• Login
    About WHOAS
    View Item 
    •   WHOAS Home
    • Marine Biological Laboratory
    • Eugene Bell Center for Regenerative Biology and Tissue Engineering
    • Bell Center Data Sets
    • View Item
    •   WHOAS Home
    • Marine Biological Laboratory
    • Eugene Bell Center for Regenerative Biology and Tissue Engineering
    • Bell Center Data Sets
    • View Item
    JavaScript is disabled for your browser. Some features of this site may not work without it.

    Browse

    All of WHOASCommunities & CollectionsBy Issue DateAuthorsTitlesKeywordsThis CollectionBy Issue DateAuthorsTitlesKeywords

    My Account

    LoginRegister

    Statistics

    View Usage Statistics

    Nematostella Embryonic Transcriptome

    Thumbnail
    View/Open
    Nematostella Transcriptome (81.54Mb)
    Raw Reads/Hour 0/R1.1 (345.9Mb)
    Raw Reads/Hour 0/R1.2 (347.3Mb)
    Raw Reads/Hour 0/R1.3 (347.8Mb)
    Raw Reads/Hour 0/R1.4 (346.6Mb)
    Raw Reads/Hour 0/R1.5 (124.3Mb)
    Raw Reads/Hour 0/R2.1 (348.2Mb)
    Raw Reads/Hour 0/R2.2 (348.8Mb)
    Raw Reads/Hour 0/R2.3 (350.2Mb)
    Raw Reads/Hour 0/R2.4 (347.9Mb)
    Raw Reads/Hour 0/R2.5 (124.3Mb)
    Raw Reads/Hour 6/R1.1 (342.9Mb)
    Raw Reads/Hour 6/R1.2 (342.1Mb)
    Raw Reads/Hour 6/R1.3 (343.2Mb)
    Raw Reads/Hour 6/R1.4 (345.4Mb)
    Raw Reads/Hour 6/R1.5 (327.2Mb)
    Raw Reads/Hour 6/R2.1 (346.5Mb)
    Raw Reads/Hour 6/R2.2 (345.9Mb)
    Raw Reads/Hour 6/R2.3 (345.9Mb)
    Raw Reads/Hour 6/R2.4 (348.7Mb)
    Raw Reads/Hour 6/R2.5 (329.5Mb)
    Raw Reads/Hour 12/R1.1 (343.4Mb)
    Raw Reads/Hour 12/R1.2 (343.4Mb)
    Raw Reads/Hour 12/R1.3 (346.8Mb)
    Raw Reads/Hour 12/R1.4 (210.3Mb)
    Raw Reads/Hour 12/R2.1 (345.2Mb)
    Raw Reads/Hour 12/R2.2 (344.4Mb)
    Raw Reads/Hour 12/R2.3 (348.1Mb)
    Raw Reads/Hour 12/R2.4 (210.1Mb)
    Raw Reads/Hour 18/R1.1 (342.8Mb)
    Raw Reads/Hour 18/R1.2 (341.6Mb)
    Raw Reads/Hour 18/R1.3 (341.7Mb)
    Raw Reads/Hour 18/R1.4 (342.7Mb)
    Raw Reads/Hour 18/R1.5 (344.9Mb)
    Raw Reads/Hour 18/R1.6 (346.5Mb)
    Raw Reads/Hour 18/R1.7 (341.3Mb)
    Raw Reads/Hour 18/R1.8 (69.84Mb)
    Raw Reads/Hour 18/R2.1 (342.9Mb)
    Raw Reads/Hour 18/R2.2 (342.7Mb)
    Raw Reads/Hour 18/R2.3 (341.8Mb)
    Raw Reads/Hour 18/R2.4 (342.6Mb)
    Raw Reads/Hour 18/R2.5 (345.7Mb)
    Raw Reads/Hour 18/R2.6 (346.1Mb)
    Raw Reads/Hour 18/R2.7 (339.6Mb)
    Raw Reads/Hour 18/R2.8 (70.03Mb)
    Raw Reads/Hour 24A/R1.1 (342.6Mb)
    Raw Reads/Hour 24A/R1.2 (345.2Mb)
    Raw Reads/Hour 24A/R1.3 (350.2Mb)
    Raw Reads/Hour 24A/R1.4 (338.9Mb)
    Raw Reads/Hour 24A/R1.5 (344.6Mb)
    Raw Reads/Hour 24A/R1.6 (349.7Mb)
    Raw Reads/Hour 24A/R1.7 (342.5Mb)
    Raw Reads/Hour 24A/R1.8 (345.5Mb)
    Raw Reads/Hour 24A/R1.9 (349.3Mb)
    Raw Reads/Hour 24A/R1.10 (9.835Mb)
    Raw Reads/Hour 24A/R2.1 (344.2Mb)
    Raw Reads/Hour 24A/R2.2 (348.2Mb)
    Raw Reads/Hour 24A/R2.3 (351.9Mb)
    Raw Reads/Hour 24A/R2.4 (340.8Mb)
    Raw Reads/Hour 24A/R2.5 (346.4Mb)
    Raw Reads/Hour 24A/R2.6 (351.6Mb)
    Raw Reads/Hour 24A/R2.7 (343.9Mb)
    Raw Reads/Hour 24A/R2.8 (348.4Mb)
    Raw Reads/Hour 24A/R2.9 (348.7Mb)
    Raw Reads/Hour 24A/R2.10 (10.05Mb)
    Raw Reads/Hour 24B/R1.1 (237.9Mb)
    Raw Reads/Hour 24B/R2.1 (240.4Mb)
    Readme.txt (1.524Kb)
    Date
    2012-12-12
    Author
    Tulin, Sarah  Concept link
    Aguiar, Derek  Concept link
    Istrail, Sorin  Concept link
    Smith, Joel  Concept link
    Metadata
    Show full item record
    Citable URI
    https://hdl.handle.net/1912/5613
    Related Material/Data
    https://hdl.handle.net/1912/6121
    DOI
    10.1575/1912/5613
    Keyword
     Nematostella Embryonic Transcriptome; RNA-Seq Raw Reads 
    Abstract
    RNA-Seq was performed on Nematostella Embryos at 5 timepoints during early development: 0hrs, 6hrs, 12hrs, 18hrs, 24hrs after fertilization. Embryos were harvested, lysed and mRNAs were selected using Dynabeads. Directional sequencing libraries were constructed using the ScriptSeq kit from Epicentre. A control RNA set from the National Institute of Standards and Technology (NIST) were spiked-into the library preparation. Libraries were sequenced using the Illumina HiSeq 1000, version 3 chemistry, 100bp paired-end reads and produced over 200million reads. The reads were quality controlled filtered and assembled using the Trinity Assembler. This database contains the raw read files and the assembled Transcriptome.
    Collections
    • Bell Center Data Sets
    Suggested Citation
    Dataset: Tulin, Sarah, Aguiar, Derek, Istrail, Sorin, Smith, Joel, "Nematostella Embryonic Transcriptome", 2012-12-12, DOI:10.1575/1912/5613, https://hdl.handle.net/1912/5613
     

    Related items

    Showing items related by title, author, creator and subject.

    • Thumbnail

      A quantitative reference transcriptome for Nematostella vectensis early embryonic development : a pipeline for de novo assembly in emerging model systems 

      Tulin, Sarah; Aguiar, Derek; Istrail, Sorin; Smith, Joel (BioMed Central, 2013-06-03)
      The de novo assembly of transcriptomes from short shotgun sequences raises challenges due to random and non-random sequencing biases and inherent transcript complexity. We sought to define a pipeline for de novo transcriptome ...
    • Thumbnail

      Expression and reconstitution of the bioluminescent Ca2+ reporter aequorin in human embryonic stem cells, and exploration of the presence of functional IP3 and ryanodine receptors during the early stages of their differentiation into cardiomyocytes 

      Chan, Harvey Y. S.; Cheung, Man Chun; Gao, Yi; Miller, Andrew L.; Webb, Sarah E. (Springer, 2016-07-19)
      In order to develop a novel method of visualizing possible Ca2+ signaling during the early differentiation of hESCs into cardiomyocytes and avoid some of the inherent problems associated with using fluorescent reporters, ...
    • Thumbnail

      Antioxidant responses and NRF2 in synergistic developmental toxicity of PAHs in zebrafish 

      Timme-Laragy, Alicia R.; Van Tiem, Lindsey A.; Linney, Elwood A.; Di Giulio, Richard T. (2008-12)
      Early piscine life-stages are sensitive to polycyclic aromatic hydrocarbon (PAH) exposure, which can cause pericardial effusion and craniofacial malformations. We previously reported that certain combinations of PAHs ...
    All Items in WHOAS are protected by original copyright, with all rights reserved, unless otherwise indicated. WHOAS also supports the use of the Creative Commons licenses for original content.
    A service of the MBLWHOI Library | About WHOAS
    Contact Us | Send Feedback | Privacy Policy