Keynote Speech
1.Lahijan systems Microbiology
2.Ali Masoudi-Nejad, 2013. Systems Biology: Making sense of the Biological systems by Integration of Post-Genomics High-Throughput Data. International Symposium on Programming and Systems (ISPS 2013) Algeria, 22- 24 April. Algeria
3.Ali Masoudi-Nejad, Cognitive Systems Biology (2012) Cognitive Science; application in high stress condition. 16 May 2012 (17 Ordibehesht). Shahid Beheshti University of Medical Science, Tehran, Iran
4.Ali Masoudi-Nejad, Systems Biology and Health: Toward Systems Medicine. First National Conference of Application of Basic Sciences in Medicine. Tehran, Beheshti, 10-12 March 2011 (18-19 Esfand 1389).
5.Ali Masoudi-Nejad, Systems Biology and Diabetes. Symposium on Biophysics and Bioinformatics of Diabetes: Amyloid Frontier. Departments of Biological Sciences and Condensed Matter Physics, IASBS, Zanjan. 17 January 2011.
6.Ali Masoudi-Nejad, From Complexity of Biological Systems to Systems Biology and Systems Medicine. 11th Iranian Congress of Genetics, 22‐24 May 2010 (1‐3 Khordad, 1389), Tehran, Iran.
7.Ali Masoudi-Nejad, Genes, Genetics Systems, Systems Biology and Synthetic Biology; It is all about making sense of biological systems. 2th Iranian Congress of Bioinformatics, 9-10Oct., 2008, (9-1 Mehr 1387) Tehran, Iran
8.Ali Masoudi-Nejad, Bioinformatics in the post-genomics era: Towards Biology of the Systems. 5th Iranian Congress of Biotechnology, 10-15 Nov., 2008, (1-3 Aban 1386) Tehran, Iran.
9.Ali Masoudi-Nejad, Genes to post-genomics era: From Biological Systems to Systems Biology. 10th Iranian Congress of Genetics, 21-23 May 2008 (1-3 Khordad, 1387), Tehran, Iran.
10.Ali Masoudi-Nejad, Wheat storage protein: past, present and the future. The joint meeting of the 5th Japanese Society of Molecular Biology of Triticeae and the 27th Japanese Genetics Symposium, October 7-9, 2000, Japan.

Regular Presentation
1.Hamid Beiki, Ardeshir N Javaremi, Abbas Pakdel, Ali Masoudi-Nejad, Zhi-Liang Hu, James M Reecy. 2016. Large-scale gene co-expression network as a source of functional annotation for bovine genes. 35th International Society for Animal Genetics Conference. 23-27 July, Salt Lake City, Utah, USA
2.Ali Masoudi-Nejad, Reza Shamsaee, Mahmoud Fathy, 2014.LuCaSim: a computational framework for lung cancer modeling and simulation.5th Conference on Systems Biology of Mammalian Cells (www.sbmc2014.de). May 12th–14th. Berlin.Germany.
3.Ali Masoudi-Nejad, Javad Zahiri , et al. 2014.Human Protein-Protein Interaction Prediction via Clas-sifier Fusion Using Proteins Localization Information.5th Conference on Systems Biology of Mammalian Cells (www.sbmc2014.de). May 12th–14th. Berlin.Germany.
4.Ali Masoudi-Nejad, nazanin Hosseinkhan, et al. , 2014.Comparative Analysis of genome-scale expression network in resident microorganisms in lung .5th Conference on Systems Biology of Mammalian Cells (www.sbmc2014.de). May 12th–14th. Berlin.Germany.
5.Ali Masoudi-Nejad, Alireza meshkin , 2014.Agent-Based Approaches to Cancer Modeling: rationale, classification and successes.5th Conference on Systems Biology of Mammalian Cells (www.sbmc2014.de). May 12th–14th. Berlin.Germany.
6.Ali Masoudi-Nejad, Ali najafi, et al. 2014.Computational modeling of core regulatory elements controlling airway remodeling pathway in chronic lung diseases.5th Conference on Systems Biology of Mammalian Cells (www.sbmc2014.de). May 12th–14th. Berlin.Germany.
7.Ali Masoudi-Nejad, Isar Nassiri, et al. 2014.Sensitivity Analysis of the Brain's Signalling Network Flow.5th Conference on Systems Biology of Mammalian Cells (www.sbmc2014.de). May 12th–14th. Berlin.Germany.
8.Mahdieh Ghasemi, Maseud Rahgozar, Gholamreza Bidkhori and Ali Masoudi-Nejad (2013) Finding High Quality Functional Modules in Homo sapiens Tissue Specific PPI Networks. 12th IEEE/ACIS International Conference on Computer and Information Science (ICIS 2013). Toki Messe. June 16-20, 2013. Niigata, Japan
9.Mahdieh Ghasemi, Maseud Rahgozar, Gholamreza Bidkhori and Ali Masoudi-Nejad (2013) A New Clustering Algorithm to Find Functional Modules in Protein-Protein Interaction Networks. Tenth International Meeting on Computational Intelligence Methods for Bioinformatics and Biostatistics (CIBB 2013). 20-22 june. Valrose Castle, Nice, France
10.Iman Sharafuddin, Mehrdad Mirzaei, Masoud Rahgozar and Ali Masoudi-Nejad, 2013. Protein-Protein Interaction Network Clustering Using Particle Swarm Optimization. International Work-Conference on Bioinformatics and Biomedical Engineering (IWBBIO 2013). 18-20 March, 2013. Granada, Spain
11.Rezvan Zendehdel, Ali Masoudi-Nejad, Farshad H. Shirazi, 2013. Predicting Biomarker for Cytotoxicity Using Partial Least Square-Fourier Transform Infrared Spectroscopy (PLS FTIR). Progress in Electromagnetics Research Symposium (PIERS 2013), March 25-28, Taipei, Taiwan.
12.Ali Masoudi-Nejad, G. Bidkhori (2012) Modeling of tumor progression in non-small-cell lung cancer (NSCLC). 4th Conference on Systems Biology of Mammalian Cells. 9–11 July 2012 in Leipzig, Germany.
13.J. Zahiri, M. H. Karimi-Jafari, R. Ebrahimpour, Ali Masoudi-Nejad, A. Emamjomeh, O. Yaghoubi (2012) Using GO annotation clustering to improve protein-protein interaction prediction. 4th Conference on Systems Biology of Mammalian Cells. 9–11 July 2012 in Leipzig, Germany.
14.G. Bidkhori, Z. Narimani, Ali Masoudi-Nejad (2012) Reconstruction of CNV-related co-expression network in non small cell lung cancer (NSCLC) .4th Conference on Systems Biology of Mammalian Cells. 9–11 July 2012 in Leipzig, Germany.
15.J. zahiri, R. Ebrahimpour, M.H. Karimi-Jafari, Ali Masoudi-Nejad, A. Emamjomeh (2012) A novel ensemble learning method for protein protein interaction prediction .4th Conference on Systems Biology of Mammalian Cells. 9–11 July 2012 in Leipzig, Germany.
16.Ali Salehzadeh-Yazdi, Ali Masoudi-Nejad, Ali Akbar Saboury, Shiva Akbari-Birgani (2012) Hubs and Non-Hubs in Protein-Protein Interaction Networks: A Biophysical Interpretation. BIOKDD '12 as part of 23rd International Conference on Database and Expert Systems Applications - DEXA 2012. Vienna (Austria) September 3 - 6, 2012
17.Hamid ravaee, Ali Masoudi-Nejad (2011) Finding Protein Complexes via Fuzzy Learning Vector Quantization Algorithm. The Third International Conference on Bioinformatics, Biocomputational Systems and Biotechnologies BIOTECHNO May 22-27, Venice/Mestre, Italy
18.Ali Masoudi-Nejad, Sadegh Azimzadeh jamalkandi. Small RNA Based Silencing in Caenorhabditis elegans Development: a Fully-Integrated Pathway. The 4th Annual Congress of Molecular Diagnostic, September 22-24 Beijing, China
19.Hamid Ravaee, Ali Masoudi-Nejad, Saeed Omid, Ali Moini (2010) Improved Immune Genetic Algorithm for Clustering Protein-Protein Interaction Network. IEEE International Conference on Bioinformatics and Bioengineering (BIBE2010). 31 May-3 June, Philadelphia, PA, USA. Oral Presentation
20.Ali Masoudi-Nejad (2010) Biological Network and Network Motifs. 4th World Congress of Gene, 1-4 December, China
21.Ali Masoudi-Nejad, Ali Salehzadeh Yazdi, Ehsan Habibi, Yazdan Asgari, Fatemeh Miri Disfani, Ali Akbar Sabouri and Samad Jahandideh (2010) Biophysical Interpretation of Hubs in Protein-Protein Interaction Networks. EMBO Meeting 2010. Barcelona, Spain.
22.Sara Movahedi, Ali Masoudi-Nejad, Ruy Jauregui (2008) Genome Scale Analysis of Curvature, CpG Island and Repeats in Arabidopsis and Rice. XX International Congress of Genetics. 12 – 17 July, Berlin, Germany.
23.Hesam T. Dashti, Ali Masoudi-Nejad, Nasim Jamali (2008) Using Support Vector Machines in Biological Sequences Assembly. 5th International Symposium on Integrative Bioinformatics. 20-22 August, Wittenberg, Germany.
24.Shirin Nasr Isfahani, Ali Masoudi-Nejad (2008) A New Approach for Touching Cells Segmentation. International Conference on BioMedical Engineering and Informatics (BMEI2008), 27-30 May, Sanya, Hainan, China
25.Ali Masoudi-Nejad, Ruy Jauregui, Shuichi Kawashima, Susumu Goto, Minoru Kanehisa and Takashi R. Endo (2004) The kingdom of Plantae EST Indices: a resource for plant genomics community. Genome Informatics 2004. PP-102. The 15th International Conference on Genome Informatics December 16-18, 2004, Yokohama Pacifico, Japan.
26.Cheniany, Monireh., Ebrahimzade, Hasan., Vahdati, Kourosh., Masoudi-Nejad, Ali. Endogenous Phenolic Contents, Peroxidase and Polyphenoloxidase Activities in Shoot Microcuttings from Persian Walnut (Juglans regia L.) Cultivars. The 6th International Walnut Symposium, February 25-27, 2009, Melbourne, Australia
27.Ali Masoudi-Nejad, Takashi Endo and Robbie Waugh. (2004) efficient method to amplify the all of a minute amount of DNA sample from plants; Implementation for single cell/chromosome analysis and high throughput gene mapping. ICBP 2004. A01-022. The 5th International Conference on Biological Physics August 23-27, 2004, Gothenburg, Sweden.
28.Ali Masoudi-Nejad, Paul. H. Dear and Robbie. Waugh (2004) A Technology for Ultra Rapid Mapping of Complex Genomes. The 9th International Genetics Symposium June 20-26, 2004. Brno Trade Fairs, Brno, Czech Republic.
29.Ali Masoudi-Nejad (2000) Wheat storage protein: Past, present and future. The 5th Japanese Society of Molecular Biology of Triticeae and the 27th Japanese Wheat Genetics Symposium, October 7-9, 2000. Gifu, Japan.
30.Ali Masoudi-Nejad, Minoru Kanehisa and Susumu Goto. (2006) Eassembler: Online Bioinformatics Tool for Large-Scale Clustering and assembling ESTs and Genomic DNA. The Applied Computing. February 25-28, 2006, San Sebastian, Spain.
31.Ali Masoudi-Nejad, Minoru Kanehisa and Susumu Goto. (2006) EGENES: Plant Metabolic Pathway Information Database, a Bioinformatics Resource for Plant Research Community. Genomes to Systems Conference. March 22-24, 2006, Manchester International Convention Center, UK.
32Luke Ramsay, Nicola Bonar, Malcolm Macaulay, Ali Masoudi-Nejad, Roger P. Wise, Robbie Waugh. (2006) Use of Flanking Loci To Characterise Variation At The Mla Disease Resistance Locus In Barley. Plant & Animal Genomes XIV Conference. January 14-18, 2006 Town & Country Convention Center, San Diego, CA, USA.