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Pregled bibliografske jedinice broj: 670923

ExoLocator—an online view into genetic makeup of vertebrate proteins


Khoo, Aik-Aun; Ogrizek-Tomaš, Mario; Bulović, Ana; Korpar, Matija; Gurler, Ece; Slijepčević, Ivan; Šikić, Mile; Mihalek, Ivana
ExoLocator—an online view into genetic makeup of vertebrate proteins // Nucleic acids research, 42 (2014), D1; 879-881 doi:10.1093/nar/gkt1164 (međunarodna recenzija, članak, znanstveni)


Naslov
ExoLocator—an online view into genetic makeup of vertebrate proteins

Autori
Khoo, Aik-Aun ; Ogrizek-Tomaš, Mario ; Bulović, Ana ; Korpar, Matija ; Gurler, Ece ; Slijepčević, Ivan ; Šikić, Mile ; Mihalek, Ivana

Izvornik
Nucleic acids research (0305-1048) 42 (2014), D1; 879-881

Vrsta, podvrsta i kategorija rada
Radovi u časopisima, članak, znanstveni

Ključne riječi
Exon; protein; paralogues

Sažetak
ExoLocator (http://exolocator.eopsf.org) collects in a single place information needed for comparative analysis of protein-coding exons from vertebrate species. The main source of data—the genomic sequences, and the existing exon and homology annotation—is the ENSEMBL database of completed vertebrate genomes. To these, ExoLocator adds the search for ostensibly missing exons in orthologous protein pairs across species, using an extensive computational pipeline to narrow down the search region for the candidate exons and find a suitable template in the other species, as well as state-of-the-art implementations of pairwise alignment algorithms. The resulting complements of exons are organized in a way currently unique to ExoLocator: multiple sequence alignments, both on the nucleotide and on the peptide levels, clearly indicating the exon boundaries. The alignments can be inspected in the web-embedded viewer, downloaded or used on the spot to produce an estimate of conservation within orthologous sets, or functional divergence across paralogues.

Izvorni jezik
Engleski

Znanstvena područja
Biologija, Računarstvo



POVEZANOST RADA


Projekt / tema
036-0362214-1987 - Modeliranje kompleksnih sustava (Branko Jeren, )

Ustanove
Fakultet elektrotehnike i računarstva, Zagreb

Autor s matičnim brojem:
Mile Šikić, (250972)

Časopis indeksira:


  • Current Contents Connect (CCC)
  • Web of Science Core Collection (WoSCC)
    • Science Citation Index Expanded (SCI-EXP)
    • SCI-EXP, SSCI i/ili A&HCI
  • Scopus
  • MEDLINE


Citati