User:Mourad.Elloumi

Mourad Elloumi Full Professor in Computer Science

1. Personal Information

First Name : Mourad
Last Name : Elloumi
Gender : Male
Citizenship : Tunisian
Profession : Full Professor in Computer Science

Head of the BioInformatics Group (BIG) of The Laboratory of Technologies of Information and Communication, and Electrical Engineering (LaTICE), National High School of Engineers of Tunis (ENSIT), University of Tunis, Tunisia, and Professor at the Faculty of Economic Sciences and Management of Tunis (FSEGT), University of Tunis-El Manar, Tunisia.

Email : Mourad.Elloumi@gmail.com

2. Academic Qualifications

  * 2003 : Habilitation for conducting research in Computer Science, National School of Informatics (ENSI), University of Manouba, Tunisia.
  * 1994 : PhD in Computer Science, University of Aix-Marseilles III, France.
  * 1989 : Master's Degree in Computer Science, University of Aix-Marseilles III, France.
  * 1988 : Master's Degree in Computer Engineering, Faculty of Sciences of Tunis (FST), University of Tunis-El Manar, Tunisia.

3. Professional Experience

Full Professor in Computer Science at the FSEGT since March 2011.
Associate Professor in Computer Science at the FSEGT, from October 2005 to March 2011.
Assistant Professor in Computer Science at the FSEGT, from September 1997 to October 2005.
Teaching Assistant in Computer Science at the FSEGT, from September 1995 to September 1997.

4. Experience in Teaching Teachings at the FSEGT since September 1995, as a permanent teacher, and teachings in other academic institutions, as a temporary teacher :

ENSIT: 06–07 to 10-11
FST: 04–05 and 05–06
ENSI: 03–04
National School of Engineers of Tunis (ENIT): 00–01

5. Invited Professor

Invited Professor at The Department of Computer Science and Engineering, Indian School of Mines, Dhanbad, India in 2014-15.
Invited Professor at The Exelixis Lab, Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Germany, for a period of fifteen (15) days in 2014.
Invited Professor at the Department of Informatics, King’s College London, London, UK, for a period of thirty five (35) days in 2011.
Invited Professor at the Laboratoire d'Etude et de Recherche en Informatique d'Angers (LERIA), University of Angers, Angers, France, for a period of fifteen (15) days in 2010.
Invited Professor at the Dipartimento di Matematica ed Informatica (DIMI), University of Udine, Udine, Italy, for a period of fifteen (15) days in 2007.

6. Research Topics

Algorithmics
Bioinformatics
Knowledge Discovery and Data Mining

7. Supervision of PhD Theses

Number of theses defended : 4
Number of theses in course : 6

Thesis 1. Title : Algorithms for Knowledge Extraction from Biological Data Student : Fawzi Mhamdi Supervisor(s) : Mourad Elloumi Date of Defense : 27 February 2010 Distinction : Very honorable

Thesis 2. Title : Heuristics and Metaheuristics for Microarray Data Biclustering Student : Wassim Ayadi Supervisor(s) : Mourad Elloumi and Jin-Kao Hao (University of Angers, France) Date of Defense : 2 December 2011 Distinction : Very honorable

Thesis 3. Title: Motif Finding in Strings Coding Biological Macromolecules: Case of Simple Motifs Student : Tarek El Faleh Supervisor(s) : Mourad Elloumi and Thierry Lecroq (University of Rouen, France) Date of Defense : 12 July 2012 Distinction : Very honorable

Thesis 4. Title : Alignment of Strings Coding Biological Macromolecules Student : Ahmed Mokaddem Supervisor(s) : Mourad Elloumi Date of Defense (Planned) : January 2014

Thesis 5. Title : Algorithms of Construction of an Indexing Structure for Next-Generation Sequencing Data Student: Nadia Ben Nsira Supervisor(s) : Mourad Elloumi and Thierry Lecroq (University of Rouen, France) Date of Defense (Planned) : June 2015

Thesis 6. Title : Contribution to the Biclustering of Microarray Data Student: Haifa Ben Saber Supervisor(s) : Mourad Elloumi Date of Defense (Planned) : June 2016

Thesis 7. Title : Learning and Optimization for the Study of the Relationship between Spatial Organization, Regulation and Expression of Genomes Student: Khouloud Madgbouh Supervisor(s) : Mourad Elloumi, Mohamed Elati and François Képès (University of Evry, France) Date of Defense (Planned) : June 2016

Thesis 8. Title : Algorithms of Selection of Attribute Associated to Biological Data Student: Hanen Mhamdi Supervisor(s) : Mourad Elloumi and Fawzi Mhamdi Date of Defense (Planned) : June 2016

Thesis 9. Title : Error Aware Event Mining in Biological Sequences Student: Salma Aouled El Haj Mohamed Supervisor(s) : Mourad Elloumi and Julie Thompson (University of Starsbourg, France) Date of Defense (Planned) : June 2017

Thesis 10. Title : Complex Genome Assembly Mixing Long and Short Reads Student: Mehdi Kchouk Supervisor(s) : Mourad Elloumi and Dominique Lavenier (University of Rennes 1, France) Date of Defense (Planned) : June 2017

8. Supervision of Masters

Number of masters defended : 10

Master 1. Title : Algorithms of DNA Assembly Student : Safa Kaâbi Supervisor : Mourad Elloumi Date of Defense : 12 December 1998 Distinction : Very good

Master 2. Title : Algorithms of Construction of a Longest Common Subsequence to a Set of Strings Student : M’barek Tarchi Supervisor : Mourad Elloumi Date of Defense : 15 July 2005 Distinction: Good

Master 3. Title : Algorithms of Comparison of Strings Coding Biological Macromolecules Student: Ahmed Mokaddem Supervisor : Mourad Elloumi Date of Defense : 2 June 2008 Distinction : Very good

Master 4. Title : Algorithms for the Minimum Fragment Removal Problem Student : Amira Mnif Supervisor : Mourad Elloumi Date of Defense : 19 February 2009 Distinction : Good

Master 5. Title : Algorithms of Multiple Global Alignment of Biological Sequences Student : Soumaya Hosni Supervisor : Mourad Elloumi Date of Defense: 6 November 2009 Distinction : Very good

Master 6. Title : Motif Search Algorithms in a Set of Strings Coding Biological Macromolecules Student: Wiem Trabelsi Supervisor : Mourad Elloumi Date of Defense : 22 February 2010 Distinction : Good

Master 7. Title : String Barcoding Student : Farouk Jelidi Supervisor : Mourad Elloumi Date of Defense : 21 May 2010 Distinction : Very good

Master 8. Title : Construction of a Shortest Common Superstring and DNA Sequence Assembly Student: Sofien Melki Supervisor : Mourad Elloumi Date of Defense: 21 May 2010 Distinction: Good

Master 9. Title : Algorithms for the Problem of Genomes Rearrangement by Inversion Student: Sana Samet Supervisor : Mourad Elloumi Date of Defense : 5 December 2013 Distinction: Good

Master 10. Title : Algorithms for Multiple Sequence Alignment based on a Biclustering Technique Student: Chaima Neffati Supervisors : Mourad Elloumi and Wassim Ayadi Date of Defense : 21 February 2014 Distinction:

Master 11. Title : Algorithms of Multiple Alignments Refinement Student: Safa Ben Hassoun Supervisors : Mourad Elloumi and Tarek El Faleh Date of Defense :

Master 12. Title : New Index Structures to Detect Motifs in Biological Sequences Student: Khaled Fayala Supervisors : Mourad Elloumi and Tarek El Faleh Date of Defense :

Master 13. Title : Graphical Representation of Protein Networks Student: Yasmine Bahri Supervisors : Karim Mezhoud and Mourad Elloumi Date of Defense :

9. Participation to Masters in Computer Science ● Course in the framework of the master in Computer Science of the ENSIT, entitled Algorithms on Biological Sequences (30 hours) : 06–07 to 10-11. ● Course in the framework of the master in Computer Science of the FST, entitled Algorithms on Strings (14 hours) : 04–05 and 05–06.

10. Participation to Habilitations, PhD Theses and Masters Juries

Academic Habilitations

● Examiner of the academic habilitation in Computer Science of Sadok Ben Yahia (FST, July 2008).

PhD Theses Participation to twelve (12) juries of PhD theses in Computer Science :

● Reviewer of the PhD theses of : 1. Mariem Siala (INSA Lyon, France, June 2008) 2. Mariem Ennigrou (ISG, Tunis, April 2010) 3. Inès Hamdi (ENSI, Tunis, May 2010) 4. Tai-Chun Wang (University of Sydney, Australia, December 2011) 5. Samir Arem (FEGT, Tunis, February 2013) 6. Emanuel Weitschek (Roma Tre University, Rome, Italy, June 2013) 7. Amel Ghouila (University of Montpellier 2, France, December 2013)

● Examiner of the PhD theses of : 8. Lilia Cheniti (FST, April 2008) 9. Moez Ben Haj Hmida (FST, December 2012)

● Supervisor of the PhD theses of : 10. Fawzi Mhamdi (FST, February 2010) 11. Wassim Ayadi (University of Angers, France, December 2011) 12. Tarek El Faleh (University of Rouen, France, July 2012) 13. Ahmed Mokaddem (FST, May 2014)

Masters Chairing more than thirty five (35) juries of masters in Computer Science.

11. Evaluation of Scientific Papers

■ Evaluation of papers submitted to the following journals : ● BioData Mining Journal, Springer Science+Business Media, (Berlin, Germany) ● IEEE/ACM Transactions on Computational Biology and Bioinformatics (Washington, DC, USA) ● Annals of Software Engineering, Baltzer Science Publishers (Bussum, The Netherlands) ● Bioinformatics, Oxford University Press (Oxford, United Kingdoom) ● IEEE Software (Los Alamitos, California, USA) ● IEEE Transactions on NanoBioscience (Piscataway, New Jersey, USA) ● International Journal of Computing and Information Sciences, Elsevier Publishing Co. (Amsterdam, North-Holland) ● Journal of Intelligent Systems, Freund & Pettman Publishing House (Hull, East Yorkshire, England) ● Knowledge Based Systems Journal, Elsevier Publishing Co. (Amsterdam, North-Holland) ● Mathematical Problems in Engineering, Hindawi Publishing Corporation (New York, USA)

■ Evaluation of papers submitted to the following international conferences :

        ● EURO Mini-Conference on Optimization in the Natural Sciences (Aveiro, Portugal) : (February
2014)

● The 6th International Conference on Computational Collective Intelligence Technologies and Applications, ICCCI’14 (Seoul, Korea) : (September 2014) ● The 6th Asian Conference on Intelligent Information and Database System, ACIIDS’14 (Bangkok, Thailand) : (April 2014). ● Combinatorial Pattern Matching, CPM’11 (Palermo, Italy) : (June 2011). ● International Conference on Information Technology in Bio and Medical Informatics, ITBAM’10 (Bilbao, Spain) : (September 2010). ● The First International Conference on Advances in Bioinformatics and Applications, BIOINFO’10 (Cancun, Mexico) : (March 2010). ● Apprentissage et Graphes pour les Systèmes complexes, AGS’09 (Hammamet, Tunisia) : (May 2009). ● The 2007 International Conference on Bioinformatics & Computational Biology, BIOCOMP'07 (Las Vegas, Nevada, USA) : (June 2007). ● 4th Int. Conf. on Soft Computing, Optimization, Simulation & Manufacturing Systems, SOSM’04 (Miami, Florida, USA) : (April 2004).

    ● Atlantic Symposium on Computational Biology and Genome Information Systems & Technology, CBGI'03 (Cary, North Carolina, USA) : (September 2003).

12. Edition of Books, Journals and Proceedings

● Algorithms for Next-Generations Sequencing Data: Techniques, Approaches and Applications, M. Elloumi (Ed.), Springer, Heidelberger, Germany (Publish.) : (To Appear, 2017).

● Pattern Recognition in Computational Molecular Biology: Techniques and Approaches, M. Elloumi, C. S. Iliopoulos, J. T. L. Wang, A. Y. Zomaya (Eds.), Wiley Book Series on Bioinformatics: Computational Techniques and Engineering, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (Publish.) : (To Appear, 2016).

● Biological Knowledge Discovery Handbook: Preprocessing, Mining and Postprocessing of Biological Data, M. Elloumi, A. Y. Zomaya (Eds.), Wiley Book Series on Bioinformatics: Computational Techniques and Engineering, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (Publish.) : (January2014).

● Algorithms in Computational Molecular Biology : Techniques, Approaches and Applications, M. Elloumi, A. Y. Zomaya (Eds.), Wiley Book Series on Bioinformatics : Computational Techniques and Engineering, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (Publish.) : (February 2011).

● Current Advances in Bioinformatics Journal, M. Elloumi (Editor-inChief), American V-King Scientific Publishing, New York, USA (Publisher) : (Since 2013).

● Recent Patents on DNA and Gene Sequence Journal, Special Issue on Pattern Finding in Computational Molecular Biology, Vol. 7, No. 2, M. Elloumi (Guest Editor), Bentham Science Publishers, Bussum, The Netherlands (Publisher) : (2013).

● Knowledge Based Systems Journal, Special Issue on Biological Knowledge Discovery and Data Mining, Vol. 15, Issue 4, M. Elloumi (Guest Editor), Elsevier Publishing Co., Amsterdam, North-Holland (Publisher) : (May 2002)

● Proceedings of the 2nd International Conference on Bioinformatics Research and Development, BIRD’08 (Vienna, Austria), M. Elloumi et al. (Eds.), Communications in Computer and Information Science (CCIS), Springer-Verlag, Berlin, Heidelberg, Germany (Publish.) : (July 2008).

13. Workshops Organization

● Biological Knowledge Discovery and Data Mining, BIOKDD'13, 24th International Conference on Database and Expert Systems Applications, DEXA'13 (Prague, Czech Republic) : (August 2013). ● Biological Knowledge Discovery and Data Mining, BIOKDD'12, 23rd International Conference on Database and Expert Systems Applications, DEXA'12 (Vienna, Autria) : (September 2012). ● Biological Knowledge Discovery and Data Mining, BIOKDD'11, 22nd International Conference on Database and Expert Systems Applications, DEXA'11 (Toulouse, France) : (September 2011). ● Algorithms and Bioinformatics, 8th ACS/IEEE International Conference on Computer Systems and Applications, AICCSA’10 (Hammamet, Tunisia) : (May 2010). ● Biological Knowledge Discovery and Data Mining, BIOKDD'09, 20th International Conference on Database and Expert Systems Applications, DEXA'09 (Linz, Austria) : (September 2009). ● Algorithms in Molecular Biology, ALBIO'08, 2nd International Conference on Bioinformatics Research and Development, BIRD'08 (Vienna, Austria) : (September 2008). ● Biological Knowledge Discovery from Databases, Atlantic Symposium on Computational Biology and Genome Information Systems & Technology, CBGI'03 (Cary, North Carolina, USA) : (September 2003). ● Knowledge Discovery and Data Mining in Biological Databases, The 2001 International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences, METMBS'01 (Las Vegas, Nevada, USA) : (June 2001).

14. List of Papers

International Journals

• 2013 1. [El Falah et al. 13] : T. El Faleh, Th. Lecroq, M. Elloumi, Extraction of Infrequent Simple Motifs from a Finite Set of Sequences using a Lattice Structure, Recent Patents on DNA and Gene Sequences, Vol. 7, No. 2, Bentham Science Publishers, Bussum, The Netherlands (Publisher) : (2013).

• 2012 2. [Ayadi et al. 12c] : W. Ayadi, M. Elloumi, J. K. Hao, BiMine+: An efficient algorithm for discovering relevant biclusters of DNA microarray data, Knowledge Based Systems Journal, Vol. 15, Issue 4, Elsevier Publishing Co., Amsterdam, North-Holland (Publisher) : (May 2012). 3. [Ayadi et al. 12b] : W. Ayadi, M. Elloumi, J. K. Hao, Pattern-Driven Neighborhood Search for Biclustering of Microarray Data, BMC Bioinformatics, BioMed Central, Ltd., London, United Kingdom (Publisher) : (May 2012). 4. [Ayadi et al. 12a] : W. Ayadi, M. Elloumi, J. K. Hao, BicFinder: A Biclustering Algorithm for Microarray Data Analysis, Knowledge and Information Systems, An International Journal, Volume 30, Issue 2, Springer-Verlag London Ltd., London, United Kingdom (Publisher) : (January 2012), p341-358.

• 2009 5. [Ayadi et al. 09] : W. Ayadi, M. Elloumi, J. K. Hao, A Biclustering Algorithm Based on a Bicluster Enumeration Tree: Application to DNA Microarray Data, BioData Mining Journal, 2:9, Springer Science+Business Media, Berlin, Germany (Publish.) : (December 2009). • 2008 6. [Elloumi and Mokaddem 08b] : M. Elloumi, A. Mokaddem, A Heuristic Algorithm for the N-LCS Problem, Journal of Applied Mathematics, Statistics and Informatics (JAMSI), Vol. 4, N°1, The University of Saint Cyril and Metodius, Trnava, Slovak Republic (Publisher) : (May 2008), p17-27.

• 2006 7. [Mhamdi et al. 06b] : F. Mhamdi, R. Rakotomalala, M. Elloumi, A Compromise between N-gram Length and Classifier Characteristics for Protein Classification, International Journal of Computer Science and Network Security, Vol. 6, N°4 : (April 2006).

• 2005 8. [Elloumi and Maddouri 05] : M. Elloumi, M. Maddouri, New Voting Strategies Designed for the Classification of Nucleic Sequences, Knowledge and Information Systems, An International Journal, Vol. 8, N°1, Springer-Verlag London Ltd., London, United Kingdom (Publisher) : (July 2005).

• 2004 9. [Maddouri and Elloumi 04] : M. Maddouri, M. Elloumi, Encoding of Primary Structures of Biological Macromolecules within a Data Mining Perspective, Journal of Computer Science and Technology, Vol. 19, N°1, Special Issue on Bioinformatics, Chinese Academy of Sciences, Beijing, China (Publisher) : (January 2004).

• 2002 10. [Maddouri and Elloumi 02] : M. Maddouri, M. Elloumi, A Data Mining Approach based on Machine Learning Techniques to Classify Biological Sequences, Knowledge Based Systems Journal, Vol. 15, Issue 4, Elsevier Publishing Co., Amsterdam, North-Holland (Publisher) : (May 2002), p217-223.

• 2001 11. [Elloumi 01b] : M. Elloumi, Algorithms for the Prediction of Secondary Structures of RNA Macromolecules, Journal of Computational Technologies, Vol. 6, N°5, Siberian Branch, Russian Academy of Sciences, Novosibirsk, Russia (Publisher) : (October 2001), p3-23.

• 2000 12. [Elloumi 00d] : M. Elloumi, Algorithms for the Shortest Exact Common Superstring Problem, South African Computer Journal, N°26, Computer Society of South Africa, Johannesbourg, South Africa (Publisher) : (November 2000), p22-26.

• 1998 13. [Elloumi 98b] : M. Elloumi, Comparison of Strings Belonging to the Same Family, Information Sciences, An International Journal, Vol. 111, Issue 1-4, Elsevier Publishing Co., Amsterdam, North-Holland (Publisher) : (November 1998), p49-63.

Book Chapters

• 2016

14. [Ben Nsira et al. 16] : N. Ben Nsira, Th. Lecroq, M. Elloumi, Index Structures for Combinatorial Problems in Highly Similar Biological Sequences, in Algorithms for Next-Generations Sequencing Data: Techniques, Approaches and Applications, Springer, Heidelberger, Germany (Publish.): (To Appear, 2016).

• 2014 15. [Ayadi et al. 15] : W. Ayadi, M. Elloumi, J. K. Hao, Systematic and Stochastic Biclustering Algorithms for Microarray Data Analysis, in Microarray Image and Data Analysis: Theory and Practice, CRC Press, Boca Raton, Florida, USA. (Publish.) : (To Appear, 2015). 16. [Banka et al. 14] : H. Banka, S. Dara, M. Elloumi, Feature Selection and Classification for Gene Expression Data using Evolutionary Computation, in Biological Knowledge Discovery Handbook: Preprocessing, Mining and Postprocessing of Biological Data, Wiley Book Series on Bioinformatics: Computational Techniques and Engineering, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (Publish.) : (January 2014). 17. [Elloumi et al. 14] : M. Elloumi, M. A. Issa, A. Mokaddem, Accelerating Pairwise Alignment Algorithms by Using Graphics Processor Units, in Biological Knowledge Discovery Handbook: Preprocessing, Mining and Postprocessing of Biological Data, Wiley Book Series on Bioinformatics: Computational Techniques and Engineering, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (Publish.) : (January 2014). 18. [Valente-Freitas et al. 14] : A. Valente-Freitas, W. Ayadi, M. Elloumi, J. L. Oliveira, J. K. Hao, A Survey on Biclustering of Gene Expression Data, in Biological Knowledge Discovery Handbook: Preprocessing, Mining and Postprocessing of Biological Data, Wiley Book Series on Bioinformatics: Computational Techniques and Engineering, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (Publish.) : (January 2014). 19. [Ben Saber et al.14] : H. Ben Saber, M. Elloumi, M. Nadif, Clustering of Microarray Data, in Biological Knowledge Discovery Handbook: Preprocessing, Mining and Postprocessing of Biological Data, Wiley Book Series on Bioinformatics: Computational Techniques and Engineering, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (Publish.) : (January 2014).

• 2011 20. [Ayadi and Elloumi 11] : W. Ayadi, M. Elloumi, Biclustering of Microarray Data, in Algorithms in Computational Molecular Biology : Techniques, Approaches and Applications, Wiley Book Series on Bioinformatics : Computational Techniques and Engineering, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (Publish.): (January 2011). 21. [El Faleh et al. 11a] : T. El Faleh, M. Elloumi, Th. Lecroq, Motif Finding Algorithms in Biological Sequences, in Algorithms in Computational Molecular Biology : Techniques, Approaches and Applications, Wiley Book Series on Bioinformatics : Computational Techniques and Engineering, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (Publish.) : (January 2011). 22. [Mokaddem and Elloumi 11a] : A. Mokaddem, M. Elloumi, Algorithms for the Alignment of Biological Sequences, in Algorithms in Computational Molecular Biology : Techniques, Approaches and Applications, Wiley Book Series on Bioinformatics : Computational Techniques and Engineering, Wiley-Blackwell, John Wiley & Sons Ltd., New Jersey, USA (Publish.) : (January 2011).

International Conferences

• 2014 23. [Ben Nsira et al. 14] : N. Ben Nsira, Th. Lecroq, M. Elloumi, On-line String Matching in Highly Similar DNA Sequences, in Proc. The 2nd International Conference on Algorithms for Big Data, ICABD'14 (Palermo, Italy) : (April 2014).

• 2013 24. [Elloumi et al. 13] : M. Elloumi, P. Hayati, C. S. Iliopoulos, J. A. Mirza, S. P. Pissis, A. Shah, Comparison for the Detection of Virus and Spam using Pattern Matching Tools, in Proc. The International Conference on Technological Advances in Electrical, Electronics and Computer Engineering, TAEECE'13 (Konya, Turkey) : (May 2013). 25. [Mokaddem and Elloumi 13] : A. Mokaddem, M. Elloumi, Motalign: A Multiple Sequence Alignment Algorithm Based on a New Distance and a New Score Function, in Proc. 4th International Workshop on Biological Knowledge Discovery and Data Mining, BIOKDD'13, 24th International Conference on Database and Expert Systems Applications, DEXA'13 (Prague, Czech Republic), IEEE Computer Society Press, Los Alamitos, California, USA, (Publish.) : (August 2013).

• 2012 26. [Elloumi et al. 12] : M. Elloumi, P. Hayati, C. S. Iliopoulos, S. P. Pissis, A. Shah, Detection of Fixed length Web Spambot using REAL (Read Aligner), in Proc. The International Information Technology Conference & Exhibition, CUBE’12 (Pune, India), ACM International Conference Proceeding Series (ICPS), New York, USA (Publish.) : (September 2012). 27. [Mokaddem and Elloumi 12] : A. Mokaddem, M. Elloumi, New Distances For Improving Progressive Alignment Algorithm, in Proc. The 2nd International Conference on Advances in Computing and Information Technology, ACITY’12 (Chennai, India), Lecture Notes in Computer Science (LNCS), Springer-Verlag, Berlin, Heidelberg, Germany (Publish.) : (July 2012).

• 2011 28. [Mokaddem and Elloumi 11b] : A. Mokaddem, M. Elloumi, PAAA: A Progressive Iterative Alignment Algorithm Based on Anchors, in Proc. The 6th IAPR International Conference on Pattern Recognition in Bioinformatics, PRIB'11 (Delft, The Netherlands), Lecture Notes in BioInformatics (LNBI), Springer-Verlag, Berlin, Heidelberg, Germany (Publish.) : (November 2011). 29. [El Faleh et al. 11c] : T. El Faleh, Th. Lecroq, M. Elloumi, Experimental Evaluation of Fast Solution Algorithms for the Simple Motif Problem, in Proc. 1st International Conference on Computer Science, Engineering and Information Technology, CCSEIT'11 (Tirunelveli, Tamil Nadu, India), Communications in Computer and Information Science (CCIS) Series, Springer-Verlag, Berlin, Heidelberg, Germany (Publish.) : (September 2011). 30. [Ben Saber et al. 11] : H. Ben Saber, M. Elloumi, M. Nadif, Block Mixture Model for the Biclustering of Microarray Data, in Proc. 2nd International Workshop on Biological Knowledge Discovery and Data Mining, BIOKDD'11, 22nd International Conference on Database and Expert Systems Applications, DEXA'11 (Toulouse, France), IEEE Computer Society Press, Los Alamitos, California, USA, (Publish.) : (September 2011). 31. [El Faleh et al. 11b] : T. El Faleh, Th. Lecroq, M. Elloumi, An Efficient Motif Search Algorithm Based on a Minimal Forbidden Patterns Approach, in Proc. 5th International Conference on Practical Applications of Computational Biology & Bioinformatics, PACBB'11 (Salamanca, Spain), Advances in Intelligent and Soft-Computing Series, Springer-Verlag, Berlin, Heidelberg, Germany (Publish.) : (April 2011).

• 2010 32. [Ayadi et al. 10] : W. Ayadi, M. Elloumi, J. K. Hao, Iterated Local Search for Biclustering of Microarray Data., in Proc. The 5th IAPR International Conference on Pattern Recognition in Bioinformatics 2010, PRIB’10, (Nijmegen, The Netherlands), Lecture Notes in BioInformatics (LNBI), Springer-Verlag, Berlin, Heidelberg, Germany (Publish.) : (September 2010). 33. [Elloumi et al. 10] : M. Elloumi, F. Mhamdi, W. Trabelsi, Processus d’Extraction de Motifs Biologiques Pertinents, in Proc. 17ème Rencontres de la Société Francophone de Classification, SFC’10 (Saint Denis, La Réunion, France) : (June 2010). 34. [El Faleh et al. 10] : T. El Faleh, Th. Lecroq, M. Elloumi, SMS-Forbid: An Efficient Algorithm for Simple Motif Problem, in Proc. 2nd International Conference on Bioinformatics and Computational Biology, BICoB’10 (Honolulu, Hawaii, USA) : (March 2010).

• 2009 35. [Mhamdi and Elloumi 09] : F. Mhamdi, M. Elloumi, Algorithms for Proteins Biclustering, in Proc. The 2009 IEEE International Workshop on Bioinformatics and Life Science Modeling and Computing, BLSMC’09, (Bradford, UK), IEEE Computer Society Press (Publish.) : (May 2009). 36. [Elloumi and Mnif 09b] : M. Elloumi, A. Mnif, New Heuristic Algorithms for the Optimization Vertex Bipartization Problem, in Proc. The 45th Applied Mathematics Conference, ANZIAM’09 (Caloundra, Australia) : (February 2009). 37. [Elloumi and Mnif 09a] : M. Elloumi, A. Mnif, New Minimum Fragment Removal Heuristic Algorithms Based on a Coloring Approach, in Proc. The International Conference on Advanced Computer Control, ICACC’09 (Singapore) : (January 2009).

• 2008 38. [Mhamdi and Elloumi 08b] : F. Mhamdi, M. Elloumi, Approaches of Feature Construction from Biological Sequences, in Proc. The 3rd IAPR International Conference on Pattern Recognition in Bioinformatics, PRIB’08 (Melbourne, Australia), Lecture Notes in BioInformatics (LNBI), Springer-Verlag, Berlin, Heidelberg, Germany (Publish.) : (Octobre 2008). 39. [Elloumi and Mokaddem 08c] : M. Elloumi, A. Mokaddem, An Algorithm for Multiple and Global Alignments, in Proc. The 2nd International Conference on Bioinformatics Research and Development, BIRD’08 (Vienna, Austria), Communications in Computer and Information Science (CCIS), Springer-Verlag, Berlin, Heidelberg, Germany (Publish.) : (July 2008). 40. [Tahri and Elloumi 08] : H. Tahri, M. Elloumi, A New Approximation Algorithm for the Minimum Fragment Removal Problem, in Proc. The 2nd International Conference on Bioinformatics Research and Development, BIRD’08 (Vienna, Austria), Communications in Computer and Information Science (CCIS), Springer-Verlag, Berlin, Heidelberg, Germany (Publish.) : (July 2008). 41. [Mhamdi and Elloumi 08a] : F. Mhamdi, M. Elloumi, A New Survey on Knowledge Discovery and Data Mining, in Proc. The Second IEEE International Conference on Research Challenges in Information Science, IEEE-RCIS’08 (Marrakech, Morocco), IEEE Computer Society Press (Publish.) : (June 2008). 42. [Elloumi and Mokaddem 08a] : M. Elloumi, A. Mokaddem, A Dynamic Programming Algorithm for the Approximate String-Matching Problem, in Proc. The 2008 IEEE International Workshop on Bioinformatics and Life Science Modeling and Computing, IEEE-BLSMC’08 (GinoWan, Okinawa, Japan), IEEE Computer Society Press, Los Alamitos, California, USA, (Publish.): (March 2008).

• 2006 43. [Mhamdi et al. 06c] : F. Mhamdi, R. Rakotomalala, M. Elloumi, A Hierarchical N-Grams Extraction Approach for Classification Problem, in Proc. The 2006 IEEE/ACM International Conference on Signal-Image Technology and Internet-based Systems, IEEE/ACM SITIS'06 (Hammamet, Tunisia), Lecture Notes in Computer Science (LNCS), Springer-Verlag, Berlin, Heidelberg, Germany (Publish.) : (December 2006). 44. [Elloumi 06] : M. Elloumi, Algorithms for Processing Biological Sequences, in Proc. 1st Tunisian-German Workshop on Bioinformatics (Borj-Cédria, Tunisia) : (Septembre 2006). 45. [Mhamdi et al. 06a] : F. Mhamdi, M. Elloumi, R. Rakotomalala, Extraction et Sélection des N-Grammes pour le Classement des Protéines, in Proc. Atelier Extraction et Gestion des Connaissances Appliquées aux Données Biologiques, BIO-EGC’06 (Lille, France) : (January 2006).

• 2005 46. [Mhamdi et al. 05] : F. Mhamdi, R. Rakotomalala, M. Elloumi, Feature Ranking for Protein Classification, in Proc. 4th International Conference on Computer Recognition Systems, CORES'05 (Leszno, Poland), Lecture Notes in Computer Science (LNCS), Springer-Verlag, Berlin, Heidelberg, Germany (Publish.) : (May 2005).

• 2003 47. [Elloumi and Maddouri 03] : M. Elloumi, M. Maddouri, A Data Mining Approach based on Vote Strategies to Classify Biological Sequences, in Proc. Workshop on Discrete Mathematics and Data Mining (DM&DM), Third Society for Industrial and Applied Mathematics (SIAM) International Conference on Data Mining (San Francisco, California, USA) : (May 2003).

• 2001 48. [Maddouri and Elloumi 01] : M. Maddouri, M. Elloumi, Classification of Biological Sequences by using a Data Mining Approach, in Proc. of The 2001 International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences, METMBS'01 (Las Vegas, Nevada, USA) : (June 2001).

• 2000 49. [Elloumi 00b] : M. Elloumi, Algorithms for the DNA Sequence Assembly Problem, in Proc. of 4th World Conference on Systematics, Cybernetics and Informatics, and 6th International Conference on Information Systems Analysis and Synthesis, SCI2000/ISAS2000, Session : SCI in Biology and Medicine (Orlando, Florida, USA), International Institute of Informatics and Systemics, Illinois, USA (Eds.) : (July 2000). 50. [Elloumi 00a] : M. Elloumi, DNA Sequence Assembly Algorithms Based on Clustering Approaches, in Proc. of The 2000 International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences, METMBS'00, Vol. II (Las Vegas, Nevada, USA) : (June 2000), p717-723. 51. [Elloumi and Maddouri 00] : M. Elloumi, M. Maddouri, Discrimination Between Two Families of Strings: Application to Classification of Primary Structures of Biological Macromolecules, in Proc. of 2nd International Workshop on Biological Informatics, BIW'2000, Vol. II (Atlantic City, New Jersey, USA) : (February 2000), p819-822. 52. [Barouni and Elloumi 00] : A. Barouni, M. Elloumi, An Algorithm for Drawing Normal Representation of RNA Secondary Structures, in Proc. of 2nd International Workshop on Biological Informatics, BIW'2000 Vol. II (Atlantic City, New Jersey, USA) : (February 2000), p766-769.

• 1998 53. [Elloumi 98a] : M. Elloumi, New Algorithms to Predict Secondary Structures of RNA Macromolecules, in Proc. of 11th International Conference on Industrial and Engineering Applications of Artificial Intelligence and Expert Systems, IEA/AIE'98, Vol. 1 (Benicassim, Castellon, Spain), Lecture Notes in Artificial Intelligence (LNAI), Springer-Verlag, New York, USA (Publish.) : (June 1998), p864-875.