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Barramundi Liver Raw Sequence Reads
Total RNA extracted from liver from 12 individuals and pooled in equal quantities. Individual RNA was from BAR 10-3 timecourse post feeding experiment. Liver RNA extracted from different times after feeding.
Pooled animals: 2 animals (T0-J and K) - not fed; 3 animals; 1hr (T60-I,J,K) and 2hrs (T120-I,J,K) after feeding (6 total); 1 animal - 4hrs (T... more4-I), 8hrs (T8-I), 12hrs (T12-I) and 24hrs (T24-I) after feeding
Generated thousands of unique barramundi sequences for gene discovery in fastq format. Used for de novo transcriptome assembly for barramundi liver.
Lab Notebook: LN2010/1717 p85 less
Animal Cell and Molecular Biology
Gene Expression (incl. Microarray and other genome-wide approaches)
07 Aug 2013
next generation sequencing
Roche 454 GLX Titanium
Sample Name: 2011_04_25_NickWade_Fish_Liver
Application: Transcirptome Sequencing
Sample Buffer: water
260/280 ratio: 2.0
Conc (ng/ul): 500
Volume (ul): 480
Total Amount: 240ug
Sample Type: Total RNA
Library Type: Shotgun library
Pooling: equal amounts (20ug) from 12 individuals
Machine: GS-FLX Titanium
Run type: Normal
Run Scale: 1/4 region
Barcode sorting: no
Read count: 109,883
Total bases: 38,088,470
Av Read length: 300bp
File Format: FASTQ (.fa) contains nucleotide sequence and corresponding quality scores
All experimental animal samples, RNA extractions and quality assessments, sample preparation and data generation was performed by Nick Wade.
Creative Commons Attribution 3.0 Unported Licence
Wade, Nick; Glencross, Brett (2013): Barramundi Liver Raw Sequence Reads. v1. CSIRO. Data Collection. 102.100.100/13190
All Rights (including copyright) CSIRO Australia 2013.
Although the associated metadata is public, the files (if any) have not been approved for general release. Please phone or email the contact person for this collection to discuss access to the files.
CLSD Feed Tech Novel Feeds
Expansion of genetic resources in the Giant Tiger Shrimp, Penaeus monodon
Shotgun sequencing of RNA to identify novel sequence information. Likely pooled sample from a number of different developmental stages or time points.
any next generation machine such as Illumina, 454, Ion Torrent etc