Targeted sequencing for gene discovery and quantification using RNA CaptureSeq.
RNA sequencing (RNAseq) samples the majority of expressed genes infrequently, owing to the large size, complex splicing and wide dynamic range of eukaryotic transcriptomes. This results in sparse sequencing coverage that can hinder robust isoform assembly and quantification. RNA capture sequencing (...
| Principais autores: | , , , , , , , , |
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| Formato: | Journal article |
| Idioma: | English |
| Publicado em: |
Nature Publishing Group
2014
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| _version_ | 1826281736889171968 |
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| author | Mercer, T Clark, M Crawford, J Brunck, M Gerhardt, D Taft, R Nielsen, L Nielsen, L Dinger, M Mattick, J Mattick, J |
| author_facet | Mercer, T Clark, M Crawford, J Brunck, M Gerhardt, D Taft, R Nielsen, L Nielsen, L Dinger, M Mattick, J Mattick, J |
| author_sort | Mercer, T |
| collection | OXFORD |
| description | RNA sequencing (RNAseq) samples the majority of expressed genes infrequently, owing to the large size, complex splicing and wide dynamic range of eukaryotic transcriptomes. This results in sparse sequencing coverage that can hinder robust isoform assembly and quantification. RNA capture sequencing (CaptureSeq) addresses this challenge by using oligonucleotide probes to capture selected genes or regions of interest for targeted sequencing. Targeted RNAseq provides enhanced coverage for sensitive gene discovery, robust transcript assembly and accurate gene quantification. Here we describe a detailed protocol for all stages of RNA CaptureSeq, from initial probe design considerations and capture of targeted genes to final assembly and quantification of captured transcripts. Initial probe design and final analysis can take less than 1 d, whereas the central experimental capture stage requires ∼7 d. |
| first_indexed | 2024-03-07T00:33:18Z |
| format | Journal article |
| id | oxford-uuid:808d8a1d-f111-41a4-87b6-7fe8d3c8a1a9 |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-07T00:33:18Z |
| publishDate | 2014 |
| publisher | Nature Publishing Group |
| record_format | dspace |
| spelling | oxford-uuid:808d8a1d-f111-41a4-87b6-7fe8d3c8a1a92022-03-26T21:24:09ZTargeted sequencing for gene discovery and quantification using RNA CaptureSeq.Journal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:808d8a1d-f111-41a4-87b6-7fe8d3c8a1a9EnglishSymplectic Elements at OxfordNature Publishing Group2014Mercer, TClark, MCrawford, JBrunck, MGerhardt, DTaft, RNielsen, LNielsen, LDinger, MMattick, JMattick, JRNA sequencing (RNAseq) samples the majority of expressed genes infrequently, owing to the large size, complex splicing and wide dynamic range of eukaryotic transcriptomes. This results in sparse sequencing coverage that can hinder robust isoform assembly and quantification. RNA capture sequencing (CaptureSeq) addresses this challenge by using oligonucleotide probes to capture selected genes or regions of interest for targeted sequencing. Targeted RNAseq provides enhanced coverage for sensitive gene discovery, robust transcript assembly and accurate gene quantification. Here we describe a detailed protocol for all stages of RNA CaptureSeq, from initial probe design considerations and capture of targeted genes to final assembly and quantification of captured transcripts. Initial probe design and final analysis can take less than 1 d, whereas the central experimental capture stage requires ∼7 d. |
| spellingShingle | Mercer, T Clark, M Crawford, J Brunck, M Gerhardt, D Taft, R Nielsen, L Nielsen, L Dinger, M Mattick, J Mattick, J Targeted sequencing for gene discovery and quantification using RNA CaptureSeq. |
| title | Targeted sequencing for gene discovery and quantification using RNA CaptureSeq. |
| title_full | Targeted sequencing for gene discovery and quantification using RNA CaptureSeq. |
| title_fullStr | Targeted sequencing for gene discovery and quantification using RNA CaptureSeq. |
| title_full_unstemmed | Targeted sequencing for gene discovery and quantification using RNA CaptureSeq. |
| title_short | Targeted sequencing for gene discovery and quantification using RNA CaptureSeq. |
| title_sort | targeted sequencing for gene discovery and quantification using rna captureseq |
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