De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis-Reference-Cited by-同舟云学术

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

Published:2013-07-11 Issue:8 Volume:8 Page:1494-1512
ISSN:1754-2189
Container-title:Nature Protocols
language:en
Short-container-title:Nat Protoc

Author:

Haas Brian J,Papanicolaou Alexie,Yassour Moran,Grabherr Manfred,Blood Philip D,Bowden Joshua,Couger Matthew Brian,Eccles David,Li Bo,Lieber Matthias,MacManes Matthew D,Ott Michael,Orvis Joshua,Pochet Nathalie,Strozzi Francesco,Weeks Nathan,Westerman Rick,William Thomas,Dewey Colin N,Henschel Robert,LeDuc Richard D,Friedman Nir,Regev Aviv

Publisher

Springer Science and Business Media LLC

Subject

General Biochemistry, Genetics and Molecular Biology

Link

https://www.nature.com/articles/nprot.2013.084.pdf

Reference50 articles.

1. Wang, Z., Gerstein, M. & Snyder, M. RNA-seq: a revolutionary tool for transcriptomics. Nat. Rev. Genet. 10, 57–63 (2009).

2. Haas, B.J. & Zody, M.C. Advancing RNA-seq analysis. Nat. Biotechnol. 28, 421–423 (2010).

3. Martin, J.A. & Wang, Z. Next-generation transcriptome assembly. Nat. Rev. Genet. 12, 671–682 (2011).

4. Trapnell, C. et al. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nat. Protoc. 7, 562–578 (2012).

5. Guttman, M. et al. Ab initio reconstruction of cell type–specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs. Nat. Biotechnol. 28, 503–510 (2010).

Cited by 6745 articles. 订阅此论文施引文献订阅此论文施引文献，注册后可以免费订阅5篇论文的施引文献，订阅后可以查看论文全部施引文献

1. Transcriptome and pathophysiological analysis during Bacillus cereus group infection in Pelodiscus sinensis uncovered the importance of iron and toll like receptor pathway;Aquaculture;2025-01

2. Induction of lipid production through controlled acidification: A transcriptional insight into the metabolism of Scenedesmus obtusiusculus AT-UAM;Process Biochemistry;2024-12

3. Unveiling axolotl transcriptome for tissue regeneration with high-resolution annotation via long-read sequencing;Computational and Structural Biotechnology Journal;2024-12

4. Genetic variations underlying root-knot nematode resistance in sweetpotato;Gene;2024-12

5. Proteogenomic reconstruction of organ-specific metabolic networks in an environmental sentinel species, the amphipod Gammarus fossarum;Comparative Biochemistry and Physiology Part D: Genomics and Proteomics;2024-12