from: Kyle Suttlemyre ktsuttlemyre@gmail.com
to: Joana Sequeira Mendes <jsequeiramendes@cbm.csic.es>
cc: Loraine Labuncc <Ann.Loraine@uncc.edu>
date: Mon, Apr 14, 2014 at 12:16 PM
subject: Re: IGB 8.0.4 Support

Thanks for the feedback!

However, I need to be able to recreate the event here in the lab in order to diagnose it. Can you give me all the information you can about this such as, is this the A. thal genome on the official IGB quickload servers or is it a custom one? The steps you are taking to create the event and a copy of the bed files you are opening could help reproduce the event.

Thanks!

Kyle Suttlemyre
Bioinformatics at UNC-Charlotte
Phone: (704) 32KyleS or (704) 325-9537

from: Joana Sequeira Mendes jsequeiramendes@cbm.csic.es
to: Kyle Suttlemyre <ktsuttlemyre@gmail.com>
cc: Loraine Labuncc <Ann.Loraine@uncc.edu>
date: Mon, Apr 14, 2014 at 12:35 PM
subject: Re: IGB 8.0.4 Support

Hi,

is the "all genes" and the "transposable elements" of the official IGB quickload.
The bed files are not yet published yet, so I have to discuss with the PI. When I open the 9 files and the genes/TEs everything goes smoothly, but once I click load data (up at the right) it just blocks. Some days this doesn't happen and others it's just impossible to load anything. Especially in the afternoon (GMT +1).

Best,

Joana
PLEASE NOTE MY NEW E-MAIL ADDRESS: jsequeiramendes@cbm.csic.es

Joana Sequeira Mendes, PhD
"DNA replication and cell cycle" group
Centro de Biologia Molecular Severo Ochoa
C/ Nicolás Cabrera, 1
Cantoblanco, 28049 Madrid
Spain

Tel: +34 911964658 (Lab)
Mail: jsequeiramendes@cbm.csic.es
El 4/14/14 6:16 PM, Kyle Suttlemyre escribió:

from: Joana Sequeira Mendes <jsequeiramendes@cbm.csic.es>
to: Kyle Suttlemyre <ktsuttlemyre@gmail.com>
cc: Loraine Labuncc <Ann.Loraine@uncc.edu>
date: Mon, Apr 28, 2014 at 12:16 PM

Hi all,

I'm sending you these unpublished files so you can recreate the events, together with the genome files of A. thaliana (TAIR10 genome, "all genes" and the "transposable elements" of the official IGB quickload)

Thanks in advance,

Joana

[See attached files]

from: Loraine, Ann <Ann.Loraine@uncc.edu>
to: Joana Sequeira Mendes <jsequeiramendes@cbm.csic.es>,
Kyle Suttlemyre <ktsuttlemyre@gmail.com>
date: Mon, Apr 28, 2014 at 12:21 PM

Quick question:

Do you want the regions in the “bed” files to be displayed as a graph or as individual blocks?

-Ann

from: JOANA.DE BRITO LOURENCO.SEQUEIRA MENDES.596874 <jsequeiramendes@cbm.csic.es>
to: "Loraine, Ann" <Ann.Loraine@uncc.edu>
cc: Kyle Suttlemyre <ktsuttlemyre@gmail.com>
date: Mon, Apr 28, 2014 at 12:31 PM
subject: Re: IGB 8.0.4 Support

Hi all,

these as blocks.
Many times I also load gr files to see as graphs.
This time I was making it easy just to see if the problem was too many files or not.

Best,

Joana