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Pregled bibliografske jedinice broj: 1106308

Global repeat map algorithm (GRM) reveals differences in alpha satellite number of tandem and higher order repeats (HORs) in human, Neanderthal and chimpanzee genomes – novel tandem repeat database

Vlahovic, I.; Gluncic, M.; Dekanic, K.; Mrsic, L.; Jerkovic, H.; Martinjak, I.; Paar, V.
Global repeat map algorithm (GRM) reveals differences in alpha satellite number of tandem and higher order repeats (HORs) in human, Neanderthal and chimpanzee genomes – novel tandem repeat database // 43rd International Convention on Information and Communication Technology, Electronics and Microelectronics (MIPRO 2020)
Opatija, Hrvatska: Institute of Electrical and Electronics Engineers (IEEE), 2020. str. 237-242 doi:10.23919/mipro48935.2020.9245278 (predavanje, međunarodna recenzija, cjeloviti rad (in extenso), znanstveni)

CROSBI ID: 1106308 Za ispravke kontaktirajte CROSBI podršku putem web obrasca

Naslov
Global repeat map algorithm (GRM) reveals differences in alpha satellite number of tandem and higher order repeats (HORs) in human, Neanderthal and chimpanzee genomes – novel tandem repeat database

Autori
Vlahovic, I. ; Gluncic, M. ; Dekanic, K. ; Mrsic, L. ; Jerkovic, H. ; Martinjak, I. ; Paar, V.

Vrsta, podvrsta i kategorija rada
Radovi u zbornicima skupova, cjeloviti rad (in extenso), znanstveni

Skup
43rd International Convention on Information and Communication Technology, Electronics and Microelectronics (MIPRO 2020)

Mjesto i datum
Opatija, Hrvatska, 28.09.2020. - 02.10.2020

Vrsta sudjelovanja
Predavanje

Vrsta recenzije
Međunarodna recenzija

Ključne riječi
human, chimpanzee and Neanderthal genomes ; DNA sequence ; tandem repeats ; Alphasub ; Global Repeat Map algorithm, alpha satellites ; database

Sažetak
Development of novel sequencing methods (NGS) enabled investigation of DNA sequence in centromere region that, as is shown in previous studies, are replete with alpha satellite sequences, 171bp long monomer units. Those units (monomers) are found in each of human chromosomes as tandem repeats or as higher order repeat (HOR) structures. Except for their role in chromosome segregation and microtubule attachment to kinetochores, recent studies show that alpha satellite copy number variations are associated with cancer outcomes, aneuploidy, aging, differences in gene expression and evolutionary development. Using Global Repeat Map algorithm (GRM) and its extended ALPHAsub tool for finding all alpha monomers in genomic sequence, we created tandem repeat database for human, Neanderthal and chimpanzee genomes. This database has almost 3000 records (only main data table is shown on-line, http://genom.hazu.hr with information about build of inserted genomes, start position in chromosome, sequence length of array, monomer length and number of monomers for specific array. Analysis of large set of data based on alpha satellites will help us to understand their role in centromeric organization and function and enable us to make conclusions about evolution between closely related species even though technologic limitation of assembly of centromere region are still present.

Izvorni jezik
Engleski

Znanstvena područja
Fizika, Biologija, Interdisciplinarne prirodne znanosti, Interdisciplinarne biotehničke znanosti, Informacijske i komunikacijske znanosti



POVEZANOST RADA

Projekti:
IP-2014-09-3626 - repeticije višeg reda i globalna repeticijska mapa za genome neandertalca, čovjeka i čimpanze (NEAND_HUMAN_CHIMP) (Paar, Vladimir, HRZZ - 2014-09) ( CroRIS)

Ustanove:
Hrvatska akademija znanosti i umjetnosti,
Prirodoslovno-matematički fakultet, Zagreb,
Visoko učilište Algebra, Zagreb

Profili:

Avatar Url Vladimir Paar (autor)

Avatar Url Matko Glunčić (autor)

Avatar Url Krešimir Dekanić (autor)

Avatar Url Hrvoje Jerković (autor)

Avatar Url Leo Mršić (autor)

Avatar Url Ivica Martinjak (autor)

Avatar Url Ines Vlahović (autor)

Poveznice na cjeloviti tekst rada:

doi ieeexplore.ieee.org

Citiraj ovu publikaciju:

Vlahovic, I.; Gluncic, M.; Dekanic, K.; Mrsic, L.; Jerkovic, H.; Martinjak, I.; Paar, V.
Global repeat map algorithm (GRM) reveals differences in alpha satellite number of tandem and higher order repeats (HORs) in human, Neanderthal and chimpanzee genomes – novel tandem repeat database // 43rd International Convention on Information and Communication Technology, Electronics and Microelectronics (MIPRO 2020)
Opatija, Hrvatska: Institute of Electrical and Electronics Engineers (IEEE), 2020. str. 237-242 doi:10.23919/mipro48935.2020.9245278 (predavanje, međunarodna recenzija, cjeloviti rad (in extenso), znanstveni)
Vlahovic, I., Gluncic, M., Dekanic, K., Mrsic, L., Jerkovic, H., Martinjak, I. & Paar, V. (2020) Global repeat map algorithm (GRM) reveals differences in alpha satellite number of tandem and higher order repeats (HORs) in human, Neanderthal and chimpanzee genomes – novel tandem repeat database. U: 43rd International Convention on Information and Communication Technology, Electronics and Microelectronics (MIPRO 2020) doi:10.23919/mipro48935.2020.9245278.
@article{article, author = {Vlahovic, I. and Gluncic, M. and Dekanic, K. and Mrsic, L. and Jerkovic, H. and Martinjak, I. and Paar, V.}, year = {2020}, pages = {237-242}, DOI = {10.23919/mipro48935.2020.9245278}, keywords = {human, chimpanzee and Neanderthal genomes, DNA sequence, tandem repeats, Alphasub, Global Repeat Map algorithm, alpha satellites, database}, doi = {10.23919/mipro48935.2020.9245278}, title = {Global repeat map algorithm (GRM) reveals differences in alpha satellite number of tandem and higher order repeats (HORs) in human, Neanderthal and chimpanzee genomes – novel tandem repeat database}, keyword = {human, chimpanzee and Neanderthal genomes, DNA sequence, tandem repeats, Alphasub, Global Repeat Map algorithm, alpha satellites, database}, publisher = {Institute of Electrical and Electronics Engineers (IEEE)}, publisherplace = {Opatija, Hrvatska} }
@article{article, author = {Vlahovic, I. and Gluncic, M. and Dekanic, K. and Mrsic, L. and Jerkovic, H. and Martinjak, I. and Paar, V.}, year = {2020}, pages = {237-242}, DOI = {10.23919/mipro48935.2020.9245278}, keywords = {human, chimpanzee and Neanderthal genomes, DNA sequence, tandem repeats, Alphasub, Global Repeat Map algorithm, alpha satellites, database}, doi = {10.23919/mipro48935.2020.9245278}, title = {Global repeat map algorithm (GRM) reveals differences in alpha satellite number of tandem and higher order repeats (HORs) in human, Neanderthal and chimpanzee genomes – novel tandem repeat database}, keyword = {human, chimpanzee and Neanderthal genomes, DNA sequence, tandem repeats, Alphasub, Global Repeat Map algorithm, alpha satellites, database}, publisher = {Institute of Electrical and Electronics Engineers (IEEE)}, publisherplace = {Opatija, Hrvatska} }

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