list_works|{{attachment:gs.png|target="_blank"}}]]<<BR>><<BR>>'''A. Journals'''<<BR>><<BR>>'''*''' Corresponding author, '''**''' Equal first author<<BR>><<BR>>1- '''__Helmy, M__'''., Crits-Christoph A., Wagih O., Bader G. (Under preparation) Can-VD: Database and Proposed standard for Reporting Mutations Impact on Protein Interaction Networks in Cancer.<<BR>>2- '''__Helmy, M__'''., Bader G. (In revision) Ten Simple Rules for Developing Biological Database.<<BR>>3- Tong J., '''__Helmy, M**__'''., et al, (In revision) Systems level analysis of the protein-phosphotyrosine landscape in acute myeloid leukemia as a product of activated tyrosine kinases and phosphotyrosine phosphatases, Science Signalling.<<BR>>4- '''__Helmy, M__'''., Awad M., Mosa K. A. (Accepted) Limited resources of genome sequencing in developing countries: Challenges and solutions. Applied & Translational Genomics. <<BR>>5- Mosa K. A., , Saadoun I., Kumar K., '''__Helmy, M__'''., Dhankher O. P. (Accepted) Potential Biotechnological Strategies for the Cleanup of Heavy Metals and Metalloids. Frontiers in Plant Science 7, 303.<<BR>>6- Awad M., Ouda O., El-Rifi A., El-Fiki F., Mosa K. A., '''__Helmy, M*__'''., (2015) FN-Identify: Novel Restriction Enzymes-Based Method for Bacterial Identification in Absence of Genome Sequencing. Advances in Bioinformatics Article ID 303605, doi.org/10.1155/2015/303605.<<BR>>7- El-Metwally, S, Hamza, T, Zakarya, M and '''__Helmy, M*.__''' Next-Generation Sequence Assembly: Four Stages of Data Processing and Computational Challenges, PLOS Computational Biology, 9 (12), e1003345.<<BR>>8- '''__Helmy, M.__''', Gohda, J., Inoue, J., Tomita, M., Tsuchiya, M. and Selvarajoo, K. (2009) Predicting novel features of Toll-like Receptor 3 signalling in macrophages, PLoS ONE, 4(3): e4661. doi:10.1371/journal.pone.0004661.<<BR>>9- Selvarajoo, K., Takabe, Y., Gohda, J., '''__Helmy, M.__''', Akira, S., Tomita, M., Tsuchiya, M., Inoue, J. and Matsuo, K. (2008) Signalling Flux Redistribution at Toll-like Receptor Pathway Junctions., PLoS ONE , 3(10) , e3430, doi:10.1371/journal.pone.0003430.<<BR>>10- '''__Helmy, M.__''', Tomita, M., Ishihama Y. (2011) OryzaPG-DB: Rice Proteome Database based on Shotgun Proteogenomics, BMC Plant Biology, 11,63, 2011. doi:10.1186/1471-2229-11-63.<<BR>>11- '''__Helmy, M__''', Tomita M, Ishihama Y. (2012) Peptide identification by searching large-scale tandem mass spectra against large databases: bioinformatics methods in proteogenomics. Genes, Genomes and Genomics, 6(SI1), 76-85.<<BR>>12- '''__Helmy, M__''', Sugiyama N, Tomita M, Ishihama Y. (2012) The rice proteogenomics database OryzaPGDB: development, expansion and new features. Frontiers of Plant Sciences, 3:65, doi: 10.3389/fpls.2012.00065.<<BR>>13- '''__Helmy, M__''', Sugiyama N, Tomita M, Ishihama Y. (2012) Mass Spectrum Sequential Subtraction: bioinformatics method facilitates searching large dataset of peptide MS/MS spectra against large nucleotide databases for proteogenomics. Genes to Cells, 17(8), 633-644, doi: 10.1111/j.1365-2443.2012.01615.<<BR>><<BR>>'''B. Books'''<<BR>><<BR>>1- El-Metwally S., Ouda O, and '''__Helmy M.*__''' (2014) Next Generation Sequencing Challenges in Technologies and Sequence Assembly, Springer Briefs in Systems Biology, (7) ISBN: 978-1-4939-0714-4 (Print) 978-1-4939-0715-1 (Online), Springer, PA, USA.<<BR>>2- Mosa K. A., El-Shabrawi H., Ismail A., and '''__Helmy, M__'''. (In Press) Plant Stress Tolerance: An Integrated Omics Approaches, Springer Briefs in Systems Biology, Springer, PA, USA.<<BR>><<BR>>'''C. Proceedings'''<<BR>><<BR>>1- '''__Helmy M.__''', Tomita M., Tsuchiya M., Selvarajoo K. (2008) In silico analysis of Toll-Like receptor 3 pathways. Proceedings of Bioinformatica Indica ’08. India 2008.<<BR>>2- Selvarajoo K., '''__Helmy M.__''', Tomita M., Tsuchiya M. (2008) Inferring the mechanistic basis for the dynamic response of the MyD88-dependent and –independent pathways. 10 on Molecular Systems Biology 2008 (ICMSB’08).Philippine 2008.<<BR>><<BR>>||
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