High Quality de Novo Transcriptome Assembly of Croton tiglium

被引：30
作者：
Haak, Markus [1 ]
Vinke, Svenja [1 ]
Keller, Willy [1 ,2 ]
Droste, Julian [1 ,2 ]
Rueckert, Christian [1 ,2 ,3 ]
Kalinowski, Joern [1 ,2 ]
Pucker, Boas [1 ,2 ,4 ]
机构：
[1] Bielefeld Univ, Ctr Biotechnol, Bielefeld, Germany
[2] Bielefeld Univ, Fac Biol, Bielefeld, Germany
[3] MIT, Dept Biol, Cambridge, MA USA
[4] Univ Cambridge, Dept Plant Sci, Cambridge, England
来源：
FRONTIERS IN MOLECULAR BIOSCIENCES | 2018年 / 5卷
关键词：
Croton tiglium; RNA-Seq; Trinity; reciprocal best BLAST hit; annotation transfer; gene expression; tissue-specific; anti-cancer;
D O I：
10.3389/fmolb.2018.00062
中图分类号：
Q5 [生物化学]; Q7 [分子生物学];
学科分类号：
071010 ; 081704 ;
摘要：
[No abstract available]
引用
收藏
页数：5
相关论文
共 33 条
  • [1] BASIC LOCAL ALIGNMENT SEARCH TOOL
    ALTSCHUL, SF
    GISH, W
    MILLER, W
    MYERS, EW
    LIPMAN, DJ
    [J]. JOURNAL OF MOLECULAR BIOLOGY, 1990, 215 (03) : 403 - 410
  • [2] Andrews S, 2010, FASTQC QUALITY CONTR
  • [3] Apweiler R, 2004, NUCLEIC ACIDS RES, V32, pD115, DOI [10.1093/nar/gkh131, 10.1093/nar/gkw1099]
  • [4] De novo transcriptome assembly analysis of weed Apera spica-venti from seven tissues and growth stages
    Babineau, Marielle
    Mahmood, Khalid
    Mathiassen, Solvejg K.
    Kudsk, Per
    Kristensen, Michael
    [J]. BMC GENOMICS, 2017, 18
  • [5] The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
    Bairoch, A
    Apweiler, R
    [J]. NUCLEIC ACIDS RESEARCH, 2000, 28 (01) : 45 - 48
  • [6] De novo transcriptome assemblies of four accessions of the metal hyperaccumulator plant Noccaea caerulescens
    Blande, Daniel
    Halimaa, Pauliina
    Tervahauta, Arja I.
    Aarts, Mark G. M.
    Karenlampi, Sirpa O.
    [J]. SCIENTIFIC DATA, 2017, 4
  • [7] Trimmomatic: a flexible trimmer for Illumina sequence data
    Bolger, Anthony M.
    Lohse, Marc
    Usadel, Bjoern
    [J]. BIOINFORMATICS, 2014, 30 (15) : 2114 - 2120
  • [8] Fast and sensitive protein alignment using DIAMOND
    Buchfink, Benjamin
    Xie, Chao
    Huson, Daniel H.
    [J]. NATURE METHODS, 2015, 12 (01) : 59 - 60
  • [9] Araport11: a complete reannotation of the Arabidopsis thaliana reference genome
    Cheng, Chia-Yi
    Krishnakumar, Vivek
    Chan, Agnes P.
    Thibaud-Nissen, Francoise
    Schobel, Seth
    Town, Christopher D.
    [J]. PLANT JOURNAL, 2017, 89 (04) : 789 - 804
  • [10] STAR: ultrafast universal RNA-seq aligner
    Dobin, Alexander
    Davis, Carrie A.
    Schlesinger, Felix
    Drenkow, Jorg
    Zaleski, Chris
    Jha, Sonali
    Batut, Philippe
    Chaisson, Mark
    Gingeras, Thomas R.
    [J]. BIOINFORMATICS, 2013, 29 (01) : 15 - 21
1234