[Esip-sample-curation] Esip-sample-curation Digest, Vol 23, Issue 4
Rorie Edmunds
rorie.edmunds at datacite.org
Mon Feb 27 23:16:34 EST 2023
Dear Colleagues,
I am a member of the RDA Complex Citation WG and will happily be involved.
I would also like to point out that in the case of material samples,
citation of lists can already be done, although maybe in a rather less
sophisticated way. Put simply, IGSN IDs can be used for sample
aggregates/collections, and so one could easily add an IGSN ID to each
sample, and then one to the list whereby individuals are linked as children
through the relationType attribute
<https://support.datacite.org/docs/connecting-to-works> of the
relatedIndentifier property in the DataCite Metadata Schema. A list built
in this way would of course not have the flexibility envisioned by the
'reliquary' concept, but at least would/could be fairly standardized.
Best wishes,
Rorie
P.S. I apologize that I am not actively engaged in the Sample Curation
Cluster. I really would like to be as the outcomes of the work are very
important for the IGSN ID. However, the meetings are currently at 05:00 JST
and move to 04:00 JST for the coming months. If we can find a way for me to
be more connected, it would be great. [Val, maybe you and I need a chat(?)]
--
*Rorie Edmunds PhD | Samples Community Manager | DataCite*
*Japan Standard Time <https://www.timeanddate.com/worldclock/japan/tokyo>*
*E*: rorie.edmunds at datacite.org
*W*: datacite.org | Blog <https://blog.datacite.org/> | Twitter
<https://twitter.com/datacite> | LinkedIn
<https://www.linkedin.com/company/datacite>
Support Desk <support at datacite.org> | Support Site
<https://support.datacite.org/> | PID Forum <https://www.pidforum.org/>
*A*: DataCite -- Welfengarten 1B, 30167 Hannover, Germany
On Tue, 28 Feb 2023 at 09:14, <
esip-sample-curation-request at lists.esipfed.org> wrote:
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> Today's Topics:
>
> 1. Re: Sample list tool? (Joan Damerow)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Mon, 27 Feb 2023 16:13:14 -0800
> From: Joan Damerow <JoanDamerow at lbl.gov>
> To: Lesley Wyborn <Lesley.Wyborn at anu.edu.au>
> Cc: "Mansur, Adam" <MansurA at si.edu>,
> "esip-sample-curation at lists.esipfed.org"
> <esip-sample-curation at lists.esipfed.org>, Shelley Stall
> <SStall at agu.org>, Martina Stockhause <stockhause at dkrz.de>,
> Deborah
> Agarwal <daagarwal at lbl.gov>, Kristina Vrouwenvelder
> <kvrouwenvelder at agu.org>, "Stephen M Richard (smrTucson at gmail.com
> )"
> <smrtucson at gmail.com>
> Subject: Re: [Esip-sample-curation] Sample list tool?
> Message-ID:
> <
> CAHwcauvLXaFNW7cD7-z6MCRSENBMPCzmdBMuVWvG3k9fzCQ1RA at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
>
> Yes, I am also interested in working through samples use cases for complex
> citations.
>
> Joan
>
> On Mon, Feb 27, 2023 at 3:35?PM Lesley Wyborn via Esip-sample-curation <
> esip-sample-curation at lists.esipfed.org> wrote:
>
> > Hi Adam
> >
> >
> >
> > I see you are already a member of the mailing list for the RDA Complex
> > Citation Group. <https://www.rd-alliance.org/node/74222/members>
> >
> >
> >
> > If you would like to progress the Physical Samples Use case that would be
> > great ? is anyone else in the ESIP samples cluster interested in doing
> > this. Is anyone from iSamples on this mailing list?
> >
> >
> >
> > At the moment, as you can see in the Complex Citation WG Case Statement
> > <
> https://aus01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rd-alliance.org%2Fgroup%2Fearth-space-and-environmental-science-complex-citations-working-group%2Fcase-statement%2Fearth&data=05%7C01%7CLesley.Wyborn%40anu.edu.au%7Cb5b839df478b4919521c08db190d1586%7Ce37d725cab5c46249ae5f0533e486437%7C0%7C0%7C638131316222225143%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=UbJ732tGbfJ8V119799W9%2FRkp7gmOVI91HNjwldxCpE%3D&reserved=0
> >,
> > the physical samples use case is woefully under developed relative to the
> > three main ones, so we would need to start to develop something to match
> > these.
> >
> >
> >
> > As the geochemistry use case is not really a topic for this samples list,
> > I will email you separately ? is anyone else interested in the
> geochemistry
> > use case we are trying to develop as part of this RDA Complex Citation
> > Group?
> >
> >
> >
> > Take care
> >
> >
> >
> >
> >
> >
> >
> > Lesley
> >
> >
> >
> >
> >
> > *From: *Mansur, Adam <MansurA at si.edu>
> > *Date: *Tuesday, 28 February 2023 at 8:53 am
> > *To: *Lesley Wyborn <Lesley.Wyborn at anu.edu.au>,
> > esip-sample-curation at lists.esipfed.org <
> > esip-sample-curation at lists.esipfed.org>, Shelley Stall <SStall at agu.org>,
> > Martina Stockhause <stockhause at dkrz.de>, Deborah Agarwal <
> > daagarwal at lbl.gov>, Kristina Vrouwenvelder <kvrouwenvelder at agu.org>
> > *Subject: *Re: Sample list tool?
> >
> > Hi Lesley,
> >
> >
> >
> > Thanks for the info! Yes, we're talking about the same thing, except your
> > version seems to be much better developed. I would be interested in
> working
> > on the sample and geochemistry use cases in whatever capacity would be
> > useful.
> >
> >
> >
> > Adam
> > ------------------------------
> >
> > *From:* Lesley Wyborn <Lesley.Wyborn at anu.edu.au>
> > *Sent:* Monday, February 27, 2023 1:21 PM
> > *To:* Mansur, Adam <MansurA at si.edu>;
> > esip-sample-curation at lists.esipfed.org <
> > esip-sample-curation at lists.esipfed.org>; Shelley Stall <SStall at agu.org>;
> > Martina Stockhause <stockhause at dkrz.de>; Deborah Agarwal <
> > daagarwal at lbl.gov>; Kristina Vrouwenvelder <kvrouwenvelder at agu.org>
> > *Subject:* Re: Sample list tool?
> >
> >
> >
> > *External Email - Exercise Caution*
> >
> > HI Adam
> >
> >
> >
> > Thanks for this suggestion.
> >
> >
> >
> > I would draw your attention to the newly formed Research Data Alliance
> > Complex Citation Working Group
> > <
> https://aus01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rd-alliance.org%2Fgroups%2Fcomplex-citations-working-group&data=05%7C01%7CLesley.Wyborn%40anu.edu.au%7Cb5b839df478b4919521c08db190d1586%7Ce37d725cab5c46249ae5f0533e486437%7C0%7C0%7C638131316222068920%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=1ks3iJp2wFa%2BWj0UyuBnkTtA5ka5Q0bZrHIpJiO99fU%3D&reserved=0
> >.
> > I have cc?ed on my email my group co- chairs (Shelley, Martina, Deb)
> >
> >
> >
> > The physical samples use case is listed in the Complex Citation WG Case
> > Statement
> > <
> https://aus01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rd-alliance.org%2Fgroup%2Fearth-space-and-environmental-science-complex-citations-working-group%2Fcase-statement%2Fearth&data=05%7C01%7CLesley.Wyborn%40anu.edu.au%7Cb5b839df478b4919521c08db190d1586%7Ce37d725cab5c46249ae5f0533e486437%7C0%7C0%7C638131316222225143%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=UbJ732tGbfJ8V119799W9%2FRkp7gmOVI91HNjwldxCpE%3D&reserved=0
> >
> > and will also be discussed in the upcoming RDA P20 Session - Complex
> > Citation WG Session
> > <
> https://aus01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.rd-alliance.org%2Fplenaries%2Frda-20th-plenary-meeting-gothenburg-hybrid%2Fcomplex-citations-earth-and-space-sciences&data=05%7C01%7CLesley.Wyborn%40anu.edu.au%7Cb5b839df478b4919521c08db190d1586%7Ce37d725cab5c46249ae5f0533e486437%7C0%7C0%7C638131316222225143%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=a33%2FalYSGx8t5yPR0YUK7pMAx%2FVe1%2B8E0VwhQyQZOgc%3D&reserved=0
> >
> > .
> >
> >
> >
> > I have been the one that put forward a use case for physical samples ?
> > that is, we need to create a ?reliquary? that references say hundreds of
> > samples each with their own DOI/PID. A reliquary itself has a DOI/PID,
> but
> > all samples within the reliquary can be found, referenced and cited so
> that
> > the collector of the sample, the curator of the sample and the funder of
> > any part of the samples life cycle (including from the field to the
> > museum/sample repository) can be credited and both funders and
> researchers
> > can measure the use and impact of their research
> >
> >
> >
> > I think we are talking about the same thing.
> >
> >
> >
> > We have quite a community behind this Complex Citation WG (see list at
> end
> > of case statement) and it would be great if someone would be prepared to
> > drive this use case for physical samples who is actively working on
> sample
> > collection and/or preservation.
> >
> >
> >
> > Please let me know if you or anyone else would like to work on this
> > samples use case with this newly formed RDA group for Complex Citation.
> > Currently I am listed against the Geophysics, Geochemistry and Samples
> use
> > cases and I don?t have the bandwidth to do all three!!!
> >
> >
> >
> > Take care
> >
> >
> >
> >
> >
> > Lesley
> >
> >
> >
> >
> >
> > *From: *Esip-sample-curation <
> > esip-sample-curation-bounces at lists.esipfed.org> on behalf of Mansur,
> Adam
> > via Esip-sample-curation <esip-sample-curation at lists.esipfed.org>
> > *Date: *Tuesday, 28 February 2023 at 5:02 am
> > *To: *esip-sample-curation at lists.esipfed.org <
> > esip-sample-curation at lists.esipfed.org>
> > *Subject: *[Esip-sample-curation] Sample list tool?
> >
> > Hi all,
> >
> >
> >
> > I was reading over the sample citation guidance and had a comment that
> was
> > way too long for the Google Doc. The current draft gives the following
> > guidance for documenting long lists of samples:
> >
> > If your study uses many samples and would result in a prohibitively long
> > list: create this table as a separate file, archive the table in an
> > appropriate repository (such as Figshare, Zenodo, Dryad; or through
> > institution- or domain-specific repositories), and link to the table.
> >
> > These lists would ideally be machine-readable so that interested parties
> > could easily find a sample or track sample usage, but it's not clear to
> me
> > that the current guidance will allow this. The main drawbacks that I see
> > are:
> >
> > - Lists will use different formats and will not be validated, making
> > it annoying to extract information from them
> > - List citations will use different formats and DOIs, potentially
> > making them difficult to pick out of a paper
> > - Lists will be static and will not reflect changes in ownership or
> > availability over time
> > - Lists will not be used consistently across papers
> >
> >
> >
> > I'd like to think about building a tool to generate, store, and create
> > DOIs for specimen lists instead. Lists would consist of only the most
> basic
> > sample and ownership information (something like the DOI of the related
> > publication plus the original sample identifiers, sample GUIDs, and owner
> > information.) Where GUIDs with appropriate metadata are available (like
> at
> > least some implementation of IGSNs), ownership information could be
> pulled
> > in and updated. Since the data would all be in one place and linked to
> but
> > not formally associated with a publication, it would also be possible to
> > create and search sample lists for already published papers (for example,
> > if an institution that has absorbed a collection would like to tag
> > previously published papers that include those samples.) As with the
> > current guidance, lists could be linked as references in new papers and
> the
> > tool could supply a preferred citation to make them easier to find.
> >
> >
> >
> > I know this would be one more thing to build and maintain in perpetuity,
> > and I'm sure I'm underestimating the difficulty of implementing it, but I
> > do think this kind of tool could be helpful for research collections
> > especially.
> >
> >
> >
> > Best,
> >
> > Adam
> >
> >
> >
> > *Adam Mansur *(he/him)
> >
> > IT Specialist
> >
> > Department of Mineral Sciences
> >
> > *w* 202.633.1828 mansura at si.edu
> >
> >
> >
> > SMITHSONIAN INSTITUTION
> >
> > NATIONAL MUSEUM OF NATURAL HISTORY
> >
> > Facebook
> > <
> https://aus01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.facebook.com%2FSmithsonianNMNH&data=05%7C01%7CLesley.Wyborn%40anu.edu.au%7Cb5b839df478b4919521c08db190d1586%7Ce37d725cab5c46249ae5f0533e486437%7C0%7C0%7C638131316222225143%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=7m8uzJiKUa3WweyKxtG%2FpBbPhWvjQYKZMUwX4H9CWGM%3D&reserved=0
> >
> > | Twitter
> > <
> https://aus01.safelinks.protection.outlook.com/?url=https%3A%2F%2Ftwitter.com%2FNMNH&data=05%7C01%7CLesley.Wyborn%40anu.edu.au%7Cb5b839df478b4919521c08db190d1586%7Ce37d725cab5c46249ae5f0533e486437%7C0%7C0%7C638131316222225143%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=JUlWswJ90Ha8ESFIWlKE1gRMSEuV0oiaRcrNKliJXBA%3D&reserved=0
> >
> > | Instagram
> > <
> https://aus01.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.instagram.com%2Fsmithsoniannmnh%2F&data=05%7C01%7CLesley.Wyborn%40anu.edu.au%7Cb5b839df478b4919521c08db190d1586%7Ce37d725cab5c46249ae5f0533e486437%7C0%7C0%7C638131316222225143%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=0IqoeiX9P9AOzpYwmJ3bxOlY8ybv4RVQjrDZwT%2B9dq8%3D&reserved=0
> >
> >
> >
> >
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