Meeting monday

[Adam Dinan]

Hi all,

I've had a lab meeting scheduled for Monday so I won't be able to make the 2pm slot.

Could someone volunteer to coordinate the meeting?

The room is booked from 2-3pm.

Thanks,

Adam

[Kevin Rue]

Hi,

I'm haven't really been in a shape to coordinate meetings the past week, but I'll try and be there on Monday. My card should open the door.

Apologies for the lack of meetings this year,but it felt that there was not enough to fill the last few meetings, Volunteering does not to be a formal presentation. I am trying to put together some recent RNAseq results to get advice from you on possible next steps. Won't be ready for this meeting though, 

Best,

Kevin

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Kévin RUE-ALBRECHT
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[Karsten Hokamp]

I think my DESeq issue might tie in nicely with Adam's RPKM vs TPM comparison. I'd be happy to leave it till the next session, particularly if I'm the only one presenting today.

Any opinions on that?

Karsten

[Kevin Rue]

Sounds good to me!

Haven't heard from anyone but Adam and you Karsten so far about this meeting. 

Cheers,

Kevin

[Karsten Hokamp]

Ok, let's postpone today then and get together when Adam is available. Three is better than two!

Karsten

[Karsten Hokamp]

Hi all,

How are we set for a meeting on Monday (March 10th)?

Thanks,

     Karsten

[Kevin Rue]

Oh, gee, I forgot to send the email on Wednesday.

I'd be up for it! I've got a 5-minute presentation on a normalisation issue that I had meant to present ages ago. It's about a case where DESeq can produce very wrong values. Will be happy to show that unless we have enough other topics.

Another thing I'd be interested in is gathering a list of next-gen-related meetings/conferences that might be worth attending this year.

So the agenda can be:

• Karsten: normalisation issue where DEseq can produce very wrong values
• All: listing of NGS meetings
• I got this one on a mailing list, more about genomics rather than RNAseq, but.... is it really entirely free for those accepted? http://events.embo.org/14-comparative-genomics/application.html
  
• Kevin (me): I have a bunch of slides about my recent RNAseq results of bovine alveolar macrophages infected with either M. tuberculosis or M. bovis (or control uninfected). There's quality control, correlation of gene expression, and pathway analyses.
• Anyone else?

See you all on Monday (Adam, Karsten, me, ..?)

Kevin

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[Markus Schroeder]

Hey,

I'll be there too. Could talk about (i) improving genome annotation using RNA-seq data and (ii) an alignment-free way to get from raw reads straight to count data using k-mers (http://www.cs.cmu.edu/~ckingsf/software/sailfish/).

Best,
Markus

[Markus Schroeder]

There's also a survey for an interesting redesigned version of sequencing logos at:

http://sequencelogo.antarctic-design.co.uk/

From Eamonn Maguire
http://www.cs.ox.ac.uk/people/eamonn.maguire/
http://scholar.google.com/citations?hl=en&user=_9h929YAAAAJ

Best,
Markus

[Kevin Rue]

Hi all,

Reminder for the OpenSequencing meeting today at 2pm in the Conway Interactive Hub.

Karsten, myself, and Markus have prepared some topics to discuss. 

Regards,

Kevin

[Paul McGettigan]

Hi All,

Unfortunately I can't make it this week due to a clash with another meeting I have to attend.

Hope to catch up with you guys at the next one.

-Paul

[Peadar Ó Gaora]

Sounds like it’ll be a really good meeting but I can’t make it this afternoon unfortunately.

There’s a meeting organised by a COST centre I’m involved in:

"Scientific Meeting 2014 "NGS Data after the Gold Rush" & Management Committee Meeting" 6-8 May 2014. Norwich, UK.

http://www.tgac.ac.uk/SeqAhead_Scientific_Meeting_and_Management_Committee_Meeting/

I haven’t looked at the schedule yet so can’t vouch for that but it’s in lovely Norwich!

Cheers,

Peadar

[Karsten Hokamp]

Hi Peadar,

I found a fairly long list of NGS conferences, but yours wasn't amongst it:

http://nextgenseek.com/ngs-conferences/

So thanks for that,

     Karsten

[Lisa Rogers]

Hi,

This is a NGS meeting on the 24th of March here in UCD.  It's organised by the Centre for Food Safety lab here in UCD.  It's about Next-Generation Sequencing for Food Pathogen Traceability.  I'm going to it and I think that it looks interesting.  It's all about food safety and bacterial genomics so it wouldn't suit everybody, but it's free to attend.  I've attached the flyer anyway.

I'll see you all at 14:00.

Lisa

[Karsten Hokamp]

Looks good! I'm going as well. Registration deadline is today if anyone is interested...

Karsten

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