FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W4226024912> ?p ?o ?g. }

• W4226024912 endingPage "1472" @default.
• W4226024912 startingPage "1470" @default.
• W4226024912 abstract "We have implemented the pypgatk package and the pgdb workflow to create proteogenomics databases based on ENSEMBL resources. The tools allow the generation of protein sequences from novel protein-coding transcripts by performing a three-frame translation of pseudogenes, lncRNAs and other non-canonical transcripts, such as those produced by alternative splicing events. It also includes exonic out-of-frame translation from otherwise canonical protein-coding mRNAs. Moreover, the tool enables the generation of variant protein sequences from multiple sources of genomic variants including COSMIC, cBioportal, gnomAD and mutations detected from sequencing of patient samples. pypgatk and pgdb provide multiple functionalities for database handling including optimized target/decoy generation by the algorithm DecoyPyrat. Finally, we have reanalyzed six public datasets in PRIDE by generating cell-type specific databases for 65 cell lines using the pypgatk and pgdb workflow, revealing a wealth of non-canonical or cryptic peptides amounting to >5% of the total number of peptides identified.The software is freely available. pypgatk: https://github.com/bigbio/py-pgatk/ and pgdb: https://nf-co.re/pgdb.Supplementary data are available at Bioinformatics online." @default.
• W4226024912 created "2022-05-05" @default.
• W4226024912 creator A5017134695 @default.
• W4226024912 creator A5038312955 @default.
• W4226024912 creator A5038875783 @default.
• W4226024912 creator A5051446198 @default.
• W4226024912 creator A5053274567 @default.
• W4226024912 creator A5055658645 @default.
• W4226024912 creator A5060471151 @default.
• W4226024912 creator A5082871860 @default.
• W4226024912 date "2021-12-14" @default.
• W4226024912 modified "2023-10-16" @default.
• W4226024912 title "Generation of ENSEMBL-based proteogenomics databases boosts the identification of non-canonical peptides" @default.
• W4226024912 cites W2079563665 @default.
• W4226024912 cites W2182676712 @default.
• W4226024912 cites W2557260411 @default.
• W4226024912 cites W2783769451 @default.
• W4226024912 cites W2807248405 @default.
• W4226024912 cites W2899760200 @default.
• W4226024912 cites W3088175146 @default.
• W4226024912 cites W3134022400 @default.
• W4226024912 doi "https://doi.org/10.1093/bioinformatics/btab838" @default.
• W4226024912 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/34904638" @default.
• W4226024912 hasPublicationYear "2021" @default.
• W4226024912 type Work @default.
• W4226024912 citedByCount "10" @default.
• W4226024912 countsByYear W42260249122021 @default.
• W4226024912 countsByYear W42260249122022 @default.
• W4226024912 countsByYear W42260249122023 @default.
• W4226024912 crossrefType "journal-article" @default.
• W4226024912 hasAuthorship W4226024912A5017134695 @default.
• W4226024912 hasAuthorship W4226024912A5038312955 @default.
• W4226024912 hasAuthorship W4226024912A5038875783 @default.
• W4226024912 hasAuthorship W4226024912A5051446198 @default.
• W4226024912 hasAuthorship W4226024912A5053274567 @default.
• W4226024912 hasAuthorship W4226024912A5055658645 @default.
• W4226024912 hasAuthorship W4226024912A5060471151 @default.
• W4226024912 hasAuthorship W4226024912A5082871860 @default.
• W4226024912 hasBestOaLocation W42260249121 @default.
• W4226024912 hasConcept C104317684 @default.
• W4226024912 hasConcept C126513998 @default.
• W4226024912 hasConcept C141231307 @default.
• W4226024912 hasConcept C141674004 @default.
• W4226024912 hasConcept C145741570 @default.
• W4226024912 hasConcept C177212765 @default.
• W4226024912 hasConcept C189206191 @default.
• W4226024912 hasConcept C202264299 @default.
• W4226024912 hasConcept C2779927696 @default.
• W4226024912 hasConcept C41008148 @default.
• W4226024912 hasConcept C51679486 @default.
• W4226024912 hasConcept C54355233 @default.
• W4226024912 hasConcept C54458228 @default.
• W4226024912 hasConcept C67705224 @default.
• W4226024912 hasConcept C70721500 @default.
• W4226024912 hasConcept C77088390 @default.
• W4226024912 hasConcept C86803240 @default.
• W4226024912 hasConceptScore W4226024912C104317684 @default.
• W4226024912 hasConceptScore W4226024912C126513998 @default.
• W4226024912 hasConceptScore W4226024912C141231307 @default.
• W4226024912 hasConceptScore W4226024912C141674004 @default.
• W4226024912 hasConceptScore W4226024912C145741570 @default.
• W4226024912 hasConceptScore W4226024912C177212765 @default.
• W4226024912 hasConceptScore W4226024912C189206191 @default.
• W4226024912 hasConceptScore W4226024912C202264299 @default.
• W4226024912 hasConceptScore W4226024912C2779927696 @default.
• W4226024912 hasConceptScore W4226024912C41008148 @default.
• W4226024912 hasConceptScore W4226024912C51679486 @default.
• W4226024912 hasConceptScore W4226024912C54355233 @default.
• W4226024912 hasConceptScore W4226024912C54458228 @default.
• W4226024912 hasConceptScore W4226024912C67705224 @default.
• W4226024912 hasConceptScore W4226024912C70721500 @default.
• W4226024912 hasConceptScore W4226024912C77088390 @default.
• W4226024912 hasConceptScore W4226024912C86803240 @default.
• W4226024912 hasFunder F4320309793 @default.
• W4226024912 hasFunder F4320311904 @default.
• W4226024912 hasFunder F4320321001 @default.
• W4226024912 hasFunder F4320324202 @default.
• W4226024912 hasIssue "5" @default.
• W4226024912 hasLocation W42260249121 @default.
• W4226024912 hasLocation W42260249122 @default.
• W4226024912 hasLocation W42260249123 @default.
• W4226024912 hasLocation W42260249124 @default.
• W4226024912 hasLocation W42260249125 @default.
• W4226024912 hasOpenAccess W4226024912 @default.
• W4226024912 hasPrimaryLocation W42260249121 @default.
• W4226024912 hasRelatedWork W1653665192 @default.
• W4226024912 hasRelatedWork W2122064342 @default.
• W4226024912 hasRelatedWork W2156467546 @default.
• W4226024912 hasRelatedWork W2803476996 @default.
• W4226024912 hasRelatedWork W2910409918 @default.
• W4226024912 hasRelatedWork W2947085902 @default.
• W4226024912 hasRelatedWork W3119905834 @default.
• W4226024912 hasRelatedWork W4205146010 @default.
• W4226024912 hasRelatedWork W4226024912 @default.
• W4226024912 hasRelatedWork W4288064090 @default.
• W4226024912 hasVolume "38" @default.
• W4226024912 isParatext "false" @default.
• W4226024912 isRetracted "false" @default.

• next