Question: Analysis of 454 sequences of honey bee pathogens
0
gravatar for ironya2000
4.5 years ago by
ironya20000
Kenya
ironya20000 wrote:

I am learning bioinformatics; I have 454 sequences which I dont know how to interpret/understand/analyse, please help.

I used RNA from adult bees and brood to detect the pathogens circulating in honey bee colonies, used GS FLX.

How do I post an example of my sequence?

next-gen • 921 views
ADD COMMENTlink modified 4.5 years ago • written 4.5 years ago by ironya20000

Can you edit post with example of your data?

ADD REPLYlink written 4.5 years ago by PoGibas4.8k
0
gravatar for Daniel
4.5 years ago by
Daniel3.7k
Cardiff University
Daniel3.7k wrote:

You haven't said what type of data/experiment you've done, but I think you might have microbial amplicon seq. If that's the case you should check out qiime: http://qiime.org/tutorials/tutorial.html

ADD COMMENTlink written 4.5 years ago by Daniel3.7k

I extracted RNA from bee brood and adult bees, did cDNA sythesis using superscript II and converted cDNA to DsDNA using Klenow reaction, then did amplification, GS FLX Titanium sequencing, got resultant sequences.

ADD REPLYlink written 4.5 years ago by ironya20000

Then the simplest/quickest thing to do is to map your 454 reads to known honeybee parasite genomes sequenced to date.

ADD REPLYlink written 4.5 years ago by Adrian Pelin2.3k

Thanks, sorry for bothering you, this is a grey area to me, please assist me on how to do mapping.

since there are more that one pathogen identified, how do I pick the refernce sequences?

ADD REPLYlink written 4.5 years ago by ironya20000
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