Targeted next-generation sequencing of a cancer transcriptome enhances detection of sequence variants and novel fusion transcripts
Targeted RNA-Seq combines next-generation sequencing with capture of sequences from a relevant subset of a transcriptome. When testing by capturing sequences from a tumor cDNA library by hybridization to oligonucleotide probes specific for 467 cancer-related genes, this method showed high selectivit...
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| Veröffentlicht in: | Genome Biology (Online Edition) 2009-01, Vol.10 (10), p.R115-R115, Article R115 |
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| container_title | Genome Biology (Online Edition) |
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| creator | Levin, Joshua Z Berger, Michael F Adiconis, Xian Rogov, Peter Melnikov, Alexandre Fennell, Timothy Nusbaum, Chad Garraway, Levi A Gnirke, Andreas |
| description | Targeted RNA-Seq combines next-generation sequencing with capture of sequences from a relevant subset of a transcriptome. When testing by capturing sequences from a tumor cDNA library by hybridization to oligonucleotide probes specific for 467 cancer-related genes, this method showed high selectivity, improved mutation detection enabling discovery of novel chimeric transcripts, and provided RNA expression data. Thus, targeted RNA-Seq produces an enhanced view of the molecular state of a set of "high interest" genes. |
| doi_str_mv | 10.1186/gb-2009-10-10-r115 |
| format | Article |
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Thus, targeted RNA-Seq produces an enhanced view of the molecular state of a set of "high interest" genes.</description><subject>Amino Acid Sequence</subject><subject>Antisense DNA</subject><subject>Base Sequence</subject><subject>Cancer</subject><subject>DNA sequencing</subject><subject>DNA, Complementary - genetics</subject><subject>Gene Expression Profiling - methods</subject><subject>Gene Expression Regulation, Neoplastic - genetics</subject><subject>Genetic aspects</subject><subject>Humans</subject><subject>K562 Cells</subject><subject>Method</subject><subject>Molecular Sequence Data</subject><subject>Mutation - genetics</subject><subject>Neoplasms - genetics</subject><subject>Nucleotide sequencing</subject><subject>Oncogene Proteins, Fusion - chemistry</subject><subject>Oncogene Proteins, Fusion - genetics</subject><subject>Oncogene Proteins, Fusion - metabolism</subject><subject>Physiological aspects</subject><subject>RNA</subject><subject>RNA, Messenger - genetics</subject><subject>RNA, Messenger - metabolism</subject><subject>Sequence Analysis, DNA - methods</subject><issn>1474-760X</issn><issn>1465-6906</issn><issn>1474-760X</issn><issn>1465-6914</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2009</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>KPI</sourceid><recordid>eNqNUk1rFTEUDaLY-vQPuJCsFBdT8zWZzEYopdViQRcV3IVM5mYamUmeybyHbv3lzfgetg9UJIGE3HNOzv1A6DklJ5Qq-WboKkZIW1Gy7ERp_QAdU9GIqpHky8N79yP0JOevhNBWMPkYHdFW8VoSeYx-Xps0wAw9DvB9rgYIkMzsY8AZvm0gWB8GHB022JpgIeE5mZBt8us5ToAh3CzPGfdFw_7iFfCeCnhrkjdhztiE8kHcwojdJi-oO5n8FD1yZszwbH-u0OeL8-uz99XVx3eXZ6dXVSclmStlVN0KafsW-q62yoB0UtGW9bWrmQUlhGPcsp7WQA2YnlDJgXMmuFNMWb5Cb3e66003QW8hFBOjXic_mfRDR-P1YST4Gz3ErWaNEpyTInC-E-h8_IvAYcTGSQ-dXpqkKVn20qSi82pvJMVSqDzryWcL42gCxE3WDRe0bmkxvkIv_4lkVEjWlmb-B1C0XC45nOyAgxlB--BicWrL6mHyNgZwvryfsuJTNoSzQnh9QCiYuUzKYDY56w-fLg-xbIe1KeacwP2uzZJ9Gdk_V-PF_bbcUfYzym8BUmbsJA</recordid><startdate>20090101</startdate><enddate>20090101</enddate><creator>Levin, Joshua Z</creator><creator>Berger, Michael F</creator><creator>Adiconis, Xian</creator><creator>Rogov, Peter</creator><creator>Melnikov, Alexandre</creator><creator>Fennell, Timothy</creator><creator>Nusbaum, Chad</creator><creator>Garraway, Levi A</creator><creator>Gnirke, Andreas</creator><general>BioMed Central Ltd</general><general>BioMed Central</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>KPI</scope><scope>IAO</scope><scope>7TM</scope><scope>8FD</scope><scope>FR3</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20090101</creationdate><title>Targeted next-generation sequencing of a cancer transcriptome enhances detection of sequence variants and novel fusion transcripts</title><author>Levin, Joshua Z ; 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| source | MEDLINE; DOAJ Directory of Open Access Journals; Springer Nature OA Free Journals; EZB-FREE-00999 freely available EZB journals; PubMed Central; SpringerLink Journals - AutoHoldings |
| subjects | Amino Acid Sequence Antisense DNA Base Sequence Cancer DNA sequencing DNA, Complementary - genetics Gene Expression Profiling - methods Gene Expression Regulation, Neoplastic - genetics Genetic aspects Humans K562 Cells Method Molecular Sequence Data Mutation - genetics Neoplasms - genetics Nucleotide sequencing Oncogene Proteins, Fusion - chemistry Oncogene Proteins, Fusion - genetics Oncogene Proteins, Fusion - metabolism Physiological aspects RNA RNA, Messenger - genetics RNA, Messenger - metabolism Sequence Analysis, DNA - methods |
| title | Targeted next-generation sequencing of a cancer transcriptome enhances detection of sequence variants and novel fusion transcripts |
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