[Funcoup] Featured Article

[Oliver Frings]

Hej, I don't want to make the decision more complicated :),
but given that this is meant to be a lay summary, I guess
one should try to not complicate things. I also don't
think we can claim that we have the "largest reconstruction".

I liked the first version. Could it maybe be something like:

The FunCoup 2.0 database provides a comprehensive reconstructions of
gene networks for 11 eukaryotes,...

Best,

Olli

On Tue, Nov 29, 2011 at 4:27 PM, Erik Sonnhammer
<Erik.Sonnhammer at sbc.su.se>wrote:

> Hi, I'm a bit sceptical to using 'robust', given the huge differences
> between fc1 and fc2.  It would need to be qualified and that will be
> hard in a lay summary.
>
> /Erik
>
> On 11/29/2011 02:53 PM, Andrey Alexeyenko wrote:
> >> The problem with "largest reconstruction of gene networks to date" is
> >> that STRING has 1000 species and is surely a lot larger (in total).
> > Hence I suggest "ROBUST  ... owing to ... orthologs AND SUPERVISED
> LEARNING"
> >> The FunCoup 2.0 database provides the largest gene network
> >> reconstructions to date for 11 eukaryotes, ..."
> >>
> >> But really to say this we should check if this is true for all 11
> >> species. Aside from STRING there are a bunch of other databases
> >> (referenced in our paper).  Any volunteers?
> > As soon as there is no DB with>10 species of comparable size, one can
> > say "the largest reconstruction " - the latter term refers to the whole
> > thing...
> >
> > A
> >
> >>
> >> /Erik
> >>
> >> On 11/29/2011 02:07 PM, Andrey Alexeyenko wrote:
> >>> Hi,
> >>>
> >>> I suggest the most parsimonious (and least humble) edit:
> >>> "provides the largest ROBUST reconstruction of gene networks to date,
> >>> owing to the extensive transfer of evidence between species via
> >>> orthologs AND SUPERVISED LEARNING ON SPECIES OWN DATA"
> >>>
> >>> This recognizes advantage compared to STRING. But if there is another
> >>> database with more than ~50 million links in more that 10 eukaryotic
> >>> species that uses orthologs and KEGG-based training sets, then it's
> >>> wrong, and I'd agree with Erik's version.
> >>>
> >>> Andrey
> >>>
> >>> On 2011-11-29 13:31, Erik Sonnhammer wrote:
> >>>> Hi, this is a nice surprise, see below.
> >>>>
> >>>> But personally I find their lay summary it a bit too boasting, given
> >>>> that we only cover 11 species.
> >>>>
> >>>> how about
> >>>>
> >>>> The FunCoup 2.0 database provides very comprehensive reconstructions
> of
> >>>> gene networks, owing to the extensive transfer of evidence between
> >>>> species via orthologs, and Bayesian integration of nine different data
> >>>> source types. The FunCoup website allows local network alignment
> between
> >>>> multiple species.
> >>>>
> >>>> instead?
> >>>>
> >>>> /Erik
> >>>>
> >>>> -------- Original Message --------
> >>>> Subject: Nucleic Acids Research - NAR-02446-DATA-E-2011.R1
> >>>> Date: Tue, 29 Nov 2011 06:20:53 -0500 (EST)
> >>>> From: nar at soton.ac.uk
> >>>> To: erik.sonnhammer at sbc.su.se
> >>>>
> >>>> 29-Nov-2011
> >>>>
> >>>> NAR-02446-DATA-E-2011.R1 - Comparative interactomics with Funcoup 2.0
> >>>>
> >>>> Dear Prof. Sonnhammer:
> >>>>
> >>>> I am pleased to inform you that your article has been chosen by the
> >>>> Editors of Nucleic Acids Research to appear on our Featured Articles
> >>>> page
> >>>> (
> http://www.oxfordjournals.org/our_journals/nar/featured_articles.html).
> >>>> Featured Articles represent the top 5% of NAR papers in terms of
> >>>> originality, significance and scientific excellence.
> >>>>
> >>>> Each article appearing on this page is accompanied by a short Lay
> >>>> Summary. The Lay Summary for your article is added below for your
> >>>> information. If you wish to make corrections to the Summary, please
> >>>> email me within 48h of this email (nar at soton.ac.uk). Please note that
> >>>> your Summary should be no longer than 100 words and only minor
> >>>> corrections are allowed at this stage.
> >>>>
> >>>> Lay Summary:
> >>>> The FunCoup 2.0 database provides the largest reconstruction of gene
> >>>> networks to date, owing to the extensive transfer of evidence between
> >>>> species via orthologs and Bayesian integration of nine different data
> >>>> source types. The FunCoup website allows local network alignment
> between
> >>>> multiple species.
> >>>>
> >>>> With best wishes
> >>>>
> >>>> Martine Bernardes Silva
> >>>>
> >>>> Nucleic Acids Research
> >>>> _______________________________________________
> >>>> Funcoup mailing list
> >>>> Funcoup at sbc.su.se
> >>>> https://mail.sbc.su.se/mailman/listinfo/funcoup
> >>> _______________________________________________
> >>> Funcoup mailing list
> >>> Funcoup at sbc.su.se
> >>> https://mail.sbc.su.se/mailman/listinfo/funcoup
> >>
> >> _______________________________________________
> >> Funcoup mailing list
> >> Funcoup at sbc.su.se
> >> https://mail.sbc.su.se/mailman/listinfo/funcoup
> > _______________________________________________
> > Funcoup mailing list
> > Funcoup at sbc.su.se
> > https://mail.sbc.su.se/mailman/listinfo/funcoup
>
> _______________________________________________
> Funcoup mailing list
> Funcoup at sbc.su.se
> https://mail.sbc.su.se/mailman/listinfo/funcoup
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: https://mail.sbc.su.se/pipermail/funcoup/attachments/20111129/7cdc4509/attachment.html