HomeIlham Ayyub Shahmuradov sa sa


                                                       Ilham Ayyub Shahmuradov                                              


Place of birth

Azerbaijan, Gubadli district

Date of birth



Azerbaijan State University (Baku State University)

Scientific degree

Doctor of biological sciences



Speciality code and title for PhD thesis

03.00.15 (27. 23.03) – Genetics

“Theoretical analysis of structural-functional organization and evolution of dispersed repeats of eukaryote genomes” 

Speciality code and title for doctoral thesis

03.00.15 (27. 23.03) - Genetics

“Computer analysis of organization and expression of genes in genomes of eukaryotes”

Date of Election as a correspondent member and speciality

June 30, 2014 - Bioinformatics

Total number of printed scientific publications


Number of scientific publications printed abroad


Number of papers published in journals indexed and abstracted in international databases


Number of patents and certificates of authorship


Staff training:

-          number of  PhD

-          number of Doctor of sciences




Basic scientific achievements

1. In 1980s, some structural an evolutionary peculiarities of repeated DNA sequences of human, animal and plant species were revealed by the comparative computer analysis. It was suggested that these repeats covering a significant portion of eukaryot genomes may participate in regulation of transcription of the neighbour genes/genome regions; later, this suggestion was confirmed by multiple experimental findings.

2. To search for transcription start sites and regulatory elements, pre-mRNA polyadenylation sites in human, animal and higher plant genomes, various computer analysis tools of high accuracy (PromH, PromHP, TSSP-TCM, nsite, nsiteM, nsiteH, POLYAR), as well as PlantProm database of plant RNA polymerase II promoters have been developed.

3. In Arabidopsis and rice, it was revealed that the non-stop transcription of neighbour nuclear genes located in the “Tail-to-Head manner and the following alternative splicing and translation of the corresponding transcripts may produce chimeric polypeptides.

4. Distribution spectrum and scale of DNA sequences of the plastid and mitochondrion origin in the nuclear genomes of various higher plants (Arabidopsis, rice, wine grape, blackcottonwood, corn, sorghum) was clarified, as well as some facts indicating the expression of some intact nuclear copies of plastid and mitochondrial genes were revealed.

5. Using about 84000 promoter sequences with the experimentally determined transcription start site from 6 species including humans, (a) a new classification of RNA polymerase II promoters consisting of 3 classes (CpG, non-CpG / TATA and non-CpG / non-TATA) was given and their numerous characteristics were identified, and (b) based on this knowledge, a new high-precision promoter search method, TSShm, was developed by applying the statistical analysis approach of neural networks.

6. Applying TSShm and other computer programs, it was found that for 650 (approximately 93%) of the 702 known genes associated with cancer, there is at least 1 potential bidirectional promoter.


Names of scientific works

1.      Shahmuradov IA, Mohamad Razali R, Bougouffa A, Radovanovich A, Bajic VB (2016) bTSSfinder: a novel tool for the prediction of promoters in Cyanobacteria and Escherichia coli. Bioinformatics, 2016 Sep 30, Epub ahead of print; DOI:10.1093/bioinformatics/btw629.

2.      Shahmuradov IA, Solovyev VV (2015) Nsite, NsiteH and Nsite Mcomputer tools for studying transcription regulatory elements. Bioinformatics, 31,3544-3545

3.      Shahmuradov IA, Abdulazimova A.U., Khan F.Z., Solovyev V.V., MustafayevN.Sh., AkbarovaY.Yu., Qamar R., Aliyev J.A. ThePlantProm DB: recentupdates. In: Proceddings of the 2012 International Conference on Biomedical Engineering and Biotechnology (iCBEB), 28-30 May 2012, Macau, China

4.      Solovyev VV, Shahmuradov IA, Salamov AA (2010) Identification of promoter regions and regulatory sites. In: Computational Biology of Transcription Factor Binding (Methods in Molecular Biology). Editor: IstvanLadunga. Springer Science+Business Media, Humana Press, 2010, 674, Chapter 5, DOI 10.1007/978-1-60761-854-6_5.

5.      Akhtar MN, Bukhari SA, Fazal Z, Qamar R, Shahmuradov IA (2010) POLYAR, a new computer program for prediction of poly(A) sites in human sequences. BMC Genomics, 11:646

6.      Shahmuradov IA, Abdulazimova A.U., Aliyev JA, Qamar R, Chohan S, Solovyev VV (2010) Mono- and Bi-Cistronic Chimeric mRNAs in Arabidopsis and Rice Genomes. Applied and Computational Mathematics, 9, 19-33

7.      Akbarova YA, Shahmuradov IA, Solovyev VV (2010) Possible Functional and Evolutionary Role of Plastid DNA Insertions in Rice. Applied and Computational Mathematics 2010, 9, 66-81

8.      Shahmuradov IA, Solovyev VV, Gammerman AJ (2005) Plant promoter prediction with confidence estimation. Nucleic Acids Research 33(3):1069-1076

9.      Shahmuradov IA, Gammerman AJ, Hancock JM, Bramley PM, Solovyev VV (2003). PlantProm: a database of plant promoter sequences. Nucl. Acids. Res. 31: 114-117

10.  Shahmuradov IA, Solovyev VV (2003) PromH: promoters identification using orthologous genomic sequences. Nucl. Acids. Res., 31, 3540–3545

11.  Shahmuradov IA, AkbarovaYYu, Solovyev VV, Aliyev JA (2003) Abundance of plastid DNA insertions in nuclear genomes rice and Arabidopsis. Plant Molecular Biology, 52, 923-934

12.  Gordon L, ChervonenkisAYa, Gammerman A.J., Shahmuradov IA, Solovyev VV (2003). Sequence alignment kernel for recognition of promoter regions. Bioinformatics, 19, 1964–1971

13.  Gordon L, ChervonenkisAYa, Gammerman AJ, Shahmuradov IA, Solovyev VV (2003) In: “Advanced in Intelligent Data Analysis V”, Proceedings of 5th International Symposium on Intelligent Data Analysis (IDA 2003), Berlin, Germany, 2003 (Eds.: Merthold M.R., Lenz H-J., Bradley E., Kruse R., Borgelt C.), Springer, 2003, p. 386-3

14.  Shahmuradov IA, Akberova YY, Mustafayev NS.,Abdulazimova AU, Aliyev JA (2000) Computer analysis reveals a set of additional promoter elements upstream of maize plastid genes. In: Proceedings of The Second International Conference on Bioinformatics of Genome Regulation and Structure. Novosibirsk, Russia, 2000, Part 1, p.142-144

15.  Mamedov AC, Shahmuradov IA, Suleymanova ZJ, Aliev JA (1998) Some peculiarities of Cicerarietinum chloroplast genome. In: "Photosynthesis: Mechanisms and Effects”. Budapest, Vol. IV, Kluwer Academic Publishers, Netherlands, 1998, 3039-3042

16.  Kapitonov VV, Kolchanov NA, Shahmuradov IA (1993) Phylogenetic analysis of Alu repeats. In: "Computer analysis of genetic macromolecules. Structure, Function and Evolution", World Scientific, 1993, 181-186

17.  Kapitonov VV, Kolchanov NA, Shahmuradov IA (1993) Evolutionary dynamics of the number of Alu repeats in Human genome. - In: "Computer analysis of genetic macromolecules. Structure, Function and Evolution", World Scientific, 1993, 186-192

18.  Kapitonov VV, Kolchanov NA, Shahmuradov IA (1993) Computer simulation of Alu repeat evolution. - In: "Computer analysis of genetic macromolecules. Structure, Function and Evolution", World Scientific, 1993, 192-196

19.  Kapitonov VV, Kolchanov NA, Shahmuradov IA (1993) Distribution of Alu repeats in the genome: cluster formation and specificities of insertion sites. - In: "Computer analysis of genetic macromolecules. Structure, Function and Evolution", World Scientific, 1993, 197-205 Kapitonov VV, Shakhmuradov IA, Kolchanov NA (1989) Evolution of Alu repeats: Imitation model. Genetics (USSR/Russia), 25,1111-1118

20.  Shakhmuradov IA, Kapitonov VV, Kolchanov NA, Omelyanchuk LV (1989). Evolution of Alu repeats: Dynamics of propagation in genome. Genetics (USSR/Russia), 25, 1682-1689

21.  Kolchanov NA, Shakhmuradov IA, Kapitonov VV, Omelyanchuk LV (1988) Evolutionary aspects of the mammalian Alu repeats. Molecular Biology (USSR/Russia), 22, 1335-1344

22.  Kapitonov VV, Kolchanov NA, Shakhmuradov IA, Solovyev VV (1987) The existence of the sites homological to the regulatory site of heat-shock in mobile genetic elements. Genetics (USSR/Russia), 12, 2112-2119

23.  Bogachev SS, Blinov AG, Blinov VM, Gaidamakova EK, Kolesnikov NN, Kiknadze II, Shakhmuradov IA (1986) Some structural elements in DNA sequence from Balbiani ring of IV Chromosome of Chironomusthummi. Proceedings of Academy of Sciences of (former) USSR (now Russia), 288, 230-233

24.  Shakhmuradov IA, Kolchanov NA, Solovyev VV, Ratner VA (1986) Enhancer-like structures in middle repetitive DNA elements of eukaryotic genomes. Genetics (USSR/Russia), 22, 357-367

Membership with international and foreign scientific organizations

Secretary General of the Azerbaijan Society of Biochemists and Molecular Biologists

A member of the Azerbaijan National Committee of "Bioethics, Ethics of Science and Technologies" under the UNESCO

Pedagogical activity

Gives courses on Bioinformatics for MS students in Institute of MolecularBiology and Biotechnologies, and Institute of Genetic Resources, ANAS

Other activities

Author of Dictionary of terms in Bioinformatics (in press).  

Awards and prizes

He was awarded the «Taraggi» medal (3 November, 2015). 

Place of work and its address

Institute of Molecular Biology and Biotechnologies of the National Academy of Sciences of Azerbaijan, AZ 1073, Izzat Nabiyev str.11


Head of Bioinformatics laboratory

Office phone

(+994 12) 5102223


(+994 50) 3842496


(+994 12) 4362535


(+994 12) 5102223