236 related articles for article (PubMed ID: 22496636)
1. RNA-Seq mapping and detection of gene fusions with a suffix array algorithm.
Sakarya O; Breu H; Radovich M; Chen Y; Wang YN; Barbacioru C; Utiramerur S; Whitley PP; Brockman JP; Vatta P; Zhang Z; Popescu L; Muller MW; Kudlingar V; Garg N; Li CY; Kong BS; Bodeau JP; Nutter RC; Gu J; Bramlett KS; Ichikawa JK; Hyland FC; Siddiqui AS
PLoS Comput Biol; 2012; 8(4):e1002464. PubMed ID: 22496636
[TBL] [Abstract][Full Text] [Related]
2. InFusion: Advancing Discovery of Fusion Genes and Chimeric Transcripts from Deep RNA-Sequencing Data.
Okonechnikov K; Imai-Matsushima A; Paul L; Seitz A; Meyer TF; Garcia-Alcalde F
PLoS One; 2016; 11(12):e0167417. PubMed ID: 27907167
[TBL] [Abstract][Full Text] [Related]
3. Identification of gene fusion transcripts by transcriptome sequencing in BRCA1-mutated breast cancers and cell lines.
Ha KC; Lalonde E; Li L; Cavallone L; Natrajan R; Lambros MB; Mitsopoulos C; Hakas J; Kozarewa I; Fenwick K; Lord CJ; Ashworth A; Vincent-Salomon A; Basik M; Reis-Filho JS; Majewski J; Foulkes WD
BMC Med Genomics; 2011 Oct; 4():75. PubMed ID: 22032724
[TBL] [Abstract][Full Text] [Related]
4. FusionQ: a novel approach for gene fusion detection and quantification from paired-end RNA-Seq.
Liu C; Ma J; Chang CJ; Zhou X
BMC Bioinformatics; 2013 Jun; 14():193. PubMed ID: 23768108
[TBL] [Abstract][Full Text] [Related]
5. Bellerophontes: an RNA-Seq data analysis framework for chimeric transcripts discovery based on accurate fusion model.
Abate F; Acquaviva A; Paciello G; Foti C; Ficarra E; Ferrarini A; Delledonne M; Iacobucci I; Soverini S; Martinelli G; Macii E
Bioinformatics; 2012 Aug; 28(16):2114-21. PubMed ID: 22711792
[TBL] [Abstract][Full Text] [Related]
6. STAR: ultrafast universal RNA-seq aligner.
Dobin A; Davis CA; Schlesinger F; Drenkow J; Zaleski C; Jha S; Batut P; Chaisson M; Gingeras TR
Bioinformatics; 2013 Jan; 29(1):15-21. PubMed ID: 23104886
[TBL] [Abstract][Full Text] [Related]
7. PASSion: a pattern growth algorithm-based pipeline for splice junction detection in paired-end RNA-Seq data.
Zhang Y; Lameijer EW; 't Hoen PA; Ning Z; Slagboom PE; Ye K
Bioinformatics; 2012 Feb; 28(4):479-86. PubMed ID: 22219203
[TBL] [Abstract][Full Text] [Related]
8. Case Study: Systematic Detection and Prioritization of Gene Fusions in Cancer by RNA-Seq: A DIY Toolkit.
Vats P; Chinnaiyan AM; Kumar-Sinha C
Methods Mol Biol; 2020; 2079():69-79. PubMed ID: 31728962
[TBL] [Abstract][Full Text] [Related]
9. Comparative assessment of methods for the fusion transcripts detection from RNA-Seq data.
Kumar S; Vo AD; Qin F; Li H
Sci Rep; 2016 Feb; 6():21597. PubMed ID: 26862001
[TBL] [Abstract][Full Text] [Related]
10. FuGePrior: A novel gene fusion prioritization algorithm based on accurate fusion structure analysis in cancer RNA-seq samples.
Paciello G; Ficarra E
BMC Bioinformatics; 2017 Jan; 18(1):58. PubMed ID: 28114882
[TBL] [Abstract][Full Text] [Related]
11. LongGF: computational algorithm and software tool for fast and accurate detection of gene fusions by long-read transcriptome sequencing.
Liu Q; Hu Y; Stucky A; Fang L; Zhong JF; Wang K
BMC Genomics; 2020 Dec; 21(Suppl 11):793. PubMed ID: 33372596
[TBL] [Abstract][Full Text] [Related]
12. Gene fusions associated with recurrent amplicons represent a class of passenger aberrations in breast cancer.
Kalyana-Sundaram S; Shankar S; Deroo S; Iyer MK; Palanisamy N; Chinnaiyan AM; Kumar-Sinha C
Neoplasia; 2012 Aug; 14(8):702-8. PubMed ID: 22952423
[TBL] [Abstract][Full Text] [Related]
13. A comparison of massively parallel nucleotide sequencing with oligonucleotide microarrays for global transcription profiling.
Bradford JR; Hey Y; Yates T; Li Y; Pepper SD; Miller CJ
BMC Genomics; 2010 May; 11():282. PubMed ID: 20444259
[TBL] [Abstract][Full Text] [Related]
14. Deep RNA sequencing analysis of readthrough gene fusions in human prostate adenocarcinoma and reference samples.
Nacu S; Yuan W; Kan Z; Bhatt D; Rivers CS; Stinson J; Peters BA; Modrusan Z; Jung K; Seshagiri S; Wu TD
BMC Med Genomics; 2011 Jan; 4():11. PubMed ID: 21261984
[TBL] [Abstract][Full Text] [Related]
15. SOAPfusion: a robust and effective computational fusion discovery tool for RNA-seq reads.
Wu J; Zhang W; Huang S; He Z; Cheng Y; Wang J; Lam TW; Peng Z; Yiu SM
Bioinformatics; 2013 Dec; 29(23):2971-8. PubMed ID: 24123671
[TBL] [Abstract][Full Text] [Related]
16. FusionMap: detecting fusion genes from next-generation sequencing data at base-pair resolution.
Ge H; Liu K; Juan T; Fang F; Newman M; Hoeck W
Bioinformatics; 2011 Jul; 27(14):1922-8. PubMed ID: 21593131
[TBL] [Abstract][Full Text] [Related]
17. Discovering chimeric transcripts in paired-end RNA-seq data by using EricScript.
Benelli M; Pescucci C; Marseglia G; Severgnini M; Torricelli F; Magi A
Bioinformatics; 2012 Dec; 28(24):3232-9. PubMed ID: 23093608
[TBL] [Abstract][Full Text] [Related]
18. RNA sequencing of sarcomas with simple karyotypes: identification and enrichment of fusion transcripts.
Hofvander J; Tayebwa J; Nilsson J; Magnusson L; Brosjö O; Larsson O; von Steyern FV; Domanski HA; Mandahl N; Mertens F
Lab Invest; 2015 Jun; 95(6):603-9. PubMed ID: 25867764
[TBL] [Abstract][Full Text] [Related]
19. Improved detection of clinically relevant fusion transcripts in cancer by machine learning classification.
Hafstað V; Häkkinen J; Larsson M; Staaf J; Vallon-Christersson J; Persson H
BMC Genomics; 2023 Dec; 24(1):783. PubMed ID: 38110872
[TBL] [Abstract][Full Text] [Related]
20. TopHat-Fusion: an algorithm for discovery of novel fusion transcripts.
Kim D; Salzberg SL
Genome Biol; 2011 Aug; 12(8):R72. PubMed ID: 21835007
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]