2013 Associate Professor, Informatics and Systems Department, nr



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Mahmoud M. ElHefnawi (Ph.D.)

http://www.bioinf4health.org
26 B Gezira Wosta Str., Zamalek, Cairo, Egypt

+201111177817, +201006113787

mahef111@gmail.com, mahef@aucegypt.edu

( ASRT Scientific Excellence Aaward, 2012), H-index = 5.0. International Biographical Society Award, 2012


  1. Professional & Academic Experience


    2013

    Associate Professor, Informatics and Systems Department, NRC.

    2011

    AssistantProfessor (Adjunct), The Egyptian Japanese University for Science and Technology

    2009- now

    Founder &Coordinator for the Biomedical Informatics and Chemoinformatics Group, Center of Excellence for Advanced Sciences, National Research Center.

    2009-2010

    Bioinformatics Diploma Track Coordinator, Information Technology Institute (ITI), Cairo, Egypt.

    2008-2011

    Researcher Associate (Part-time post doc.), The Youssef Jamil Science and Technology Research Centre (STRC), The American University in Cairo, Egypt.

    2008 - 2009

    Lecturer (Part-time), Biotechnology M.Sc. Program (BIOT521), The American University in Cairo, Egypt.

    2007-2013

    Associate Professor, Informatics and Systems Department, National Research Centre, Egypt.

    2007 – 2013

    Free Lancer Bioinformatics Lecturer and consultant, Sira Academy, Sira Diploma of Bioinformatics.

    2004 – 2007

    Bioinformatics Researcher Assistant, Medical Biotechnology Department, National Research Centre, Egypt.

    2005-2007

    Awareness and Combat Project Leader, Nahdet El-Mahrousa Association, Hepatitis C and Blood Born viruses.

    2000 - 2002

    Research & Teaching Assistant, Rutgers University.

  2. Education

2007
Ph.D. in Bioinformatics “Computational Statistical Techniques For Hepatitis C Virus”, Cairo University. Referees: Dr. Gert Fricker, Director of Institute of Pharmaceutical Technology & Molecular Biology, University of Heidelberg, Germany, and Dr. Peter Van Hoogevist, Switzerland. (Both highly evaluated the thesis).

2002
M.Sc. The State University of New Jersey (Main Campus) Rutgers University, Specialization Area: Bioinformatics On Stochastic Models For Gene Networks, New Jersey.

1999
B.Sc. with high honors, The American University in Cairo (AUC).

1999
Exchange Program, Yale University, Connecticut.

1994
GCSE, Doha College, Qatar, 5A+, 3A’s.


III- Bioinformatics, Genomics, Proteomics & Drug Design Skills

  • Genomics, Metagenomics & Phylogenetics:

NGS analysis: Assembly, Alignments, Sequence Analysis, Gene identification, Regulatory Signal, Repeats & Rearrangements Recognition, Tree Reconstruction,functional analysis, Phylogenic Networks, Phylogenomics & Phyloinformatics, Personalised genomics, workflows.

  • Data Mining & Machine-Learning:

Clustering, Classification, Feature Extraction, Association Rule Mining, Neural networks, Decision Trees, SVMs, Bayesian networks, semi-supervised methods, Multiclassifiers, soft computing.

  • Structural Bioinformatics & Rational Drug Design:

RNA & Protein Folding , motifs and patterns, 2D and 3D Visualization, Structure Prediction, Rational Drug Design, Molecular Modeling, Docking, Virtual High Throughput Screening, PPI prediction, Protein DNA, Protein Ligand Interaction Simulation, PPI Networks & Proteomics, QSARs, Pharmacophores, De nouveau Design;Docking screens, molecular dynamics.

  • Functional Genomics:

Microarray Gene Expression Analysis, Differential Gene Expression, Supervised and Unsupervised Learning & Networks Inference.

  • Computational Systems Biology:

Gene Networks Modeling, Metabolomics, Pathways Analysis, Petri Nets & Stochastic Simulations, Bayesian Networks, Synthetic Biology, Artificial Life & Cellular Simulation.

  • Genetics & Comparative Genomics:

SNP & Haplotype Analysis, Ontologies, Annotation, Genotype to Phenotype Association, Genetic Mapping, Immunoinformatics & Population Genetics.

  • Algorithms:

Optimization Algorithms, Search Algorithms, Machine Learning Algorithms, Evolutionary Algorithms, Monte Carlo Simulations, Fuzzy Logic, Neural Networks & Bayesian Networks.

  • Computer Languages:

C++, Bioperl, Mathlab & Mathematica.

  • Statistical Packages:

SPSS, R, Maple, Stata, Mathematica & Origin Lab.


IV- Scientific Projects

  1. A Therapeutic Trial for Hepatitis C Virus Using siRNA Molecules Targeting the Virus Genome, STDF PI (380 thousand LE). June 2010-2012.

  2. Nanoparticles as a Delivery System for Targeting schistosomiasis and fascioliasis: a pilot study using nanotechnology and bioinformatics: YJ-STRC, AUC, Post Doctoral Researcher Fellow, 2010-2011.

  3. MicroRNAs as novel circulating markers for Hepatocellular carcinoma: AUC internal project, coPI, 2011. Project completed and accepted.

  4. Rational Drug Design and Docking of Specific Protease and Polymerase Inhibitors for the Egyptian Genotype 4 of Hepatitis C Virus: An Integrative Bio & Chemo informatics investigation. STDF PI. May 2010-12.

  5. Computer-Aided Design and Synthesis of Benziomedazoles and Quinoxalines as Novel Therapeutics for Hepatitis C Virus. STDF (HCV targeted call). Drug Design Team Leader. August 2010-2013.

  6. Optimal Drug Design of Therapeutic Small Interfering RNAs (siRNAs) for Hepatitis C Virus. YJ-STRC AUC project. Co-PI. 2009-2010. Project completed and accepted.

  7. In silico Design of siRNAs for the Influenza A Virus. AUC project. Co PI. 2008-2009. Project completed and accepted.

  8. Production of Fluorescence in Situ Hybridization Probes as diagnostic markers for some Genetic Disorders and certain types of Cancer;participant, 2010-2013.

  9. Investigating the Three Dimensional Structure and Motifs of the Non-structural 5A Protein (NS5A) of Hepatitis C Virus (HCV). AUC Internal project. Co PI. 2008-2009.Project completed and accepted.

  10. Bioinformatics Data Mining and Analysis for Hepatitis C in Egypt. Staff. 2007.

  11. Fighting Liver Cancer Using Biomedical Informatics and Computer-Aided Drug Design .Integration of Bioinformatics, Computer-aided drug design, Omics and Data Mining for Hepatocellular Carcinoma. (In Submission).

  12. Fighting liver cancer using biomedical informatics. NRC internal project: 2010-2011; PI; project completed and accepted.

V- Research Papers & Books


International Journal Papers.


  1. ElHefnawi M & Amer M: “ An integrative metaanalysis of miRNAs in liver cancer: Dual roles for miRNAs in liver cancer development”, in press to Genomics, Proteomics, and Bioinformatics (GPB), 2013

  2. ElHefnawi M & Sherif F: Accurate Classification and Amino Acid Signatures for Influenza A Subtyping and for Host Origin Association”, in press, BMC Medical Genomics, 2013

  3. ElHefnawi M, Amin M, Omar M:” Multiple virtual screening approaches for finding new Hepatitis c virus RNA-dependent RNA polymerase inhibitors: Structure-based screens and molecular dynamics for the pursue of new polypharmacological inhibitors”, Accepted in BMC Bioinformatics InCoB Supplement issue, 2012.




  1. ElHefnawi M Et. Al.: ” Accurate prediction of response to Interferon-based therapy in Egyptian patients with Chronic Hepatitis C using different machine-learning techniques”, accepted in ASINUM2012 IEEE Explorer conference proceedings, Turkey, 2012.




  1. Temerak A, Abdulla M and ElHefnawi M: “Rational Drug Design for Identifying Novel multi-Kinase inhibitors as potential candidate therapies for Hepatocellular Carcinoma”, Anti-cancer agents and medicinal chemistry, Benthalm Publishing, 2012.



  1. Hamouda A , Saad M, ElHefnawi M: “ Structure-based activity prediction model for some benzimidazole inhibitors of hepatitis C virus NS5B polymerase and its application in the design of new analogs”, Medicinal Chemistry Research, August 2012.




  1. Sherif F, Kadah Y, ElHefnawi M: Influenza A Subtyping and Host origin Classification using Profile Hidden Markov Models, Journal of Mechanics in Medicine and Biology (JMMB), November 2012..



  1. Ahmed M, ElHefnawi M and Garibald J: MysiRNA: Machine-Learning Model Combining Multi-Tools and Whole Stack Energy ∆G Improves siRNA Efficacy Prediction, accepted in Journal of Biomedical informatics, 2011.




  1. Bassyoun F,Saleh T, ElHefnawi M, Abd El-MoezS ,El Senousy W and Abdel-Rehim M: Synthesis, Pharmacological Activity evaluation and Molecular Modeling of Some Heterocyclic Compounds Containing Benzimidazole. Published in Archives of pharmacological research, 2012.




  1. Maysara M, Gerabaldi J and ElHefnawi M: MysiRNA-Designer: A Workflow for Efficient siRNA Design. Accepted, PLOS1, August 2011.




  1. ElHefnawi M, Siam R, Hassan N, El-Azab I, Kamar M, and El-Aidy O: The Design of Optimal Therapeutic Small Interfering RNA Molecules Targeting Diverse Strains of Influenza A virus. Accepted, Bioinformatics OUP 2011.




  1. Zein H, El-Sehemy A, Fares M and ElHefnawi,TeixeiraJ,Sylvad D, Miyatakee K: Generation, Characterization and Docking Studies of DNA-hydrolyzing Recombinant Fab Antibodies. Accepted in Journal of Molecular Recognition, 2011.

  2. ElHefnawi M, Elaidy O,Hassan N, El-Azab I, Kamar M,Zada S and Siam R: Identification of novel conserved motifs across most Influenza A Viral strains,Virology J, January 2011.




  1. Galal S, Abdelsamie A ,Tokuda H, ElHefnawi M, Hussam M, and El Diwani H: Part I: Synthesis, Cancer Chemopreventive Activity and Molecular Docking Study of Novel Quinoxaline Derivatives. Accepted in European Journal of Medicinal Chemistry (IC=3.363) 2010.



  1. ElHefnawi M, Zada S and El-Azab I : Prediction of prognostic markers to Interferon-based therapy for Interferon-base Therapy for Hepatitis C Virus.Virology Journal, Springer Publishing, 2010.

  2. ElHefnawi M, El-Behaidy W, Youssif A, Ghalwash A, El-Housseiny L and Zada S: Natural Genetic Engineering of Hepatitis C Virus NS5a Protein for Immune System Counterattack. Natural Genetic Engineering and Natural Genome Editing. Ann. N.Y. Acad. Sci. Wiley Publishing, 2009, 1178:173-185.

  3. Gendoo D, ElHefnawi M, Warner M and Siam R: Correlating Novel Variable and Conserved Motifs in The Hemagglutinin Protein with Significant Biological Functions. Virology Journal. BioMed Central Ltd Publishing, 2008, 5:91 (Accepted for rapid publication, July 2008).

  4. Ramadan H and ElHefnawi M: Phylogenetic Analysis and Comparison between Cow and Buffalo (Including Egyptian Buffaloes) Mitochondrial Displacement-Loop Regions. Mitochondrial DNA Journal. Informa Health Care Publishing, 2008, 19(4): 401-410.

  5. Zekri AR, El-Din HM, Bahnassy AA, Khaled MM, Omar A, Fouad I, ElHefnawi M, Thakeb F and El-Awady M: Genetic Distance and Heterogenecity as a Critical Factor for Determining Response to IFN Treatment for Egyptian Patients. Virology Journal. BioMed Central Ltd Publishing, 2007, 4:16.

  6. ElHefnawi, A. Youssif, A. Ghalwash, and W. El-Behaidy, "An integrative in silico model of Hepatitis C Virus non- structural 5a protein," Int’l Conf. Bioinformatics & Computational Biology (BIOCOMP’09), pp. 827-833, 2009.

International Books

  1. ElHefnawi M and Mysara M (ed.),Recurrent Neural Networks and Soft Computing, InTech publishing 2012.

  2. ElHefnawi, M and Mysara, M: In-Silico Approaches for RNAi Post-transcriptional Gene regulation: Optimizing siRNA design and selection. In Mahdavi, M.A.(ed.), Bioinformatics Trends and Methodologies 2, InTech publishing 2011.

  3. ElHefnawi M, Youssif A, Ghalwash A and El-Behaidy W: An Integrated Methodology for Mining Promiscuous Proteins: A Case Study of an Integrative Bioinformatics Approach for Hepatitis C Virus Non-structural 5a Protein Advances in Computational Biology, Springer publishing, 2010.

  4. ElKhady S, ElHefnawi M, Shoukry A: “Ensemble-Based Classifier Approach for micro-RNA Mining of Diverse Metagenomic sequences”, Accepted in 2013 International Work-Conference on Bioinformatics and Biomedical Engineering (IWBBIO) proceedings, 2013.

  5. ElHefnawi M: Identification of the Hemaglutanine Protein Genetic Distance as a Novel Marker for the Influenza H1N1 Pandemic: A Comparative Bioinformatics Meta-Analysis of the H1N1, H3N2, and H5N1 strains,accepted in ISCB Africa 2013 proceedings, 2013.

  6. Antar G & ElHefnawi M: “ Virtual screening and drug design for identifying new RNA polymerase inhibitors for the Influenza a virus”, accepted in ISCB Africa 2013 presentation and paper proceeding, 2013.

Submitted Papers

  1. Fatma A Bassyouni, Omar Fathalla, Khaled H Hegab, Mahmoud ElHefnawi,Sawsan Salah El Din, Mohamed Sultan, Ahmed Abd Elkader, Mohamed Abdel Rehim: “ Synthesis, anti-inflammatory activity and molecular docking of some new heterocyclic compounds including their transition metal complexes, submitted toArchives of Pharmaceutical Research, 2013.




  1. ElHefnawi M, Mohamed N, Kamar M, Kao T, Zada S, Windisch M: Therapeutic design and testing of small interfering RNA molecules targeting the Hepatitis C Virus, Under local and international Patenting, 2012.

  2. ElHefnawi M Et. Al.: ” A simple yet effective predictor of response to Interferon-based therapy for chronic Hepatitis C virus patients” , in submission to Networks, Genomics, and Bioinformatics, 2013.

  3. ElHefnawi et. Al.: “ Accurate prediction of Fibrosis score and therapy outcome in Egyptian patients with Chronic Hepatitis C using different machine-learning techniques”, in submission to J. Biomedical Sci. 2012.

  4. Mohamed H, Ragab F, ElHefnawi M, Ramla M, Galal S, Mohamed, Abdulla M,

Abdel Wahab A, Abdel Shafi N, Zada S, El Demellawy M and El Diwani H: Synthesis and Docking Studies of Novel Anti-HCV Benzimidazoles.2012.

  1. ElBahnasawy S, lakany A and ElHefnawy M: “Human miRNAs Targeting the Influenza A Virus: An In Silico Identification of miRNAs as Potential Therapeutics for the Influenza Flu”, submitted to FEBS J, 2011.




  1. ElHefnawi M and Ibrahim A: “Virtual Screening of Chemical Databases for Identifying Potential BCL-xl Inhibitors as Novel Liver Cancer leads”.


International Conferences

  1. ElHefnawi M: “ Human CNVs: from dark matter to knowledge mining”,HGM 2013, April 2013, Singapore.

  2. Antar G & ElHefnawi M:” Virtual screening and drug design for identifying new RNA-dependent RNA polymerase inhibitors for the Influenza a virus”, ISCB Africa bioinformatics conference, March 2013.

  3. Ezzat A..ElHefnawi M: “ The potential role of the human microbiome in liver cancer”, ISCB Africa 2013 conference, Morocco, 2013.

  4. ElHefnawi et. Al: “Multiple virtual screening approaches for finding new Hepatitis c virus RNA-dependent RNA polymerase inhibitors: Structure-based screens and molecular dynamics for the pursue of new poly pharmacological inhibitors”, InCoB 2012, Bangkok, 2012.




  1. ElHefnawi et. Al.: “An integrative metaanalysis of microRNAs in Hepatocellular carcinoma: Understanding the dual roles of MicroRNAs in liver cancer oncogenesis and development, INCOB 2012,Bangkok, Oct. 2012.




  1. Windisch M,.. ElHefnawi M: “In silico design and in vitro validation of siRNAs targeting multiple hepatitis c virus genotypes”, Hepatitis C Virus Conference, Italy, October 2012.




  1. ElHefnawi, .. Windisch M: “In silico design and in vitro validation of siRNAs targeting multiple hepatitis c virus genotypes”, Hepatitis C Virus New Therapies EASL Conference, Prague, September 2012.




  1. ElHefnawi et. Al.: “Accurate prediction of response to Interferon-based therapy in Egyptian patients with Chronic Hepatitis C using different machine-learning techniques”, ASINAM & HI-BI-BI 2012, September 2012, Istanbul, Turkey.




  1. ElHefnawi M, Hamouda A, Saad M: A Novel in-silico protocol for the development and evaluation of new HCV polymerase inhibitors, Accepted in the 4th International Conference on Drug Discovery and Innovation, Dubai, February 2012.




  1. Antar G & ElHefnawi M: “Rational drug design for identifying novel Influenza RNA polymerase inhibitors”, accepted in the 4th International Conference on Drug Discovery and Innovation, Dubai, February 2012.




  1. ElHefnawi M, Zada S, Amer M:” Novel targets for Hepatoma-deregulated miRNAs portrays the hall marks of cancer”: 10th International conference on bioinformatics (InCoB 2011), Kuala lumpur, Malaysia, November 2011.




  1. ElHefnawi M et. Al.:”The design of optimal therapeutic small interfering RNA molecules targeting diverse strains of Influenza A virus”: Late breaking paper presentation, InCoB 2011, Kuala lumpur, Malaysia, November 2011.




  1. Maysara M, Gerabaldi J, ElHefnawi M:” MysiRNA-Designer: a workflow for efficient siRNA design considering splice variants, target accessibility, and offtargets”: Demo presentation, InCoB 2011, Kuala Lumpur, November 2011.




  1. Sherif F, Kadah Y, ElHefnawi M: “Classification of Human vs. non-human Influenza A virus”: Proc. 1st Middle East Conference on Biomedical Engineering, IEEE Explorer, Sharka, March 2011. “



  1. ElHefnawi et. Al., International Conference on Bioinformatics for Infectious Diseases ISCB Africa: Potential candidate inhibitors of the NS5b polymerase of HCV virus, South Africa, Poster, March 2011.




  1. ElHefnawi et. Al., International Conference on Bioinformatics for Infectious Diseases ISCB Africa:” SchistosomaMansoni drug and vaccine design”,Poster, Cape Town, March 2011.




  1. ElHefnawi et. Al., International Conference on Bioinformatics for Infectious Diseases ISCB Africa:”Novel design and selection of efficient small interfering RNA molecules targeting the Hepatitis C virus”, Poster, Cape Town, March 2011.




  1. ElHefnawi M, ElBahnasawy S and ElLakkani A: Human miRNAs Targeting the Influenza Flu.Presented in the ISCB Bioinformatics conference for Africa young researcher forum day, Cape Town,and Poster in ISCB Africa, March 2011.




  1. Mysara & ElHefnawi: MysiRNA: A model for improving siRNA efficacy prediction, International Conference on Bioinformatics for Infectious Diseases ISCB Africa, Cape Town, March 2011.




  1. ElHefnawi et. Al.,” Novel design and selection of efficient universal siRNAs targeting the Hepatitis C Virus”, International Conference on Bioinformatics for Infectious Diseases ISCB Africa, Poster, March 2011.




  1. ElHefnawi M , Zada S, Omar M: Novel Inhibitors of the RNA-Dependent RNA Polymerase of Hepatitis C Virus, 3rd International Conference on Drug Discovery and Innovation (ICDD 2011), Dubai, February 2011.




  1. ElHefnawi et.al. :” Rational design of siRNAs targeting diverse strains of influenza a virus”, International conference on applications of biotechnology (ICAB 2010), Khartoum, Sudan.




  1. ELHefnawy M: Different In Silico Approaches for Hepatitis C Virus Therapies: Optimizing siRNA as Gene Therapy and Docking Studies of Novel Benzimidazole Derivatives ' presented at world congress of virus and infections, The WORLDSummit of Antivirals (WSA); Session: HCV SMALL MOLECULE INHIBITORS, BUSAN, South Korea, AUGUST 2010.




  1. ElHefnawi M, El-Aaidy O, Hassan N, El-Azab I, Kamar M and Siam R: A Comprehensive Methodology for Optimal Design and Selection of Therapeutic Small Interfering RNA Molecules for Influenza A virus. Joint ISCB ASBCB International Conference on Bioinformatics for Diseases in Africa, Maly, December 2009.

  2. ElHefnawi M, Mohamed M and Zada S: Optimal Design of Small Interfering RNA Molecules Targeting IRES Sub-domains of Hepatitis C Viral Genome. 7th FAIS. Conference (Bridging Africa and Fostering International Development Capacity Building Cooperation Immunology and Research), Sharm El-Shiekh, November 2009.

  3. Zada S , ElHefnawi M, El-Ahwany E and Rabie I: Epidemiology of Schistosomiasis and Fascioliasis in Egypt”, 2eme Conference Scientifique mediterraneenne Parmenides-GID Espace Mediterraneen de la Science (Science and Health in the Mediterranean Countries: Genes, Pathogens and the Environment), Accademia Nazionale dei Lincei, Rome, October 2009.

  4. ElHefnawi M, Kamar M, Adel H: “In silico discovery of influenza pandemics and virulence”,(poster, International conference on applications of biotechnology (ICAB09).

  5. ElHefnawi M, Ghalwash A, Youssif A and El-Behaidy W: An Integrative In Silico Model of Hepatitis C Virus Non-structural 5A Protein. BIOCOMP, August 2009. Speaker and Conference proceeding article.

  6. ElHefnawi M and Zada S: Natural Genetic Engineering of Hepatitis C Virus NS5a Protein for Immune System Counterattack. Natural Genetic Engineering & Genome Editing Symposium, Austria, July 2008.

  7. ElHefnawi M, Momtaz S and El-Azab I: Finding Signatures for Response to IFN Treatment for Chronic Hepatitis C Virus Patients with Genotypes 1a, 1b, and 3a: A Multi-Bioinformatics Approach. World Summit of Antivirals, July 2008.

  8. ElHefnawi M and El-Awady M: Chronic Hepatitis C Virus Clearance Is Associated With An Altered Internal Ribosome Entry Site (IRES) III d Stem Loop Structure Variant. The First African Structural Biology Conference in South Africa, October 2006.

Proceedings of National Journals & Conferences:

  1. Basyouni F, ElHefnawi M, AbdelRahim M: “Synthesis, antioxidant and antibacterial activities and QSAR and docking studies of new benzimidazole-2,3-dihydro-1H-pyrazoles, (1,3,4-oxadiazol-2-yl) -1H-benzimidazols and (1,3,4-oxadiazol-2-yl)-1, 5-dihydro-[1,2,4] triazolo[1,5-a] pyridine derivatives”, accepted in Egyptian Pharmaceuticals Journal, 2012.

  2. Farouk F, Kadah Y and ElHefnawi M: Genomic Signatures and Associative Classification of the Hemagglutinin Protein for Human Versus Avian Versus Swine Influenza A viruses. Proc.-28th National Radio Conference, April 2011.



  1. ElHefnawi M: In Silico Technologies for Lead Identification and Optimization. The Seventh Arab Pharmaceutical Meeting, May 2010.




  1. ElHefnawi M, Amer M and Zada S: Bioinformatics Discovery of Novel Targets for MicroRNAs Differentially Expressed in Hepatocellular Carcinoma Enriched for Tumorogenesis and Metastasis. The Twelfth International Meeting of the Egyptian Society for Clinical chemistry and Microbiology, April 2010.




  1. El-Hefnawi M and Zada S: Applications of Bioinformatics in Hematology: An update on Translational and Clinical Bioinformatics. The International Conference of the Egyptian Society of Hematology, March 2010.




  1. Abdel Samee N, Solouma N, El-Hefnawy M, Ahmed S and Kadah Y: Identifying Candidate Informative Genes for Biomarker Prediction of Liver Cancer. Proc., 27th National Radio Science Conference, Menouf, Egypt, March 2010.



  1. Momtaz S, El-Azab I, El-Mahdy S, El-Ola S and ElHefnawi M: Evaluation of Multiple Sequence Alignment Algorithms for Highly Divergent Sequences. The Cairo University Faculty of Engineering Journal. August 2008.



  1. El-Hefnawi M, El-Behady W, Youssif A and Ghalwash A: A Systematic In Silico Analysis of Hepatitis C Virus Non-Structural 5A (NS5A) Protein: New Insights into Its Protein Binding Motifs and Signal Transduction Interception. The First International Conference on Nanotechnology, Biotechnology & Bioinformatics, January 2009.

  2. Hana B, Mansour N and ElHefnawi M: Structural and Functional Analysis of Membrane Transporters, in MDR and XDR Strains of Mycobacterium Tuberculosis. The First International Conference on Nanotechnology, Biotechnology & Bioinformatics, January 2009.

  3. ElHefnawi M: Bioinformatics (An update). 3rd International Conference of Engineering Research Division. The National Research Centre, January 2008.

VI- Teaching Experience

Years, Institute & Position

Courses

    1. ,

Egyptian Japanese University for Science & Technology (EJUST) Associate Professor

Advanced methods and algorithms (CS-640)

2010, Cairo University Biotechnology BSc special program

Lecturer

Applications of Bioinformatics (BioT412).

Statistical Bioinformatics (BioM316).

2008-2010, Information Technology Institute (ITI)-Graduate Diploma in bioinformatics and rational drug design

Track coordinator and cofounder

  • Bioinformatics & Computational Biology I & II (Algorithms &statistical bioinformatics).

  • Structure & Function of Biomolecules).

  • Genetic Mechanisms, Molecular Biology.

  • Readings and Research in Bioinformatics.

  • Introduction to Bioperl.

  • Current Topics in Proteomics.

  • Mathematical & Computational Modeling of Biological Systems.

  • Rational drug design and chemoinformatics

  • Statistical analysis of Microarrays

2007 –2010, Scientific Institute and Research Academy (SIRA)

Lecturer & program head

SIRA Diploma of Bioinformatics (Basic and Advanced).

Practical Workshops in Bioinformatics and rational drug design.

2008 & 2009, AUC Biotechnology MSc Program

Adjunct Lecturer

Fundamentals of Bioinformatics (BIOT521).


VII- Awards, Recognition and Social Miscellaneous Activities
US and Egyptian and Korean Patent in submission: ‘In silico design and in vitro validation of siRNAs targeting multiple hepatitis C virus genotypes

  • Book Editor: “Recurrent Neural Networks & Soft Computing”, In Tech Publishing, 2012.

  • M.Sc. and Ph.D. Supervisions in biomedical sciences in Bioinformatics, information Technology, Biomedical engineering, Biochemistry, Pharmacy, Biophysics, and agriculture faculties ( total ~15 supervisions).

  • ITI biomedical informatics graduation projects supervisor (2009-2010).

  • Co-organiser of the 1st international conference on biotechnology and nanotechnology, NRC, Egypt, 2009.

  • Organizer of many specialized and general workshops on bioinformatics and rational drug design.

  • Reviewer for the PLOS1 journal,Immunology Research, Tumour Biology, Egyptian Informatics Journal, BMC Genomics, BMC Bioinformatics, 21st International conference on databases and expert systems applications (DEXA 2010),InCoB 2012, Journal of Genetic Engineering and Biotechnology, Medicinal Chemistry Research,Introduction to sequence analysis and Bioinformatics, Journal of interdisciplinary Research and others.

  • Referee for The Italian Academy of Science Projects (2009), and the science and technology development fund (STDF) US-Egypt projects, and Egyptian French projects Expert panel for review member.

  • Member of International societies like: European Association for Study of Liver Disease (EASL), International society of computational biology (ISCB),International society for biocuration (ISBC), African society of bioinformatics and computational biology (ASBCB), and several Egyptian biotechnological, medical and scientific societies.

  • Who’s Who nomination for 2011.

  • International Biographical Centre (IBC) top 100 scientists nomination for 2012 (Cambridge, England).

  • External examiner for MSc thesis for AUC Biotechnology MSc program, and other universities.

  • Cairo University research paper awards 2010-2011.

  • Contributing editor for two journals: American journal of virology & Journal of Computer Graphics, 2012.

  • Dr Mohamed AbdelSalam award for excellence in biological sciences, Egyptian Academy of Scientific Research and Technology (ASRT), 2012.

  • Highest points for research certificate, National Research Centre, 2009 & 2011.

  • Social Responsibilities: Project Leadership Responsibilities Including:

-Organizing, Assembling and Coordinating Workgroups, Technical and Financial Work-Plan for Project Budget over 2 Million Pounds.

-Design & Implementation of many Proposals and Strategic Plan for “Hepatitis C and Blood Born Viruses Awareness and Combat” as NGO work. National Project at Nahdet El-Mahrousa.


VIII- References


  • Professor Dr. Ashraf Elfiqi (Vice president in AUC): elfiqi@aucegypt.edu.

  • Dr. Andrea Savarino, Department of Infectious, Parasitic and Immune-mediated Diseases at The Italian Institute of Health (Istituto Superiore di Sanità), Rome, Italy(andrea.savarino@iss.it )

  • A.Prof. Dr. Rania Siam, Director, Biotechnology M.Sc. program, Assistant Professor, Biology Department. The American University in Cairo, rsiam@aucegypt.edu.

  • Professor Dr. Suher Zada: Professorof Immunology at AUC: suzada@aucegypt.edu.

  • A.Prof. Fareed Aboul-Ela (Louisiana State University, fareed@aboulela.com ).

  • Dr. Christian Shawnback, Japan.

  • Dr. Marco Sgarbanti (ISS), Italy.

References and documents are furnished upon request.


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