Sökning: onr:"swepub:oai:DiVA.org:uu-244598" > Identification of b...
Fältnamn | Indikatorer | Metadata |
---|---|---|
000 | 03264naa a2200433 4500 | |
001 | oai:DiVA.org:uu-244598 | |
003 | SwePub | |
008 | 150218s2014 | |||||||||||000 ||eng| | |
024 | 7 | a https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-2445982 URI |
024 | 7 | a https://doi.org/10.1142/S02197200144000102 DOI |
040 | a (SwePub)uu | |
041 | a engb eng | |
042 | 9 SwePub | |
072 | 7 | a ref2 swepub-contenttype |
072 | 7 | a art2 swepub-publicationtype |
100 | 1 | a Akhtar, Malik N.4 aut |
245 | 1 0 | a Identification of best indicators of peptide-spectrum match using a permutation resampling approach |
264 | 1 | c 2014 |
338 | a electronic2 rdacarrier | |
500 | a These authors contributed equally to this manuscript | |
520 | a Various indicators of observed-theoretical spectrum matches were compared and the resulting statistical significance was characterized using permutation resampling. Novel decoy databases built by resampling the terminal positions of peptide sequences were evaluated to identify the conditions for accurate computation of peptide match significance levels. The methodology was tested on real and manually curated tandem mass spectra from peptides across a wide range of sizes. Spectra match indicators from complementary database search programs were pro filed and optimal indicators were identified. The combination of the optimal indicator and permuted decoy databases improved the calculation of the peptide match significance compared to the approaches currently implemented in the database search programs that rely on distributional assumptions. Permutation tests using p-values obtained from software-dependent matching scores and E-values outperformed permutation tests using all other indicators. The higher overlap in matches between the database search programs when using end permutation compared to existing approaches con firmed the superiority of the end permutation method to identify peptides. The combination of effective match indicators and the end permutation method is recommended for accurate detection of peptides. | |
650 | 7 | a MEDICIN OCH HÄLSOVETENSKAPx Medicinska och farmaceutiska grundvetenskaperx Farmaceutiska vetenskaper0 (SwePub)301012 hsv//swe |
650 | 7 | a MEDICAL AND HEALTH SCIENCESx Basic Medicinex Pharmaceutical Sciences0 (SwePub)301012 hsv//eng |
653 | a Neuropeptides | |
653 | a database search programs | |
653 | a tandem MS | |
653 | a p-value | |
653 | a significance levels | |
653 | a Ends permuted decoy database | |
653 | a permutations | |
700 | 1 | a Southey, Bruce R.4 aut |
700 | 1 | a Andrén, Per E.u Uppsala universitet,Institutionen för farmaceutisk biovetenskap4 aut0 (Swepub:uu)perandre |
700 | 1 | a Sweedler, Jonathan V.4 aut |
700 | 1 | a Rodriguez-Zas, Sandra L.4 aut |
710 | 2 | a Uppsala universitetb Institutionen för farmaceutisk biovetenskap4 org |
773 | 0 | t Journal of Bioinformatics and Computational Biologyg 12:5, s. 1440001-q 12:5<1440001-x 0219-7200x 1757-6334 |
856 | 4 | u https://uu.diva-portal.org/smash/get/diva2:793390/FULLTEXT01.pdfx primaryx Raw objecty fulltext:print |
856 | 4 8 | u https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-244598 |
856 | 4 8 | u https://doi.org/10.1142/S0219720014400010 |
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