From listmaster animalgenome.org Tlistmaster Nov 12 14:48:43 2020
From: NAVARRO Pau <Pau.Navarroed.ac.uk>
Subject: RE: Gauging interest in DNA methylation arrays for
use in livestock
Postmaster: submission approved by list moderator
To: Members of AnGenMap <angenmapanimalgenome.org>
Date: Thu, 12 Nov 2020 14:48:43 -0600
Hi again,
Following up un this, I attempted to send a summary to the list through the
web interface (as I wanted to attach a pdf). I have not seen it appear, so
I send a shorter summary here with no images.
“As of 04/11/2020 there were 17 respondents, 14 of which left contact
details.
Between all, the total number of samples across species was 9000. The
distribution of sample sizes to be assayed ranged from 10 to 2000 per
study.
There was interest for ensuring that the array would be valid across breeds
(including local breeds) for the different species. Most of the respondents
were interested in multiple species, and the individual species with most
interest was cattle (as times named).”
Thank you very much to all the respondents. I will get in touch in due
course with those that left contact details. I have left the survey open in
case others want to continue to fill in and/or be kept in the loop.
Best wishes,
Pau
+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Pau Navarro
mailto:Pau.Navarroed.ac.uk
My pronouns are she/her
MRC Human Genetics Unit, MRC Institute of Genetics and Molecular Medicine
University of Edinburgh
Western General Hospital
Crewe Road, Edinburgh, EH4 2XU, UK
**Responses to emails from me are only expected during your working hours **
+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
.From: mailto:Pau.Navarroed.ac.uk
.Sent: 24 October 2020 11:38
.To: mailto:angenmapanimalgenome.org
.Subject: Gauging interest in DNA methylation arrays for use in livestock
Hi All,
The number of published studies looking at DNA methylation in the context
of health, production and responses to environment in livestock and other
animals is steadily increasing.
Studies so far have mainly looked at global measures of DNA methylation or
used sequencing technologies, and sample sizes used are limited.
I would like to have good quality (with good coverage across genomic
annotations) and affordable tools to be able to perform larger population-
based studies, of the sort and scale that have been performed in humans for
farm animals.
These have been enabled by existence of DNA methylation arrays that are
affordable (and a fraction of the price of sequencing-based measures).
I have been discussing the development of DNA methylation arrays for
species other than human and mouse with a commercial company, and it would
be interesting to bring into these discussions a measure of what the
interest would be in the community if such arrays were available and
affordable (and around 1/3 of the price than other technologies like RRBS).
To that aim, I have set up a very brief survey that I would be very
grateful if you could take (it should only take a minute to complete). I
thought that it would be a more efficient way to get a good summary than
email correspondence. Ideally, I would need responses between now and
Wednesday, but will leave the survey open for longer and will circulate a
summary (anonymised, if there is identifiable information) in a couple of
weeks to this list.
The survey is completely anonymous, but you will have the opportunity to
leave your email address if you want to be kept informed of any potential
developments or would like to engage in a collaboration.
The survey is pasted below so you can see what the questions are, but in
order to complete it you should use any of the 2 links below. In order to
submit the survey, the only 2 required fields are ‘Species’ and
‘Potential number of samples’. Responses to all other questions are
optional.
https://forms.gle/hutfqYBKzcK67Qvi7
Just for clarity, I have no affiliation with any commercial company or plan
to make any other use of the survey than understanding if, like me, there
are others that would use this kind of product if it was available.
Many thanks,
Pau
+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Pau Navarro
MRC Human Genetics Unit, MRC Institute of Genetics and Molecular Medicine
University of Edinburgh
Western General Hospital
Crewe Road, Edinburgh, EH4 2XU, UK
mailto:Pau.Navarroed.ac.uk
**Responses to emails from me are only expected
during your working hours **
+++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
I've invited you to fill in a form:
https://tinyurl.com/yxccdx9a
Species (you select as many as you want). If you choose 'other', please
write your species of interest. *
o [ ] Sheep
o [ ] Cattle
o [ ] Pigs
o [ ] Chicken
o [ ] Other:
Potential number of samples *
Name
Email (not required, but please fill in if you want to be kept informed
of relevant developments)
Affiliation
Please, add any comments you want to make here
Would you like to be informed of any relevant developments? (If so,
please, remember to fill in your email address)
o ( ) Yes
o ( ) No
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