Dear,
We included Illumina read data into our browser (AnnoJ).
We have 7 different tracks each specific for one of the developmental
stages (4) or depending on the host they were feeding on (3).
Those tracks might take a while to load due to the amount of reads
available (>89E6 in total).
We are still debating on how to properly include a normalized count
number as a representation of the expression level and gave therefore
temporarily an arbitrary count of 10 to all reads. This allows to see
already developmental stage specificity or feeding adaptation, if any.
We will update the read-counts as soon as we defined the best
normalization strategy. Meanwhile feel free include the stage and or
feeding data into your analyses.
Those illumina tracks offer the possibility to zoom-in up to the
sequence level, allowing one to see whether there might be some SNP or
a sequencing issue that would break a gene model. (select the
'Dragmode: scale' to see the sequence, in the green bar, upper right
corner)
Unfortunately there is no direct link between BOGAS-->AnnoJ(browser)
yet, meaning you need to enter the Tetur-gene-nr in the upper right
corner to find the gene of interest back in the browser. In the other
direction it works fine (click on a Tetur-gene-nr in the browser to
retrieve information about the gene, and among the information a link
to BOGAS is provided directly to the gene-page)
best regards
Stephane
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Stephane Rombauts Principal Scientific staff
Research group of Bioinformatics & Evolutionary Genomics
Tel:+32 (0)9 331 38 21 fax:+32 (0)9 3313809
VIB Department of Plant Systems Biology, Ghent University
Technologiepark 927, 9052 Gent, BELGIUM
strom@psb.vib-ugent.be http://www.psb.vib-ugent.be
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