Gnirke A - Search Results

1

Targeted next-generation sequencing of a cancer transcriptome enhances detection of sequence variants and novel fusion transcripts.

Levin JZ, Berger MF, Adiconis X, Rogov P, Melnikov A, Fennell T, Nusbaum C, Garraway LA, Gnirke A. Levin JZ, et al. Among authors: gnirke a. Genome Biol. 2009;10(10):R115. doi: 10.1186/gb-2009-10-10-r115. Epub 2009 Oct 16. Genome Biol. 2009. PMID: 19835606 Free PMC article.

2

Integrative analysis of the melanoma transcriptome.

Berger MF, Levin JZ, Vijayendran K, Sivachenko A, Adiconis X, Maguire J, Johnson LA, Robinson J, Verhaak RG, Sougnez C, Onofrio RC, Ziaugra L, Cibulskis K, Laine E, Barretina J, Winckler W, Fisher DE, Getz G, Meyerson M, Jaffe DB, Gabriel SB, Lander ES, Dummer R, Gnirke A, Nusbaum C, Garraway LA. Berger MF, et al. Among authors: gnirke a. Genome Res. 2010 Apr;20(4):413-27. doi: 10.1101/gr.103697.109. Epub 2010 Feb 23. Genome Res. 2010. PMID: 20179022 Free PMC article.

3

Comprehensive comparative analysis of strand-specific RNA sequencing methods.

Levin JZ, Yassour M, Adiconis X, Nusbaum C, Thompson DA, Friedman N, Gnirke A, Regev A. Levin JZ, et al. Among authors: gnirke a. Nat Methods. 2010 Sep;7(9):709-15. doi: 10.1038/nmeth.1491. Epub 2010 Aug 15. Nat Methods. 2010. PMID: 20711195 Free PMC article.

4

Strand-specific RNA sequencing reveals extensive regulated long antisense transcripts that are conserved across yeast species.

Yassour M, Pfiffner J, Levin JZ, Adiconis X, Gnirke A, Nusbaum C, Thompson DA, Friedman N, Regev A. Yassour M, et al. Among authors: gnirke a. Genome Biol. 2010;11(8):R87. doi: 10.1186/gb-2010-11-8-r87. Epub 2010 Aug 26. Genome Biol. 2010. PMID: 20796282 Free PMC article.

5

Efficient and robust RNA-seq process for cultured bacteria and complex community transcriptomes.

Giannoukos G, Ciulla DM, Huang K, Haas BJ, Izard J, Levin JZ, Livny J, Earl AM, Gevers D, Ward DV, Nusbaum C, Birren BW, Gnirke A. Giannoukos G, et al. Among authors: gnirke a. Genome Biol. 2012;13(3):R23. doi: 10.1186/gb-2012-13-3-r23. Genome Biol. 2012. PMID: 22455878 Free PMC article.

6

Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing.

Gnirke A, Melnikov A, Maguire J, Rogov P, LeProust EM, Brockman W, Fennell T, Giannoukos G, Fisher S, Russ C, Gabriel S, Jaffe DB, Lander ES, Nusbaum C. Gnirke A, et al. Nat Biotechnol. 2009 Feb;27(2):182-9. doi: 10.1038/nbt.1523. Epub 2009 Feb 1. Nat Biotechnol. 2009. PMID: 19182786 Free PMC article.

7

Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs.

Guttman M, Garber M, Levin JZ, Donaghey J, Robinson J, Adiconis X, Fan L, Koziol MJ, Gnirke A, Nusbaum C, Rinn JL, Lander ES, Regev A. Guttman M, et al. Among authors: gnirke a. Nat Biotechnol. 2010 May;28(5):503-10. doi: 10.1038/nbt.1633. Epub 2010 May 2. Nat Biotechnol. 2010. PMID: 20436462 Free PMC article.

8

Targeted exon sequencing by in-solution hybrid selection.

Blumenstiel B, Cibulskis K, Fisher S, DeFelice M, Barry A, Fennell T, Abreu J, Minie B, Costello M, Young G, Maquire J, Kernytsky A, Melnikov A, Rogov P, Gnirke A, Gabriel S. Blumenstiel B, et al. Among authors: gnirke a. Curr Protoc Hum Genet. 2010 Jul;Chapter 18:Unit 18.4. doi: 10.1002/0471142905.hg1804s66. Curr Protoc Hum Genet. 2010. PMID: 20582916

9

Analyzing and minimizing PCR amplification bias in Illumina sequencing libraries.

Aird D, Ross MG, Chen WS, Danielsson M, Fennell T, Russ C, Jaffe DB, Nusbaum C, Gnirke A. Aird D, et al. Among authors: gnirke a. Genome Biol. 2011;12(2):R18. doi: 10.1186/gb-2011-12-2-r18. Epub 2011 Feb 21. Genome Biol. 2011. PMID: 21338519 Free PMC article.

10

Metabolic labeling of RNA uncovers principles of RNA production and degradation dynamics in mammalian cells.

Rabani M, Levin JZ, Fan L, Adiconis X, Raychowdhury R, Garber M, Gnirke A, Nusbaum C, Hacohen N, Friedman N, Amit I, Regev A. Rabani M, et al. Among authors: gnirke a. Nat Biotechnol. 2011 May;29(5):436-42. doi: 10.1038/nbt.1861. Epub 2011 Apr 24. Nat Biotechnol. 2011. PMID: 21516085 Free PMC article.

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