From chapmanb at 50mail.com  Thu Jun  2 15:48:10 2011
From: chapmanb at 50mail.com (Brad Chapman)
Date: Thu, 2 Jun 2011 15:48:10 -0400
Subject: [Open-bio-l] Early registration for BOSC ends tomorrow,
	Friday June 3
Message-ID: <20110602194810.GD21074@sobchak>

If you haven't already registered for BOSC, now is your chance--after 
June 3, prices will go up!

Registration for BOSC is through the ISMB main conference website:
http://www.iscb.org/ismbeccb2011-registration#sigs . Since BOSC is a
two-day SIG, the price is 2x the one-day SIG price listed on the ISMB
website. You can register for BOSC without registering for the main ISMB
conference, if you want.

The preliminary BOSC schedule (subject to change) is now up at
http://www.open-bio.org/wiki/BOSC_2011_Schedule (more details will be
added soon). There is also a two day Codefest proceeding BOSC; please add
yourself to the list of attendees if you are interested:
http://www.open-bio.org/wiki/Codefest_2011

The BOSC talks have already been chosen, but we have spaces
for last-minute posters. If you'd like your poster abstract
to appear in the BOSC program, you should submit it now--see
http://www.open-bio.org/wiki/BOSC_2011#Abstract_Submission_Information

We hope to see you at BOSC!

	Nomi Harris
	Co-Chair, BOSC 2011

From ixpata at gmail.com  Wed Jun  8 15:10:43 2011
From: ixpata at gmail.com (Steve Mitchell)
Date: Wed, 8 Jun 2011 15:10:43 -0400
Subject: [Open-bio-l]  Intro Bioinformatics Course?
Message-ID: <BANLkTimp7y5m4GynU0F-SccAjanyaMMV=A@mail.gmail.com>

I'm looking for recommendations on good intro bioinformatics courses,
specifically for analyzing medical data, such as adverse effects of
medications. My employer will cover some of the expense, but it may
have to be through a legitimate university. But that said, any and all
recommendations would be appreciated. If there are any good online
courses, those would be great. I have limited programming experience
-- know a tiny bit of Ruby and Ruby on Rails (created a blog using the
RoR intro course) and took a Fortran class a long while ago but
remember basically none of it, know some HTML, wrote one extension for
google Chrome, and that's about it.

Thanks for any suggestions.

From dan.bolser at gmail.com  Thu Jun  9 04:00:27 2011
From: dan.bolser at gmail.com (Dan Bolser)
Date: Thu, 9 Jun 2011 09:00:27 +0100
Subject: [Open-bio-l] Intro Bioinformatics Course?
In-Reply-To: <BANLkTimp7y5m4GynU0F-SccAjanyaMMV=A@mail.gmail.com>
References: <BANLkTimp7y5m4GynU0F-SccAjanyaMMV=A@mail.gmail.com>
Message-ID: <BANLkTi=cYUO8dPcCESAWrTE7x8oNDd53sg@mail.gmail.com>

http://Bioinformatics.Org provide online bioinformatics training. Not
sure when the next course is, but you may want to give it a look.

On 8 June 2011 20:10, Steve Mitchell <ixpata at gmail.com> wrote:
> I'm looking for recommendations on good intro bioinformatics courses,
> specifically for analyzing medical data, such as adverse effects of
> medications. My employer will cover some of the expense, but it may
> have to be through a legitimate university. But that said, any and all
> recommendations would be appreciated. If there are any good online
> courses, those would be great. I have limited programming experience
> -- know a tiny bit of Ruby and Ruby on Rails (created a blog using the
> RoR intro course) and took a Fortran class a long while ago but
> remember basically none of it, know some HTML, wrote one extension for
> google Chrome, and that's about it.
>
> Thanks for any suggestions.
> _______________________________________________
> Open-Bio-l mailing list
> Open-Bio-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/open-bio-l
>

From dan.bolser at gmail.com  Wed Jun 15 12:16:08 2011
From: dan.bolser at gmail.com (Dan Bolser)
Date: Wed, 15 Jun 2011 17:16:08 +0100
Subject: [Open-bio-l] GFF3 best practice page,
 Was: Re:  Best practice for modelling data in GFF
Message-ID: <BANLkTikyUsio8uM2XtvmP5KPPtk6J5cV5g@mail.gmail.com>

On 6 July 2010 15:36, Dan Bolser <dan.bolser at gmail.com> wrote:
> On 6 July 2010 15:29, Leighton Pritchard <lpritc at scri.ac.uk> wrote:
>> On 06/07/2010 Tuesday, July 6, 13:11, "Dan Bolser" <dan.bolser at gmail.com>
>> wrote:

<snip>

> Perhaps there is scope for a 'best practices' catalogue after all?

Since I love digging up my own threads, I thought I'd point you at
this recent email from Karen Eilbeck:


Hi all,
This is in response to Jeremy's question about how to do mate pairs in GFF3.

I have added a page to the SO wiki, to allow annotation of GFF3 best
practices. This is kind of an extension of Lincoln's pathological examples.
Great idea, thanks for suggesting it.

This is the page:
http://www.sequenceontology.org/wiki/index.php?title=GFF3_best_practices

Thanks all,
Karen

From chapmanb at 50mail.com  Thu Jun  2 19:48:10 2011
From: chapmanb at 50mail.com (Brad Chapman)
Date: Thu, 2 Jun 2011 15:48:10 -0400
Subject: [Open-bio-l] Early registration for BOSC ends tomorrow,
	Friday June 3
Message-ID: <20110602194810.GD21074@sobchak>

If you haven't already registered for BOSC, now is your chance--after 
June 3, prices will go up!

Registration for BOSC is through the ISMB main conference website:
http://www.iscb.org/ismbeccb2011-registration#sigs . Since BOSC is a
two-day SIG, the price is 2x the one-day SIG price listed on the ISMB
website. You can register for BOSC without registering for the main ISMB
conference, if you want.

The preliminary BOSC schedule (subject to change) is now up at
http://www.open-bio.org/wiki/BOSC_2011_Schedule (more details will be
added soon). There is also a two day Codefest proceeding BOSC; please add
yourself to the list of attendees if you are interested:
http://www.open-bio.org/wiki/Codefest_2011

The BOSC talks have already been chosen, but we have spaces
for last-minute posters. If you'd like your poster abstract
to appear in the BOSC program, you should submit it now--see
http://www.open-bio.org/wiki/BOSC_2011#Abstract_Submission_Information

We hope to see you at BOSC!

	Nomi Harris
	Co-Chair, BOSC 2011


From ixpata at gmail.com  Wed Jun  8 19:10:43 2011
From: ixpata at gmail.com (Steve Mitchell)
Date: Wed, 8 Jun 2011 15:10:43 -0400
Subject: [Open-bio-l]  Intro Bioinformatics Course?
Message-ID: <BANLkTimp7y5m4GynU0F-SccAjanyaMMV=A@mail.gmail.com>

I'm looking for recommendations on good intro bioinformatics courses,
specifically for analyzing medical data, such as adverse effects of
medications. My employer will cover some of the expense, but it may
have to be through a legitimate university. But that said, any and all
recommendations would be appreciated. If there are any good online
courses, those would be great. I have limited programming experience
-- know a tiny bit of Ruby and Ruby on Rails (created a blog using the
RoR intro course) and took a Fortran class a long while ago but
remember basically none of it, know some HTML, wrote one extension for
google Chrome, and that's about it.

Thanks for any suggestions.


From dan.bolser at gmail.com  Thu Jun  9 08:00:27 2011
From: dan.bolser at gmail.com (Dan Bolser)
Date: Thu, 9 Jun 2011 09:00:27 +0100
Subject: [Open-bio-l] Intro Bioinformatics Course?
In-Reply-To: <BANLkTimp7y5m4GynU0F-SccAjanyaMMV=A@mail.gmail.com>
References: <BANLkTimp7y5m4GynU0F-SccAjanyaMMV=A@mail.gmail.com>
Message-ID: <BANLkTi=cYUO8dPcCESAWrTE7x8oNDd53sg@mail.gmail.com>

http://Bioinformatics.Org provide online bioinformatics training. Not
sure when the next course is, but you may want to give it a look.

On 8 June 2011 20:10, Steve Mitchell <ixpata at gmail.com> wrote:
> I'm looking for recommendations on good intro bioinformatics courses,
> specifically for analyzing medical data, such as adverse effects of
> medications. My employer will cover some of the expense, but it may
> have to be through a legitimate university. But that said, any and all
> recommendations would be appreciated. If there are any good online
> courses, those would be great. I have limited programming experience
> -- know a tiny bit of Ruby and Ruby on Rails (created a blog using the
> RoR intro course) and took a Fortran class a long while ago but
> remember basically none of it, know some HTML, wrote one extension for
> google Chrome, and that's about it.
>
> Thanks for any suggestions.
> _______________________________________________
> Open-Bio-l mailing list
> Open-Bio-l at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/open-bio-l
>


From dan.bolser at gmail.com  Wed Jun 15 16:16:08 2011
From: dan.bolser at gmail.com (Dan Bolser)
Date: Wed, 15 Jun 2011 17:16:08 +0100
Subject: [Open-bio-l] GFF3 best practice page,
 Was: Re:  Best practice for modelling data in GFF
Message-ID: <BANLkTikyUsio8uM2XtvmP5KPPtk6J5cV5g@mail.gmail.com>

On 6 July 2010 15:36, Dan Bolser <dan.bolser at gmail.com> wrote:
> On 6 July 2010 15:29, Leighton Pritchard <lpritc at scri.ac.uk> wrote:
>> On 06/07/2010 Tuesday, July 6, 13:11, "Dan Bolser" <dan.bolser at gmail.com>
>> wrote:

<snip>

> Perhaps there is scope for a 'best practices' catalogue after all?

Since I love digging up my own threads, I thought I'd point you at
this recent email from Karen Eilbeck:


Hi all,
This is in response to Jeremy's question about how to do mate pairs in GFF3.

I have added a page to the SO wiki, to allow annotation of GFF3 best
practices. This is kind of an extension of Lincoln's pathological examples.
Great idea, thanks for suggesting it.

This is the page:
http://www.sequenceontology.org/wiki/index.php?title=GFF3_best_practices

Thanks all,
Karen