HI Sean,

Thank you for the quick answer.

By correlation analysis, I mean I want to see if those HIV sequences fall
into the genes or not. If so, what kind of test I should do?

I will check those two sources out.

Thanks,




On Mon, Nov 7, 2011 at 5:56 PM, Sean Davis <sdavis2@mail.nih.gov> wrote:

> Hi, Minh.
>
> By "correlation analysis", you mean that you want to find the gene
> closest to each HIV site?  If so, take a look at the GenomicRanges
> package.
>
> If you are more of a web server point-and-click person, take a look at
> using galaxy:
>
> http://main.g2.bx.psu.edu/
>
> Sean
>
>
> On Mon, Nov 7, 2011 at 5:52 PM, Minh Bui <buiduyminh@gmail.com> wrote:
> > Hi everyone,
> >
> > I am new to Bioconductor and R. I did search through the list for my
> > problem but i can't find it. I am sorry if this question has been asked.
> >
> > I would like to perform a correlation analysis between a hiv data and
> gene
> > expression.
> >
> > Basically, i have a file that contains: hiv_name, start_position,
> > end_position, chromosome. I would like to see if these data has anything
> to
> > do with the location of our genes (I also have another file contains
> > gene_name, start_position, end_position, chromosome).
> >
> > What functions that allow me to do this?
> >
> > Hopefully someone can guide me to the right direction.
> >
> >
> > Thank you very much,
> >
> > --
> >
> >
> ------------------------------------------------------------------------------------
> > Minh Bui
> > Bioinformatic Research, MicroBiome Analysis Center
> > George Mason University, Prince William Campus
> > 10900 University Boulevard, MSN 4D4
> > Manassas, Virginia  20110
> > http://mbac.gmu.edu
> >
> ------------------------------------------------------------------------------------
> >
> >        [[alternative HTML version deleted]]
> >
> > _______________________________________________
> > Bioconductor mailing list
> > Bioconductor@r-project.org
> > https://stat.ethz.ch/mailman/listinfo/bioconductor
> > Search the archives:
> http://news.gmane.org/gmane.science.biology.informatics.conductor
> >
>



-- 

------------------------------------------------------------------------------------
Minh Bui
Bioinformatic Research, MicroBiome Analysis Center
George Mason University, Prince William Campus
10900 University Boulevard, MSN 4D4
Manassas, Virginia  20110
http://mbac.gmu.edu
------------------------------------------------------------------------------------

	[[alternative HTML version deleted]]

