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Pregled bibliografske jedinice broj: 792260

SIFT missense predictions for genomes


Vaser, Robert; Adusumalli, Swarnaseetha; Ngak Leng, Sim; Šikić, Mile; Ng, Pauline C.
SIFT missense predictions for genomes // Nature Protocols, 11 (2016), 1-9 doi:10.1038/nprot.2015.123 (međunarodna recenzija, članak, znanstveni)


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Naslov
SIFT missense predictions for genomes

Autori
Vaser, Robert ; Adusumalli, Swarnaseetha ; Ngak Leng, Sim ; Šikić, Mile ; Ng, Pauline C.

Izvornik
Nature Protocols (1754-2189) 11 (2016); 1-9

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

Ključne riječi
Bioinformatics ; Genetic databases ; Mutation ; Sequence annotation

Sažetak
The SIFT (sorting intolerant from tolerant) algorithm helps bridge the gap between mutations and phenotypic variations by predicting whether an amino acid substitution is deleterious. SIFT has been used in disease, mutation and genetic studies, and a protocol for its use has been previously published with Nature Protocols. This updated protocol describes SIFT 4G (SIFT for genomes), which is a faster version of SIFT that enables practical computations on reference genomes. Users can get predictions for single- nucleotide variants from their organism of interest using the SIFT 4G annotator with SIFT 4G's precomputed databases. The scope of genomic predictions is expanded, with predictions available for more than 200 organisms. Users can also run the SIFT 4G algorithm themselves. SIFT predictions can be retrieved for 6.7 million variants in 4 min once the database has been downloaded. If precomputed predictions are not available, the SIFT 4G algorithm can compute predictions at a rate of 2.6 s per protein sequence. SIFT 4G is available from http://sift- dna.org/sift4g.

Izvorni jezik
Engleski

Znanstvena područja
Biologija, Računarstvo



POVEZANOST RADA


Ustanove:
Fakultet elektrotehnike i računarstva, Zagreb

Profili:

Avatar Url Mile Šikić (autor)

Avatar Url Robert Vaser (autor)

doi

Citiraj ovu publikaciju

Vaser, Robert; Adusumalli, Swarnaseetha; Ngak Leng, Sim; Šikić, Mile; Ng, Pauline C.
SIFT missense predictions for genomes // Nature Protocols, 11 (2016), 1-9 doi:10.1038/nprot.2015.123 (međunarodna recenzija, članak, znanstveni)
Vaser, R., Adusumalli, S., Ngak Leng, S., Šikić, M. & Ng, P. (2016) SIFT missense predictions for genomes. Nature Protocols, 11, 1-9 doi:10.1038/nprot.2015.123.
@article{article, year = {2016}, pages = {1-9}, DOI = {10.1038/nprot.2015.123}, keywords = {Bioinformatics, Genetic databases, Mutation, Sequence annotation}, journal = {Nature Protocols}, doi = {10.1038/nprot.2015.123}, volume = {11}, issn = {1754-2189}, title = {SIFT missense predictions for genomes}, keyword = {Bioinformatics, Genetic databases, Mutation, Sequence annotation} }
@article{article, year = {2016}, pages = {1-9}, DOI = {10.1038/nprot.2015.123}, keywords = {Bioinformatics, Genetic databases, Mutation, Sequence annotation}, journal = {Nature Protocols}, doi = {10.1038/nprot.2015.123}, volume = {11}, issn = {1754-2189}, title = {SIFT missense predictions for genomes}, keyword = {Bioinformatics, Genetic databases, Mutation, Sequence annotation} }

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


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