sourcedata – bridging scientific publishing and open science · sourcedata – bridging...

Helmholtz Open Science WebinarsWebinar 44 – 19/ 25 April 2018

Dr. Thomas LembergerEMBO

SourceData – bridging scientific publishing and open science

1. Open Science2. SourceData3. Outlook

1. Open science

Data are from the Survey of scholarly communication tool usage. https://101innovations.wordpress.com/2016/04/04/support-for-open-science-in-eu-member-states/

Open Science

Data & publishing: separate worlds

Database

Users

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Data & publishing: separate worlds

Database

Users

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Journals

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Bridging publishing and open dataR

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Journals

Databases

What is a figure?

NEJM 2015, 372(1):3

What is a figure?

NEJM 2015, 372(1):3

Clinical data (from 700 patients) converted into pixels…

2. SourceData

• Facilitate discovery and browsing of data and papers

sourcedata.embo.org

Making data d iscoverable

• Facilitate discovery and browsing of data and papers

• Couple discoverability with data availability

sourcedata.embo.org

Making data d iscoverable

• Facilitate discovery and browsing of data and papers

• Couple discoverability with data availability

• Bridge scientific publishing with open science

sourcedata.embo.org

Making data d iscoverable

Liechti et al. 2017Nature Methods 14:1021

Liechti et al. (2017). Nature Methods 14:1021

DataSearch

sourcedata.embo.org

DataSearch

sourcedata.embo.org

A pilot implementation:smartfigures.net

Integration with data repositoriesPaper

https://wwwdev.ebi.ac.uk/biostudies/studies/S-SCDT-MSB-16-7412

SmartFigure

Database

An AI approach to semantic analysis

Artificial neural network

Training set (20’000 examples)

SmartTag engine

An AI approach to semantic analysis

Artificial neural network

Plain text (figure legend)

SmartTag:deep semantic interpretation

An AI approach to semantic analysis

Artificial neural network

Plain text (figure legend)

SmartTag:deep semantic interpretation

Machine Author

Manuscript

Knowledge

Disseminating knowledge

3. Outlook

Accelerating science with Open Science

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Quality Open Science: how to make it work?

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Quality Open Science: how to make it work?

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Journals

Distributed responsibilities:

Quality Open Science: how to make it work?

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Journals

Institutions

Distributed responsibilities:

Quality Open Science: how to make it work?

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Journals

Institutions

Individual researchers

Distributed responsibilities:

Helmholtz Open Science WebinarsWebinar 44 – 19/ 25 April 2018

thomas.lemberger@embo.org

THANK YOU!