FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2116744776> ?p ?o ?g. }

• W2116744776 abstract "TBLASTN is a mode of operation for BLAST that aligns protein sequences to a nucleotide database translated in all six frames. We present the first description of the modern implementation of TBLASTN, focusing on new techniques that were used to implement composition-based statistics for translated nucleotide searches. Composition-based statistics use the composition of the sequences being aligned to generate more accurate E-values, which allows for a more accurate distinction between true and false matches. Until recently, composition-based statistics were available only for protein-protein searches. They are now available as a command line option for recent versions of TBLASTN and as an option for TBLASTN on the NCBI BLAST web server.We evaluate the statistical and retrieval accuracy of the E-values reported by a baseline version of TBLASTN and by two variants that use different types of composition-based statistics. To test the statistical accuracy of TBLASTN, we ran 1000 searches using scrambled proteins from the mouse genome and a database of human chromosomes. To test retrieval accuracy, we modernize and adapt to translated searches a test set previously used to evaluate the retrieval accuracy of protein-protein searches. We show that composition-based statistics greatly improve the statistical accuracy of TBLASTN, at a small cost to the retrieval accuracy.TBLASTN is widely used, as it is common to wish to compare proteins to chromosomes or to libraries of mRNAs. Composition-based statistics improve the statistical accuracy, and therefore the reliability, of TBLASTN results. The algorithms used by TBLASTN are not widely known, and some of the most important are reported here. The data used to test TBLASTN are available for download and may be useful in other studies of translated search algorithms." @default.
• W2116744776 created "2016-06-24" @default.
• W2116744776 creator A5000317216 @default.
• W2116744776 creator A5015061000 @default.
• W2116744776 creator A5032663560 @default.
• W2116744776 creator A5041973530 @default.
• W2116744776 creator A5080970152 @default.
• W2116744776 date "2006-12-01" @default.
• W2116744776 modified "2023-10-09" @default.
• W2116744776 title "Composition-based statistics and translated nucleotide searches: Improving the TBLASTN module of BLAST" @default.
• W2116744776 cites W11679311 @default.
• W2116744776 cites W1513332069 @default.
• W2116744776 cites W1592589793 @default.
• W2116744776 cites W1971945044 @default.
• W2116744776 cites W1972631150 @default.
• W2116744776 cites W1975140329 @default.
• W2116744776 cites W1993158258 @default.
• W2116744776 cites W2010340103 @default.
• W2116744776 cites W2010949672 @default.
• W2116744776 cites W2015292449 @default.
• W2116744776 cites W2019075805 @default.
• W2116744776 cites W2020990996 @default.
• W2116744776 cites W2033177501 @default.
• W2116744776 cites W2033675931 @default.
• W2116744776 cites W2041956242 @default.
• W2116744776 cites W2044720136 @default.
• W2116744776 cites W2045214367 @default.
• W2116744776 cites W2045804941 @default.
• W2116744776 cites W2046892081 @default.
• W2116744776 cites W2055043387 @default.
• W2116744776 cites W2057165769 @default.
• W2116744776 cites W2079785769 @default.
• W2116744776 cites W2084787613 @default.
• W2116744776 cites W2087064593 @default.
• W2116744776 cites W2095058191 @default.
• W2116744776 cites W2095370301 @default.
• W2116744776 cites W2095685450 @default.
• W2116744776 cites W2100291962 @default.
• W2116744776 cites W2103306615 @default.
• W2116744776 cites W2105484013 @default.
• W2116744776 cites W2106073189 @default.
• W2116744776 cites W2106811687 @default.
• W2116744776 cites W2107282968 @default.
• W2116744776 cites W2107903949 @default.
• W2116744776 cites W2108787198 @default.
• W2116744776 cites W2110182011 @default.
• W2116744776 cites W2115282433 @default.
• W2116744776 cites W2123851326 @default.
• W2116744776 cites W2131724426 @default.
• W2116744776 cites W2133312664 @default.
• W2116744776 cites W2134484762 @default.
• W2116744776 cites W2136145671 @default.
• W2116744776 cites W2143210482 @default.
• W2116744776 cites W2149238618 @default.
• W2116744776 cites W2158714788 @default.
• W2116744776 cites W2610344215 @default.
• W2116744776 cites W2611102567 @default.
• W2116744776 cites W4230932396 @default.
• W2116744776 cites W4245668478 @default.
• W2116744776 cites W4253371142 @default.
• W2116744776 doi "https://doi.org/10.1186/1741-7007-4-41" @default.
• W2116744776 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/1779365" @default.
• W2116744776 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/17156431" @default.
• W2116744776 hasPublicationYear "2006" @default.
• W2116744776 type Work @default.
• W2116744776 sameAs 2116744776 @default.
• W2116744776 citedByCount "382" @default.
• W2116744776 countsByYear W21167447762012 @default.
• W2116744776 countsByYear W21167447762013 @default.
• W2116744776 countsByYear W21167447762014 @default.
• W2116744776 countsByYear W21167447762015 @default.
• W2116744776 countsByYear W21167447762016 @default.
• W2116744776 countsByYear W21167447762017 @default.
• W2116744776 countsByYear W21167447762018 @default.
• W2116744776 countsByYear W21167447762019 @default.
• W2116744776 countsByYear W21167447762020 @default.
• W2116744776 countsByYear W21167447762021 @default.
• W2116744776 countsByYear W21167447762022 @default.
• W2116744776 countsByYear W21167447762023 @default.
• W2116744776 crossrefType "journal-article" @default.
• W2116744776 hasAuthorship W2116744776A5000317216 @default.
• W2116744776 hasAuthorship W2116744776A5015061000 @default.
• W2116744776 hasAuthorship W2116744776A5032663560 @default.
• W2116744776 hasAuthorship W2116744776A5041973530 @default.
• W2116744776 hasAuthorship W2116744776A5080970152 @default.
• W2116744776 hasBestOaLocation W21167447761 @default.
• W2116744776 hasConcept C105795698 @default.
• W2116744776 hasConcept C121332964 @default.
• W2116744776 hasConcept C124101348 @default.
• W2116744776 hasConcept C138885662 @default.
• W2116744776 hasConcept C163258240 @default.
• W2116744776 hasConcept C23123220 @default.
• W2116744776 hasConcept C33923547 @default.
• W2116744776 hasConcept C40231798 @default.
• W2116744776 hasConcept C41008148 @default.
• W2116744776 hasConcept C41895202 @default.
• W2116744776 hasConcept C43214815 @default.
• W2116744776 hasConcept C62520636 @default.
• W2116744776 hasConcept C70721500 @default.
• W2116744776 hasConcept C86803240 @default.

• next