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Critical evaluation...
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Nordström, Karl J VUppsala universitet,Funktionell farmakologi
(författare)
Critical evaluation of the FANTOM3 non-coding RNA transcripts
- Artikel/kapitelEngelska2009
Förlag, utgivningsår, omfång ...
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Elsevier BV,2009
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printrdacarrier
Nummerbeteckningar
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LIBRIS-ID:oai:DiVA.org:uu-124755
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https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-124755URI
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https://doi.org/10.1016/j.ygeno.2009.05.012DOI
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Språk:engelska
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Sammanfattning på:engelska
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Ämneskategori:ref swepub-contenttype
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Ämneskategori:art swepub-publicationtype
Anmärkningar
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We studied the genomic positions of 38,129 putative ncRNAs from the RIKEN dataset in relation to protein-coding genes. We found that the dataset has 41% sense, 6% antisense, 24% intronic and 29% intergenic transcripts. Interestingly, 17,678 (47%) of the FANTOM3 transcripts were found to potentially be internally primed from longer transcripts. The highest fraction of these transcripts was found among the intronic transcripts and as many as 77% or 6929 intronic transcripts were both internally primed and unspliced. We defined a filtered subset of 8535 transcripts that did not overlap with protein-coding genes, did not contain ORFs longer than 100 residues and were not internally primed. This dataset contains 53% of the FANTOM3 transcripts associated to known ncRNA in RNAdb and expands previous similar efforts with 6523 novel transcripts. This bioinformatic filtering of the FANTOM3 non-coding dataset has generated a lead dataset of transcripts without signs of being artefacts, providing a suitable dataset for investigation with hybridization-based techniques.
Ämnesord och genrebeteckningar
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RIKEN
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FANTOM3
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ncRNA
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Non-coding RNA
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snoRNA
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EST
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MEDICINE
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MEDICIN
Biuppslag (personer, institutioner, konferenser, titlar ...)
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Mirza, Majd A IUppsala universitet,Funktionell farmakologi
(författare)
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Almén, Markus SällmanUppsala universitet,Funktionell farmakologi(Swepub:uu)marsa340
(författare)
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Gloriam, David EUppsala universitet,Funktionell farmakologi
(författare)
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Fredriksson, RobertUppsala universitet,Funktionell farmakologi(Swepub:uu)rfr20930
(författare)
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Schiöth, Helgi BUppsala universitet,Funktionell farmakologi(Swepub:uu)helgschi
(författare)
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Uppsala universitetFunktionell farmakologi
(creator_code:org_t)
Sammanhörande titlar
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Ingår i:Genomics: Elsevier BV94:3, s. 169-1760888-75431089-8646
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Genomics
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