Curriculum Vitae

Dr. Bassam Basim Jamil ALKINDY

University of Mustansiriyah – College of Science Mobile: +964 (0) 7732045069

Email(s): bbgak2002@yahoo.com, dr.balkindy@uomustansiriyah.edu.iq

PERSONAL SUMMARY:

Bassam ALKINDY was born in Jan. 1978 in Baghdad, Iraq. In 2005, he defended his M.Sc. thesis in

computer science – Robotics from Yarmouk University, Faculty of Information Technology and Computer

Science, department of Computer Science, Jordan. Since Dec. 2005, He is working in the University of

Mustansiriyah, Department of Computer science, Iraq. In Dec. 2015, he defended his Ph.D. thesis in

Artificial Intelligence – bioinformatics, from the University of Franche-Comté, Lab. Femto-ST (DISC

Department of computer science), France. In Mar. 2016, he became a full-time lecturer in the University of

Mustansiriyah, department of computer science. His researches focus on the domains of Artificial Intelligent,

Bioinformatics (Ancestor reconstruction and phylogenetic analysis), Robotics, and Machine learning.

EDUCATION:

Ph.D. (2012-2015):

Doctorate of Philosophy (Ph.D.) in Computer Science, specialty in Artificial Intelligance -

Bioinformatics | University of Franche-Comté, France) | Mention: Très Honnorable.

Thesis title: “Combining Approaches for Predicting Genomic Evolution”.

M.Sc. (2002-2005):

Master of Science (M.Sc.) in Computer Science | Yarmouk University, Jordan Grade: Very Good | Major: Computer Science | Minor: Artificial Intelligence | GPA: 81.8% Thesis title: “Building a Robot Arm System using Computer”

B.Sc. (1995 – 1999):

Bachelor of Science (B.Sc.) in Computer Science | Al-Rafidain University College, Iraq Grade: Good | Order: 2/50 students | Major: Computer Science | GPA: 77.802% Project title: “Design and Implement an Interfacing Card for Temperature Measurement”

ACADEMIC HONORS AND AWARDS:

ACADEMIC /TEACHING EXPERIENCE:

1 2005 - now: A faculty member in the Department of Computer Science, Faculty of Science, University of

Mustansiriyah.

2 2016: member of editorial crew of the journal of Science (MJS), Faculty of Science, University of

Mustansiriyah.

3 2011 - Present: Authorized Teacher by Microsoft Corp. for teaching materials to obtain the International

Computer Driving License Certification (IC3) for students and employees.

4 2013 – Present: A member of the technical committee of scientific research of the international Conference of

Bioinformatics and Biomedical Science (ICBBS).

COURSES TAUGHT:

Undergraduate Graduate

Artificial Intelligent / Practical / 3rd

class

Object Oriented Programming in Java / Practical / 2nd

class

Object Oriented Programming in Virtual C# / Theoretical and Practical

/ 2nd

class

IC3 / Theoretical and Practical / 1st class / college of Medicine

PROFESSIONAL AFFILIATIONS:

1. Member of exam committees for the years 2008.2009. 2. Member of the graduation projects exam committees for undergraduate students in the Department of

Computer Science, University of Mustansiriyah. 3. Member of electronic copyrights committees to evaluate some scientific researches and master dissertations

in the Department of Computer Science. 4. Member of the Commission to address the problem of poor Internet service in Al-Mustansiriyah university

faculties. 5. Member of the committee supervising the IC3 exams, college of Medicine, Al-Mustansiriyah University. 6. A member of the technical committee to develop specifications and checking the quality of laptops and

choose the most suitable tender for contracts for the purchase of laptop computers in the College of Science. 7. A member of the Technical Committee to buy smart blackboards at the Faculty of Science according to its

specifications. 8. 2015-present: Head or a member in Thesis/researches plagiarism committees. 9. 2016-present: A post-graduate committee member in computer science department-University of Al-

Mustansiriyah. 10. A member in other committees (Internet, Intranet, Scientific Journals, Quality control)

PUPLICATIONS:

ORCID ID: ORCID.ORG/0000-0002-0964-1184

SCOPUS ID: 56516848900

G.OOGLE SCHOLAR: Bassam AlKindy

International Journals and Conferences:

1 Bassam Alkindy, Jean-François Couchot, Christophe Guyeux, Arnaud Mouly, Michel Salomon, and Jacques M. Bahi. “Finding the Core-Genes of Chloroplasts.” International Journal of Bioscience, Biochemistry and Bioinformatics 4, no. 5 (2014): 361-368. [bibtex, PDF]

2 Bassam AlKindy, Christophe Guyeux, Jean-François Couchot, Michel Salomon, and Jacques M. Bahi. “Gene similarity-based approaches for determining core-genes of chloroplasts” In Bioinformatics and Biomedicine (BIBM), 2014 IEEE International Conference on, pp. 71-74. [bibtex, PDF]

3 Bassam AlKindy, Huda Al-Nayyef, Christophe Guyeux, Jean-François Couchot, Michel Salomon, and Jacques M. Bahi. “Improved Core Genes Prediction for Constructing well-supported Phylogenetic Trees in large sets of Plant Species.” In Bioinformatics and Biomedical Engineering, pp. 379-390. Springer International Publishing, 2015. [bibtex, PDF]

4 Bassam AlKindy, Christophe Guyeux, Jean-François Couchot, Michel Salomon, Christian Parisod, and Jacques

M. Bahi. “Hybrid genetic algorithm and lasso test approach for inferring well supported phylogenetic trees based on subsets of chloroplastic core genes.” In Algorithms for Computational Biology, pp. 83-96. Springer International Publishing, 2015. [bibtex, PDF]

5 Reem Alsrraj, Bassam AlKindy, Christophe Guyeux, Laurent Philippe, and Jean-François Couchot. “Well-supported phylogenies using largest subsets of core-genes by discrete particle swarm optimization.” Proceedings of CIBB 2 (2015): 1. [bibtex, PDF]

6 Bassam AlKindy, Bashar Al-Nuaimi, Christophe Guyeux, Jean-François Couchot, Michel Salomon, Reem Alsrraj, and Laurent Philippe. “Binary Particle Swarm Optimization Versus Hybrid Genetic Algorithm for Inferring Well Supported Phylogenetic Trees.” 12th International Meeting on Computational Intelligence Methods for Bioinformatics and Biostatistics. Springer International Publishing, 2016. Volume LNBI 9874, pp. 165–179. [bibtex, PDF]

7 Bashar Al-Nuaimi, Christophe Guyeux, Bassam AlKindy, Jean-François Couchot, Michel Salomon,

“Relation between Gene Content and Taxonomy in Chloroplasts.”, International Journal of

Bioscience, Biochemistry and Bioinformatics (IJBBB), vol.7, no. 1, Jan. 2017.

8 Christophe Guyeux, Bashar Al-Nuaimi, Bassam Alkindy and Jean-François Couchot,”On the Ability

to Reconstruct Ancestral Genomes from Mycobacterium Genus”. Submitted to: 5th International

Work-Conference on Bioinformatics and Biomedical Engineering, [Accepted 2/2/2017]

Publications complete but not published or waiting for Notification

1 Bashar Al-Nuaimi, Bassam Alkindy, Jean-François Couchot, Michel Salomon and Christophe

Guyeux. “Ancestral Reconstruction and Investigations of Genomic Recombination on

Campanulides Chloroplasts “.

PROFFESSIONAL DEVELOPMENT

Certifications:

a. DELF A1 and DELF B1, French language exams certificates, 2011 and 2012 respectively. b. Certificate of Microsoft Internet and Computer Core Certificate (IC3) 2005. c. Certificate of Microsoft Internet and Computer Core Certificate (IC3) 2007. d. Certificate of methodologies of teaching, University of Mustansiriyah, 2006.

National and International Workshops:

a. Bassam Alkindy, Jean-François Couchot, Christophe Guyeux, and Michel Salomon. Finding the core-genes of Chloroplast Species. Workshop of SeqBio 2013, Montpellier, November 2013.

b. Bassam Alkindy, Huda Al’Nayyef, Jean-François Couchot, Christophe Guyeux, Michel Salomon, and Jacques Bahi. Algorithmics Genomic Evolution: Insertion Sequences and Core Genomes. Workshop of Femto-ST, June 2014, Besancon, France. Note: Poster.

c. Bassam Alkindy, Huda Al’Nayyef, Panisa Treepong, Bashar Al-Nuaimi, Christophe Guyeux, Jean-François Couchot, Michel Salomon, and Jacques Bahi. Bioinformatics Approaches on Genomic Evolution in Femto-ST (Core Genome, Phylogenetic Analysis, Transposable Elements, and Ancestral Reconstruction). Workshop of Femto-ST, June 2015, Besancon, France. Note: Poster.

d. Bassam Alkindy, Christophe Guyeux, Jean-François Couchot, Michel Salomon, and Jacques Bahi. Using Genetic Algorithm for Optimizing Phylogenetic Tree Inference in Plant Species. In MCEB 2015,

Conference of Mathematical and Computational Evolutionary Biology, Porquerolles Island, France, 21-24 Jun. 2015. Note: Poster.

e. Bashar Al-Nuaimi, Roxane Mallouhi, Bassam AlKindy, Christophe Guyeux, Michel Salomon, and Jean-François Couchot. Ancestral reconstruction and investigations of genomic recombination on Campanulides chloroplasts. Workshop of SeqBio 2015, Orsay, Nov. 2015.

National and International Academic Courses

“Ecole Analyse Multiresolution pour l'image”, EPIT 2014, 24 hours, 26-27 Nov. 2013, Le Creusot, France.

“Ecole de Printemps d'informatique Théorique”. University of Bourgogne, 32 hours, 11-16 May 2014, CAES du CNRS la Vieille Perrotine, Île d'Oléron, France.

“Gestion de projets collaboratifs”, University of Franche-Comté, 16 Jan. 2013, 6 hours, France.

“Strategy of Publications”, University of Franche-Comté; 10 hours, Mar. - Apr. 2013, France

Pierre-Yves BOURGEOIS, “Tool for writing publications: LaTex ( beginner, intermediate, and advance)”, University of Franche-Comté , 9 hours, (18/4, 6/6, and 13/6) 2013, France.

Pauline FOURNIER, “Leadership et encadrement d'équipe”, University of Franche-Comté, 6 hours, 12 Dec. 2013, France

Fabrice LAURI, “Machine Learning – Theory and Algorithms”, University of Franche-Comté, Belfort, 14 hours, 4-5 Feb. 2014, France

François VERNOTTE, “Exploitation statistics des mesures”, University of Franche-Comté, 9 hours, (3, 10, and 17) Apr. 2014, France.

السيرة الذاتية

الكندي جميل باسم د. بسام

العلوم كلية – المستنصرية الجامعة

Mobile: +964 (0) 7732045069 Email(s): bbgak2002@yahoo.com,

dr.balkindy@uomustansiriyah.edu.iq

، حصل على شهادة البكالوريوس في علوم 1999. في عام بغداد من 1978 من مواليد كانون الثاني ،بسام الكندي

، حصل على شهادة ماجستير علوم بتقدير جيد جدا 2005في عام . ، العراقالحاسوب من كلية الرافدين الجامعة بتقدير جيد

حاسوب، قسم علوم من جامعة اليرموك، كلية تكنولوجيا المعلومات وعلوم ال الذكاء االصطناعي –في علم الحاسوب

، شغل منصب عضو هيئة تدريسية في الجامعة المستنصرية، كلية العلوم، قسم علوم 2005منذ ديسمبر . الحاسوب، األردن

-، نال شهادة الدكتوراه بتقدير امتياز عن أطروحته في اختصاص علوم الحاسوب 2015في ديسمبر . الحاسوب، العراق

( من جامعة فرانش كومتيه، كلية العلوم والتقنيات الدقيقةBioinformaticsلحيوية)المعلوماتية ا -الذكاء االصطناعي

تتركز . ، أصبح محاضرا بلقب علمي )مدرس( في قسم علوم الحاسوب2016في مارس . ، فرنسا(قسم علوم الحاسوب)

، (وتحليل النشوء والتطورإعادة بناء الشجرة الوراثية )أبحاثه في مجاالت الذكاء االصطناعي، المعلوماتية الحيوية

.الروبوتات، وتعليم اآللة

:الدراسية الشهادات

( 2015 – 2012دكتوراه)

(Bioinformaticsالمعلوماتيه الحيويه ) –شهادة دكتوراه في علوم الحاسوب، باختصاص الذكاء االصطناعي

2015-12-17ياز | تاريخ الحصول على الشهادة: جامعة فرانش كومته، كلية العلوم والتقنيات الدقيقة، فرنسا | تقدير: امت

”.Combining Approaches for Predicting Genomic Evolution“عنوان االطروحة:

(2005 – 2002ماجستير)

(Roboticsالروبوتات ) –شهادة ماجستير في علوم الحاسوب، باختصاص الذكاء االصطناعي

2005-08وعلوم الحاسب، االردن | تقدير: جيد جدا | تاريخ الحصول على الشهادة: جامعة اليرموك، كلية تكنولوجيا المعلومات

”Building a Robot Arm System using Computer“عنوان االطروحة:

( 1999 – 1995بكالوريوس)

شهادة بكالوريوس في علوم الحاسوب، كلية الرافدين الجامعة، العراق | تقدير: جيد | تسلسله: الثاني

%77.802| معدل التخرج: 1999-07اريخ الحصول على الشهادة: ت

”Design and Implement an Interfacing Card for Temperature Measurement“عنوان بحث التخرج:

األكاديمي والتكريم الجوائز

والتدريس: األكاديمية الخبرة

2005 – لية العلوم، الجامعة المستنصرية.االن: عضو هيئة تدريسية في قسم علوم الحاسوب، ك

2016 – تحرير مجلة العلوم، كلية العلوم، الجامعة المستنصرية. عضو هيئة: االن

2011 – ( االن: معلم مخول من شركة مايكروسوفت لتدريس مواد الحصول على شهادة الرخصة الدولية لقيادة الحاسوبIC3 )

عضو لجنة تقييم البحوث العلميه للمؤتمر الع( المي للعلوم البايولوجية والحيويهICBBS لالعوام )2015، 2014، 2013.

.المشاركة في العديد من الورش العلمية العالمية بموضوع المعلوماتية الحيوية

.االشراف على مشاريع التخرج لطلبة الدراسه االولية

و/او الترقيات العلمية.لجان االستالل االلكتروني واالطاريح لرسائل الماجستير في رئيس او عضو

2016- الجامعة المستنصرية. -االن: عضو لجنة الدراسات العليا في قسم علوم الحاسوب

)عضو في لجان اخرى )االنترنت، االنترانت، المجالت العلمية، اسناد ضمان الجودة

تدريسها: تم التي الدراسية المقررات

األولية الدراسات العليا الدراسات 1. Artificial Intelligent / Practical / 3

rd class

2. Object Oriented Programming in Java / Practical / 2nd

class

3. Object Oriented Programming in Virtual C# / Theoretical and

Practical / 2nd

class

4. IC3 / Theoritical and Practical / 1st class / college of Medicine

الجمعيات: او المهني تساباألن

2009 ،2008 لالعوام االمتحانية اللجان عضو.

الحاسوب. علوم قسم في األولية الدراسة طلبة بحوث مشاريع مناقشة لجان في عضو

الحاسوب. علوم قسم في الماجستير ورساالت العلمية الترقيات لبحوث اإللكتروني االستالل لجنة في عضو

المستنصرية. الجامعة كليات في األنترنت خدمة ضعف شكلةم معالجة لجنة عضو

المستنصرية. الجامعة الطب، كلية في للحاسوب الدولية القيادة رخصة على الحصول امتحانات على األشراف لجنة عضو

في لمحمولها الحواسيب شراء لعقود عطاء انسب واختيار المحمولة الحواسيب جودة وفحص مواصفات لوضع التقنية للجنة عضوا

العلوم. كلية

العلوم. كلية في الذكية السبورات شراء مواصفات لوضع التقنية اللجنة عضو

العلمية المنشورات

ORCID ID: orcid.org/0000-0002-0964-1184

SCOPUS ID: 56516848900

GOOGLE SCHOLAR: BASSAM ALKINDY

محلية او عالمية علمية مؤتمرات او مجالت في منشورة علمية بحوث

1 Bassam Alkindy, Jean-François Couchot, Christophe Guyeux, Arnaud Mouly, Michel Salomon, and

Jacques M. Bahi. “Finding the Core-Genes of Chloroplasts.” International Journal of Bioscience,

Biochemistry and Bioinformatics 4, no. 5 (2014): 361-368. [bibtex, PDF]

2 Bassam AlKindy, Christophe Guyeux, Jean-François Couchot, Michel Salomon, and Jacques M.

Bahi. “Gene similarity-based approaches for determining core-genes of chloroplasts” In 2014

IEEE International Conference on Bioinformatics and Biomedicine (BIBM), pp. 71-74. [bibtex,

PDF]

3 Bassam AlKindy, Huda Al-Nayyef, Christophe Guyeux, Jean-François Couchot, Michel Salomon,

and Jacques M. Bahi. “Improved Core Genes Prediction for Constructing well-supported

Phylogenetic Trees in large sets of Plant Species.” In Bioinformatics and Biomedical Engineering,

pp. 379-390. Springer International Publishing, 2015. [bibtex, PDF]

4 Bassam AlKindy, Christophe Guyeux, Jean-François Couchot, Michel Salomon, Christian Parisod,

and Jacques M. Bahi. “Hybrid genetic algorithm and lasso test approach for inferring well

supported phylogenetic trees based on subsets of chloroplastic core genes.” In Algorithms for

Computational Biology, pp. 83-96. Springer International Publishing, 2015. [bibtex, PDF]

5 Reem Alsrraj, Bassam AlKindy, Christophe Guyeux, Laurent Philippe, and Jean-François Couchot.

“Well-supported phylogenies using largest subsets of core-genes by discrete particle swarm

optimization.” Proceedings of CIBB 2 (2015): 1. [bibtex, PDF]

6 Bassam AlKindy, Bashar Al-Nuaimi, Christophe Guyeux, Jean-François Couchot, Michel Salomon,

Reem Alsrraj, and Laurent Philippe. “Binary Particle Swarm Optimization Versus Hybrid Genetic

Algorithm for Inferring Well Supported Phylogenetic Trees.” 12th

International Meeting on

Computational Intelligence Methods for Bioinformatics and Biostatistics. Springer International

Publishing, 2016. Volume LNBI 9874, pp. 165–179. [bibtex, PDF]

7 Bashar Al-Nuaimi, Christophe Guyeux, Bassam AlKindy, Jean-François Couchot, Michel Salomon,

“Relation between Gene Content and Taxonomy in Chloroplasts.”, International Journal of

Bioscience, Biochemistry and Bioinformatics (IJBBB), vol.7, no. 1, Jan. 2017.

8 Christophe Guyeux, Bashar Al-Nuaimi, Bassam Alkindy and Jean-François Couchot,”On the Ability

to Reconstruct Ancestral Genomes from Mycobacterium Genus”. Submitted to: 5th International

Work-Conference on Bioinformatics and Biomedical Engineering, Springer [Accepted 2/2/2017]

بحوث منجزة غير منشورة او بانتظار قبول نشر

1 Bashar Al-Nuaimi, Bassam Alkindy, Jean-François Couchot, Michel Salomon and Christophe

Guyeux. “Ancestral Reconstruction and Investigations of Genomic Recombination on

Campanulides Chloroplasts “.

المهارات: تطوير

علمية دورات عمل، ورش اخرى، شهادات

اخرى شهادات

لغة شهادتي (DELF A1, DELF B1الخاصة ) (.2012، 2011) الفرنسية باللغة

مايكروسوفت من الحاسوب قيادة رخصة في دولية شهادة (IC3 )2005.

مايكروسوفت من الحاسوب قيادة رخصة في دولية شهادة (IC3 )2005.

2006 المستنصرية، الجامعة التدريس، طرائق دورة في دةشها.

وعالمية محلية عمل ورش

1. Bassam Alkindy, Jean-François Couchot, Christophe Guyeux, and Michel Salomon. Finding

the core-genes of Chloroplast Species. Workshop of SeqBio 2013, Montpellier, November

2013.

2. Bassam Alkindy, Huda Al’Nayyef, Jean-François Couchot, Christophe Guyeux, Michel

Salomon, and Jacques Bahi. Algorithmics Genomic Evolution: Insertion Sequences and

Core Genomes. Workshop of Femto-ST, June 2014, Besancon, France. Note: Poster.

3. Bassam Alkindy, Huda Al’Nayyef, Panisa Treepong, Bashar Al-Nuaimi, Christophe Guyeux,

Jean-François Couchot, Michel Salomon, and Jacques Bahi. Bioinformatics Approaches on

Genomic Evolution in Femto-ST (Core Genome, Phylogenetic Analysis, Transposable

Elements, and Ancestral Reconstruction). Workshop of Femto-ST, June 2015, Besancon,

France. Note: Poster.

4. Bassam Alkindy, Christophe Guyeux, Jean-François Couchot, Michel Salomon, and Jacques

Bahi. Using Genetic Algorithm for Optimizing Phylogenetic Tree Inference in Plant

Species. In MCEB 2015, Conference of Mathematical and Computational Evolutionary

Biology, Porquerolles Island, France, 21-24 Jun. 2015. Note: Poster.

5. Bashar Al-Nuaimi, Roxane Mallouhi, Bassam AlKindy, Christophe Guyeux, Michel Salomon,

and Jean-François Couchot. Ancestral reconstruction and investigations of genomic

recombination on Campanulides chloroplasts. Workshop of SeqBio 2015, Orsay, Nov. 2015.

علمية دورات

“Ecole Analyse Multiresolution pour l'image”, EPIT 2014, 24 hours, 26-27 Nov. 2013, Le Creusot,

France.

“Ecole de Printemps d'informatique Théorique”. University of Bourgogne, 32 hours, 11-16 May

2014, CAES du CNRS la Vieille Perrotine, Île d'Oléron, France.

“Gestion de projets collaboratifs”, University of Franche-Comté, 16 Jan. 2013, 6 hours, France.

“Strategy of Publications”, University of Franche-Comté; 10 hours, Mar. - Apr. 2013, France

Pierre-Yves BOURGEOIS, “Tool for writing publications: LaTex ( beginner, intermediate, and

advance)”, University of Franche-Comté , 9 hours, (18/4, 6/6, and 13/6) 2013, France.

Pauline FOURNIER, “Leadership et encadrement d'équipe”, University of Franche-Comté, 6 hours,

12 Dec. 2013, France

Fabrice LAURI, “Machine Learning – Theory and Algorithms”, University of Franche-Comté,

Belfort, 14 hours, 4-5 Feb. 2014, France

François VERNOTTE, “Exploitation statistics des mesures”, University of Franche-Comté, 9 hours,

(3, 10, and 17) Apr. 2014, France.