Tag Archives: Data Portal

Crowdsourcing our data in 2017 | Digital Collections Programme

The Digital Collections Programme has run four crowdsourcing projects in 2017. We wanted to say a massive thank-you to the 2,000+ volunteers who together have helped us to capture data from over 15,000 specimens this year. You have made a significant contribution to Science. To take part in our current project please visit the take part page of the Museum website.

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Crowdsourcing our data in 2017

We can digitally image individual microscope slides at a rate of up to 1000 slides per day, but we still need help with capturing the label information on each slide. Transcription is an essential part of our digitisation process.

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What’s the difference between a moth and a butterfly? | Digital Collections Programme

We are currently digitising the Madagascan Lepidoptera collection, a project that has been supported by John Franks and the Charles Wolfson Charitable Trust.

madagascan drawers

A drawer of Madagascan type specimens

The specimens imaged are ‘Types’ – specimens from which the relevant species was named and described.

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A Flutter of Data | Digital Collections Programme

iCollections canvas

Examples of some of the Lepidoptera specimens available on the Data Portal.

The final batch of data from the iCollections project has now been released through the Museum’s Data Portal – a total of 260,000 Lepidoptera specimen records, bringing the total number of Museum specimen records accessible on the Portal to just over 3.8 million.

What was iCollections?

In 2013 the Museum started to look at the best way to digitise Butterflies and Moths from the UK and Ireland, a collection estimated at half a million specimens. This was a pilot project to develop quick and efficient ways to digitise large Museum collections.

Digitisation Workflow

During the pilot project we trialled and adapted methods of image capture to suit the specimens, giving us an efficient workflow which can be used to digitise wider pinned insect collections. We place each specimen in a specially designed unit tray, with raised sides where we position the specimen’s labels and add a barcode encoded with the unique specimen number. We place each tray in a light box under a DSLR camera to capture an image containing the majority of specimen data. These images are ingested into a bespoke database, which allows species name and location (within the collection) to be added to the file. The database transcription interface lets us add additional data from labels.

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We photograph each specimen and its labels, and data is then added to the record via a transcription interface.

During the iCollections project, we became much more efficient with the time taken to photograph a single specimen, whilst ensuring that the damage to these precious specimens from handling is kept to a minimum. We digitised the entire butterfly collection of over 180,000 specimens and made a significant start on the moths by digitising over 260,000 specimens.

In 2016 we secured further funding to carry on the digitisation of the British and Irish moths with our refined workflow. Once this has been completed, further data will be released on the Data Portal. When complete we will have just over half a million Lepidoptera specimens accessible to anyone in the world with an internet connection. This enhances access to our collection, which traditionally will have been via visits or specimen loans. In some cases the researcher may only require a digital specimen, or the digital records could help a researcher narrow down the scope of what they may want to study on a visit to the museum.

iCollections enabled us to come up with an efficient and bespoke workflow for pinned insects which we have been able to re-use. We have published a paper on the iCollections method, to share this with the natural history community. We have also used the learning from iCollections to start new projects, such as our current project to digitise Madagascan Lepidoptera type specimens.

Why Butterflies and Moths? 

The British Lepidoptera collection contains over half a million pinned specimens collected in the UK and Ireland spanning over 200 years. It includes donations from important collectors of the twentieth and twenty-first centuries. As we digitise the Lepidoptera collections we are georeferencing each record, mapping the distribution of species and revealing collecting trends since the mid-nineteenth century.

By providing access to this unrivalled historical, taxonomic and geographical data we can equip more scientists to conduct new research in new ways. For example, Museum scientists, Steve Brooks et al. have been able to compare butterfly data to historical temperature records and found that 92% of the 51 species emerged earlier in years with higher spring temperatures.

‘The warming climate is already causing butterflies to emerge earlier – and unless their food plants adapt at the same rate, the insects could emerge too early to survive.’ (S.Brooks et al., 2016)

When it comes to digitising Lepidoptera, our digitisers can now process up to 300 a day. They get to see and interact with the specimens up close and become extremely fast with a pair of forceps! Our digitiser Peter Wing told us “My favourite image to digitise was a Monarch Butterfly that was pinned with a sewing needle.” While digitising, we uncover some fascinating stories behind the collection. We have been sharing some of these enlightening moments by using #MothMonday on twitter.

peter

Our digitiser Peter with his favourite specimen

Who’s using our data?

We are on a mission to digitise the Museum collection of 80 million specimens. We want to make available our unrivalled historical, geographic and taxonomic specimen data gathered in the last 250 years available to the global scientific community. These data, along with associated specimen images are released through the Museum’s Data Portal.

Through the Data Portal and those of our partners like the Global Biodiversity Information Facility (GBIF), more than 5.9 billion records have been accessed in over 115,500 downloads since April 2015. Through GBIF we are also able to see which scientists are using our data as part of their papers and through Altmetric how many people are talking about our data online. So far we have been cited in 44 papers and referenced over 100 times online.

The Data Portal currently has around 200 non-museum users each day and contains more than 700,000 species-level (index lot) records and over 90 research datasets uploaded by NHM staff and other institutions. This includes 3D scans, images and audio recordings as well as more traditional data.

Critical information is currently locked away within hundreds of millions of specimens, labels and archives in collections across the globe. Our ultimate goal is to unlock this treasure trove of information so that scientists, researchers and data analysts from around the world can use this information to tackle some of the big questions of our time.

To make use of the Museum’s iCollections data please visit the Data Portal To hear more stories behind the Lepidoptera collection you can follow our #MothMonday content on twitter or keep up to date with the Museum’s digitisation projects on the website.

Open Access Week 2017 | Digital Collections Programme

October 23 – 29, 2017 is International Open Access Week and on this tenth anniversary of the event, institutions have been asked to discuss the benefits of making data openly accessible.

Photography of Vince Smith, Head of Diversity & Informatics in the Museum collection

Vince Smith, Head of Diversity & Informatics, the Museum’s signatory for the International data accord

Earlier this year, the Natural History Museum signed the International Open Data Accord stating that the Museum recognises the opportunities and challenges of the data revolution and adopts a set of internationally recognised principles support open access to our data. Continue reading

We need your help to set our collections data free! |Digital Collections Programme

We are asking for help to transcribe data from our Foraminifera slides in Miniature Fossils Magnified

We need your help to transcribe data about our foraminifera slides

On the 19-22 October, the Museum will be running a digital volunteering event in collaboration with the third annual WeDigBio event. WeDigBio is a four day event that engages global participants online and on-site in digitising natural history collections. Continue reading

Digitising the Madagascan Lepidoptera type specimens | Digital Collections Programme

We have started digitising the Madagascan moths and butterflies, a project that has been supported by John Franks and the Charles Wolfson Charitable Trust.

Photo of pinned specimen with barcode

Holotype of the giant orange-tip (Gideona lucasi) butterfly, with accompanying barcode

This project is different from our previous Lepidoptera digitisation as it is only looking at type specimens.

A type specimen (or in some cases a group of specimens) is an example specimen on which the description and name of a new species is based.

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The birth of a curious mind – Robert Hooke | Curator of Diptera

Today’s blog is in honour of the great microscopist Robert Hooke. Born on 18 July 1685 (which is actually the 28 July today due to the shift to the Gregorian calendar in Britain in 1752), Robert Hooke – although not as famous as some of his counterparts such as Sir Christopher Wren and Sir Isaac Newton – was to have a huge impact on the scientific community. He was a curious individual, always observing, noting, and drawing what he saw. This drive and curiosity resulted in this ‘caulkhead’ (native of the Isle of Wight, UK) producing in 1665 at the tender age of 30 years, one of my favorite books – ‘Micrographia or Some Physiological Descriptions of Minute Bodies Made by Magnifying Glasses with Observations and Inquiries thereupon’.

Photo showing the cover of Erica's copy of Micrographia

My very own copy of the great book Micrographia

Not the snappiest of subtitles, I concur, but contained within the pages of this book are some of the earliest but arguably still scientifically important drawings/diagrams of life as seen under a microscope.

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