Data Access Protocols

Overview

Teaching: 10 min
Exercises: 15 min

Questions

• 1 What are data access protocols?

• 2 Is Open Access a data access protocol?

• 3 Can I expose my data as a service using FAIR API protocols?

Objectives

• The participant will learn what data access protocols are

• The participant will explore the aspects of an access protocol for humans and machines.

FAIR principles used in Data Access Protocols:

Accessible

FM-A1.1 (Access Protocol) → doi.org/10.25504/FAIRsharing.yDJci5
FM-A1.2 (Access Authorization) → doi.org/10.25504/FAIRsharing.EwnE1n

Interoperable

FM-I3 (Use Qualified References) → doi.org/10.25504/FAIRsharing.B2sbNh

1. What are Data Access Protocols?

Data Access Protocols are a set of formatting and processing rules for data communication. In practice, Data Access Protocols are the explicit instructions for humans and machines to access a data source.

Imagine you enter a security room. You need to follow the specific steps or possess specific keys for accessing the room. The same is with data. Moreover, if the door of the room is open we can say it is Open Access

Following the premise that “Data Access Protocols” are a common set of rules on a standard language, they exist in various ranges. For example, some messages are directed to humans, and some protocols are meant for machines.

Access Protocol	Example	Note
Communication between machines		A PC requesting information using HTTP protocol
Communication between humans		Data owner requesting users to contact deriectly for data access

Image: Mapping EU Company Mobility & Abuse-Detection → LINK TO EXAMPLE

In a strict sense, data access protocols relate to network protocol definitions. However, regarding Research Data, the human factor plays a part. Therefore we can explicitly mention the rules and instructions for accessing data depending on the use case. Sometimes the data can’t be publicly available, and there is no particular repository for it. Therefore you request the user to contact you to get access. We could say it is a human-friendly access protocol.

For example:

In Data Request Form UMC Utrecht → LINK TO EXAMPLE
The University Medical Center at Utrecht (UMC Utrecht) has an open data request form for users to access clinical data for research purposes. The form asks general things related to the researcher’s identification and affiliation, research context and methodologies. Furthermore, they explicitly mention that the Data Access Committee will review and consider applications and respond within 4 weeks.

Protocols are like standard rules communicated in a standard language for humans and machines.

We humans use predominantly the English language for communication in science.

Likewise, Machines need a “medium” to talk to each other such as an API (Application Programming Interface), and they use a “communication language” such as HTTP Hypertext Transfer Protocol to share information between one another.

Relevant API protocols are:

• SOAP API
• SPARQL API
• REST API

2. Is Open Access a data access protocol?

Open Access is a policy framework in the strict sense but yes! We could say it’s a data access protocol. Within the Open Science recommendations, it is endorsed to standardise open access datasets when it is possible to make them publicly available and does not violet legal or ethical considerations. More information at Open Access

Depositing datasets in public data repositories can grant them open access protocol automatically. In addition, data repositories typically work as a data archiving instrument, which we cover in Episode 6 (Data Archiving).

Moreover, Open Acess data sources can be made available using FAIR protocols such as SPARQL API endpoints.

An example is:

The European Union Public Data → LINK TO EXAMPLE
Which makes available all public datasets. the following endpoint (permanent link) https://data.europa.eu/sparql

Exercise - Level Easy 🌶

1. Go to ZENODO Covid 19 Community.
2. Can you tell what is the default “Data Access Protocol” for the Digital Objects displayed?

Solution

It is Open Access. It is indicated in the green tag on top of the titles.

Open Access is a human and machine-friendly Data Access Protocol

Humans see a “Download” button
Machines see an HTTPS request

3. Can I expose my data as a service using FAIR API protocols?

Yes, it is possible; however, it is not an easy road and requires technical skills.
We must remember that exposing data as a service would mean we need a server to host it, which we don’t always have. Moreover, one of the main motivations to expose our data using FAIR protocols is to make it accessible for other data sources to integrate. But for that, you would need some basic understanding of Knowledge Graphs technologies. More information about you can find in the FAIR Elixir Cookbok

Important!

When you expose your data using FAIR API protocols, you must register your service in a registry for FAIR APIs such as SMART API

Exercise - Level Hard 🌶🌶🌶

• Expose your RDF data to a service endpoint using a FAIR API protocol

  1. Use the RDF data you generated in Episode 2 (data descriptions) else you can download it here
  2. In your terminal, install the following library using the default Python installation pip install rdflib-endpoint@git+https://github.com/vemonet/rdflib-endpoint@main
  3. Next, execute the following command to locally expose your data rdflib-endpoint serve data-file.nt

Solution

This exercise is optional

Discussion

Access Protocols for Focus Groups Data?
Focus groups are a data collection method. Data is collected through a semi-structured group interview process. A quick overview of the method is found in Cohen D, Crabtree B. “Qualitative Research Guidelines Project.” - 2006.

• Discuss with your team all the different kinds of digital objects processed when conducting Focus Groups. For example, think of the Interview guidelines, the raw transcripts or the consent forms of the participants.
• Discuss what could it be the suitable Access Protocol those digital objects collected in the Focus Group.

Key Points

• Data Access Protocols are a set of formatting and processing rules for data communication. For example, imagine you enter a security room. You must follow certain steps or possess keys to access the room.

• When you expose your data using FAIR protocols, you must register your service in a registry for FAIR APIs such as SMART API