Dear all, We are trying to do a meta-analysis of metabolomics data. In metabolomics, we study the changes of the concentrations of compounds in biofluids. So, for the data I am trying to analyze I have the p.value of the relevant compounds and the N of the patients and controls. We tried to do a forest plot, but we don't know how to do it with only the p.value and the N. Any help would be more than welcome! Raquel Cumeras ----------------------------------------------------------------------------------------------- Raquel Cumeras, Ph.D. Marie Curie Postdoctoral Research Fellow - Institut d'Investigaci? Sanit?ria Pere Virgili (IISPV, ES). Metabolomics Platform<http://metabolomicsplatform.com/>. - University of California Davis (UC Davis, USA). Fiehn lab. - Affiliated to Universitat Rovira i Virgili (URV, ES) and CIBERDEM (ISCIII, ES). website: https://raquelcumeras.wordpress.com/ e_mail: raquel.cumeras at iispv.cat<mailto:raquel.cumeras at iispv.cat> // rcumeras at ucdavis.edu<mailto:rcumeras at ucdavis.edu> // raquel.cumeras at urv.cat<mailto:raquel.cumeras at urv.cat> ORCiD: 0000-0003-4663-4247 Pronouns: she/her -----------------------------------------------------------------------------------------------
[R-meta] Meta-analysis with only p.values and N?
6 messages · t@s@ueressig m@iii@g oii gmx@de, Michael Dewey, Raquel Cumeras Olmeda
Dear Raquel If you have the means or the difference in means as well then you can back-calculate what you need but if not I am afraid I can see no way forward although other smarter list readers may be able to help. Michael
On 04/12/2020 18:45, Raquel Cumeras Olmeda wrote:
Dear all, We are trying to do a meta-analysis of metabolomics data. In metabolomics, we study the changes of the concentrations of compounds in biofluids. So, for the data I am trying to analyze I have the p.value of the relevant compounds and the N of the patients and controls. We tried to do a forest plot, but we don't know how to do it with only the p.value and the N. Any help would be more than welcome! Raquel Cumeras ----------------------------------------------------------------------------------------------- Raquel Cumeras, Ph.D. Marie Curie Postdoctoral Research Fellow - Institut d'Investigaci? Sanit?ria Pere Virgili (IISPV, ES). Metabolomics Platform<http://metabolomicsplatform.com/>. - University of California Davis (UC Davis, USA). Fiehn lab. - Affiliated to Universitat Rovira i Virgili (URV, ES) and CIBERDEM (ISCIII, ES). website: https://raquelcumeras.wordpress.com/ e_mail: raquel.cumeras at iispv.cat<mailto:raquel.cumeras at iispv.cat> // rcumeras at ucdavis.edu<mailto:rcumeras at ucdavis.edu> // raquel.cumeras at urv.cat<mailto:raquel.cumeras at urv.cat> ORCiD: 0000-0003-4663-4247 Pronouns: she/her ----------------------------------------------------------------------------------------------- [[alternative HTML version deleted]]
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Those methods have their uses but if Raquel wants a forest plot I do not think they generate the required effect size with its confidence interval. Michael
On 05/12/2020 14:19, t.saueressig at gmx.de wrote:
Dear Raquel,
in Boerenstein et al. 2009 (Handbook) there is a description of a method
to combine p values for a pooled p value. Maybe that would be a solution?
Regards,
Tobias Saueressig
Am 05.12.2020 12:21 schrieb Michael Dewey <lists at dewey.myzen.co.uk>:
Dear Raquel
If you have the means or the difference in means as well then you can
back-calculate what you need but if not I am afraid I can see no way
forward although other smarter list readers may be able to help.
Michael
On 04/12/2020 18:45, Raquel Cumeras Olmeda wrote:
> Dear all,
>
> We are trying to do a meta-analysis of metabolomics data.
> In metabolomics, we study the changes of the concentrations of
compounds in biofluids.
>
> So, for the data I am trying to analyze I have the p.value of the
relevant compounds and the N of the patients and controls.
>
> We tried to do a forest plot, but we don't know how to do it with
only the p.value and the N.
>
> Any help would be more than welcome!
>
> Raquel Cumeras
>
>
-----------------------------------------------------------------------------------------------
> Raquel Cumeras, Ph.D.
> Marie Curie Postdoctoral Research Fellow
> - Institut d'Investigaci? Sanit?ria Pere Virgili (IISPV, ES).
Metabolomics Platform<http://metabolomicsplatform.com/>.
> - University of California Davis (UC Davis, USA). Fiehn lab.
> - Affiliated to Universitat Rovira i Virgili (URV, ES) and
CIBERDEM (ISCIII, ES).
>
> website: https://raquelcumeras.wordpress.com/
> e_mail: raquel.cumeras at iispv.cat<mailto:raquel.cumeras at iispv.cat>
// rcumeras at ucdavis.edu<mailto:rcumeras at ucdavis.edu> //
raquel.cumeras at urv.cat<mailto:raquel.cumeras at urv.cat>
> ORCiD: 0000-0003-4663-4247
> Pronouns: she/her
>
-----------------------------------------------------------------------------------------------
>
>
> [[alternative HTML version deleted]]
>
>
>
>
> _______________________________________________
> R-sig-meta-analysis mailing list
> R-sig-meta-analysis at r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-meta-analysis
>
--
Michael
http://www.dewey.myzen.co.uk/home.html
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4 days later
Thanks for your inputs, after checking all the possibilities, I am afraid that we cannot do the forest plot because we don't have all the needed input data. Raquel -----Original Message----- From: Michael Dewey <lists at dewey.myzen.co.uk> Sent: Saturday, December 5, 2020 8:16 AM To: t.saueressig at gmx.de Cc: Raquel Cumeras Olmeda <raquel.cumeras at urv.cat>; r-sig-meta-analysis at r-project.org Subject: Re: [R-meta] Meta-analysis with only p.values and N? Those methods have their uses but if Raquel wants a forest plot I do not think they generate the required effect size with its confidence interval. Michael
On 05/12/2020 14:19, t.saueressig at gmx.de wrote:
Dear Raquel,
in Boerenstein et al. 2009 (Handbook) there is a description of a
method to combine p values for a pooled p value. Maybe that would be a solution?
Regards,
Tobias Saueressig
Am 05.12.2020 12:21 schrieb Michael Dewey <lists at dewey.myzen.co.uk>:
Dear Raquel
If you have the means or the difference in means as well then you can
back-calculate what you need but if not I am afraid I can see no way
forward although other smarter list readers may be able to help.
Michael
On 04/12/2020 18:45, Raquel Cumeras Olmeda wrote:
> Dear all,
>
> We are trying to do a meta-analysis of metabolomics data.
> In metabolomics, we study the changes of the concentrations of
compounds in biofluids.
>
> So, for the data I am trying to analyze I have the p.value of the
relevant compounds and the N of the patients and controls.
>
> We tried to do a forest plot, but we don't know how to do it with
only the p.value and the N.
>
> Any help would be more than welcome!
>
> Raquel Cumeras
>
>
---------------------------------------------------------------------- -------------------------
> Raquel Cumeras, Ph.D.
> Marie Curie Postdoctoral Research Fellow
> - Institut d'Investigaci Sanit ria Pere Virgili (IISPV, ES).
Metabolomics Platform<http://metabolomicsplatform.com/>.
> - University of California Davis (UC Davis, USA). Fiehn lab.
> - Affiliated to Universitat Rovira i Virgili (URV, ES) and
CIBERDEM (ISCIII, ES).
>
> website: https://raquelcumeras.wordpress.com/
> e_mail: raquel.cumeras at iispv.cat<mailto:raquel.cumeras at iispv.cat>
// rcumeras at ucdavis.edu<mailto:rcumeras at ucdavis.edu> //
raquel.cumeras at urv.cat<mailto:raquel.cumeras at urv.cat>
> ORCiD: 0000-0003-4663-4247
> Pronouns: she/her
>
---------------------------------------------------------------------- -------------------------
>
>
> [[alternative HTML version deleted]]
>
>
>
>
> _______________________________________________
> R-sig-meta-analysis mailing list
> R-sig-meta-analysis at r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-meta-analysis
>
--
Michael
http://www.dewey.myzen.co.uk/home.html
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