Re: Schema for scientific analysis samples

Hi Jason,

Are you aware of the work in this area by the Bioschemas community?
https://bioschemas.org/

We have been developing extensions to Schema.org to represent entities of interest to the life sciences community. An initial set of these has been proposed to be included within Schema.org.
https://github.com/schemaorg/schemaorg/pull/2711

We also have an initial draft of a BioSample type
https://bioschemas.org/types/BioSample/0.1-RELEASE-2019_06_19/
Bioschemas - 0.1 Release 2019_06_19<https://bioschemas.org/types/BioSample/0.1-RELEASE-2019_06_19/>
BioSample (Type) Version: 0.1-RELEASE-2019_06_19 (2019-06-14) Profile: Latest Draft: BioSample (version 0.1-DRAFT-2019_11_12) If you spot any errors or omissions with this type, please file an issue in our GitHub.. Description Contributors Links Contributors
bioschemas.org

We have deliberately not tried to include all details, but to focus on the most pertinent for discovery on the Web.

Best regards

Alasdair

--
Alasdair J G Gray
Associate Professor in Computer Science,
School of Mathematical and Computer Sciences
Heriot-Watt University, Edinburgh, UK.

Email: A.J.G.Gray@hw.ac.uk<mailto:A.J.G.Gray@hw.ac.uk>
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From: Jason Pelish <jason@massiveimpressions.com>
Organisation: Massive Impressions
Reply to: "jason@massiveimpressions.com" <jason@massiveimpressions.com>
Date: Tuesday, 23 February 2021 at 18:23
To: "public-schemaorg@w3.org" <public-schemaorg@w3.org>
Subject: Schema for scientific analysis samples
Resent from: "public-schemaorg@w3.org" <public-schemaorg@w3.org>
Resent date: Tuesday, 23 February 2021 at 18:20

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Hi,

I created a new collection of schemas for handling scientific analysis samples. I’ve been working on making the use of structured data more accessible for a wider range of people by creating easy to use WordPress plugins.

I used to be an analytical chemist and microbiologist. I designed Lab Info Systems. The one the CDC uses now was in part designed by me in a product called STARLIMS, now produced by Abbott. I created, back in a2003, a feature for the product called “spec schemas” that allowed AI to make conclusions around analysis results.  There are existing standards like ISO9000, LOINC, SNOWMED etc, but they’re very healthcare centric.

I was an environmental analytical chemist who tested for pollution in water and soil. My documentation had to be just as rigorous as pharma and heath care providers because drinking water is a public health concern. Now I do marketing, create marketing technologies, and I’ve gotten my hands wet on a lot of structured data – publishing it and handling it programmatically.

This set of schemas was created because of plans to create an open source LIMS using WordPress as the CMS platform. Multiple people in the LIMS world have approached me about creating an open-source LIMS system. To me the most critical aspect of making a project like that successful is ease-of-adoption. I can’t see anything easier to work around than WordPress. So the plan is to create a LIMS plugin similar to how I created an Artist/Works plugin that leverages structured data: http://2vu.me/a The schemas I’m proposing here are part of the “requirements” for creating this plugin. I need these new schemas for what I am doing, but other people working on these problems will most likely find them useful too.

Here are the schemas I created: https://www.massiveimpressions.com/structured-data-schema-laboratory-analytical-data/

Any feedback, insight and advice you can provide on how to mature and perfect these schemas is greatly appreciated. If you want to consider them for official adoption, please feel free. If there’s anyone who wants to collaborate on this or provide support, please send them my way.

I look forward to hearing back from you all,
Thanks,
JP


Jason Pelish
Partner, Digital Marketer: Massive Impressions Online Marketing
https://www.massiveimpressions.com
Office: (561) 232-2424
Toll Free: (866) 800-3579

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