<scp>SPECIES</scp>: A platform for the exploration of ecological data

Stephens, Christopher R.; Sierra-Alcocer, Raúl; González‐Salazar, Constantino; Barrios, Juan M.; Carrillo, Juan Carlos Salazar; Ezquivelzeta, Everardo Robredo; Canal, Enrique del Callejo

doi:10.1002/ece3.4800

Cited by 16 publications

(25 citation statements)

References 42 publications

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“…If the user interface (UI) connects users and objects (hardware or software) to be handled by users, the API connects the programme to another programme. API is used in almost all ecological data platforms worldwide, such as Virtual Database, DataOne and SPECIES ( Frehner and Brändli 2006 , Michener et al 2012 , Stephens et al 2019 ) and is also used in EcoBank.…”

Section: Project Descriptionmentioning

confidence: 99%

“…One of the ultimate goals of ecological studies is to understand and quantify ecological associations in different spatiotemporal scales ( Kissling et al 2012 , Stephens et al 2019 ). However, issues in ecology are becoming more challenging due to various negative anthropogenic effects, such as land cover change, global warming and environmental pollution ( Araújo and Rahbek 2006 , de Chazal and Rounsevell 2009 , Huh et al 2014 ).…”

Section: Introductionmentioning

confidence: 99%

“…The world of "big data" has arrived in ecology and other branches of the environmental sciences ( Farley et al 2018 ) with increased quantity, speed and variety of data streams ( Hampton et al 2013 ). In the field of ecological informatics, various ecological data platforms have been developed worldwide to collect and manage ecological information efficiently ( Frehner and Brändli 2006 , Michener et al 2012 , Stephens et al 2019 , Belbin and Williams 2016 ).…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

EcoBank: A flexible database platform for sharing ecological data

Kim¹,

Yoon²,

Kim³

et al. 2021

BDJ

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Environmental crisis challenges the human race harder than ever before. Ecologists have produced a massive amount of data to cope with the crisis. Accordingly, many national scale ecological database systems have been developed worldwide to manage and analyse these datasets. However, in Korea, ecological datasets produced by different research institutes for different purposes have not been integrated or serviced due to poorly designed information infrastructure. To address this obstacle, we present EcoBank (www.nie-ecobank.kr), an open, web-based ecological database platform designed to play an important role in ecosystem analysis, not only in Korea, but also worldwide. The architecture of EcoBank comprises core technologies of WebGIS, Application Programming Interface (API), responsive web and open-source software (OSS). Comprehensive ecological datasets from three different sources, including the National Institute of Ecology (NIE) in Korea, related national and international platforms and repositories, enter the three conceptual modules in EcoBank: data management, analysis and service. Diverse potential stakeholders of EcoBank can be classified into three groups: researchers, policy-makers and public users. EcoBank aims to expand its horizons through mutual communication amongst these stakeholders. We opened and launched the EcoBank service in December 2019 and have now begun to broaden its network by linking it to other data platforms and repositories over the globe to find possible solutions to ecological issues in Korea.

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Section: Project Descriptionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

EcoBank: A flexible database platform for sharing ecological data

Kim¹,

Yoon²,

Kim³

et al. 2021

BDJ

View full text Add to dashboard Cite

show abstract

“…The ultimate goal of ecological studies is to understand and quantify ecological associations in different spatiotemporal scales (Kissling et al, 2012;Stephens et al, 2019). However, issues in ecology are becoming complicated due to various and deleterious anthropogenic effects such as land cover change, global warming, and environmental pollution (Araújo & Rahbek, 2006;Borges et al, 2020;de Chazal & Rounsevell, 2009;Parmar, Rawtani, & Agrawal, 2016).…”

Section: Introductionmentioning

confidence: 99%

EcoBank: A Flexible Data Platform for Sharing Ecological Data

Kim¹,

Yoon²,

Kim³

et al. 2020

Preprint

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Environmental crisis challenges human race harder than ever before. Ecologists have produced a massive amount of data to cope with the crisis. Accordingly, so many ecological data platforms have been developed worldwide to manage and analyze these datasets. However, in Korea, ecological datasets produced by different research institutes for different purposes have not been integrated or serviced due to the lack of a well-designed information infrastructure. To address this obstacle, we present EcoBank (www.nieecobank.kr), an open, web-based ecological data platform designed to play an important role in ecological

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“…Our methodology (Stephens et al 2019) scores a species record according to the features of its location, and it labels it as suspicious if it has a low score. A low score means that the features of the location are unusual for that species.…”

mentioning

confidence: 99%

Automatizing the Detection of Erroneous Species Occurrence Records

Rosenberg¹,

Sierra-Alcocer²

2019

BISS

Self Cite

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The work involved in checking millions of records by hand is hard and requires thousands of human hours. At the increasing rate at which we are collecting new data from different sources with a wide range of 'quality', the problem is getting worse. An institution like CONABIO (National Commission for the Knowledge and Use of Biodiversity, Mexico) dedicates a large amount of human resources to review species records to ensure that data published by the institution has high quality. At CONABIO we are designing a system to help us direct our attention to the most problematic data. Our methodology (Stephens et al. 2019) scores a species record according to the features of its location, and it labels it as suspicious if it has a low score. A low score means that the features of the location are unusual for that species. The features of locations are the set of abiotic, like climate and topographic charactersitics and occurrences of other species in the location. Although this does not mean that a record is wrong, it may be an indicator that a record needs to be assessed. The system we are designing works in two scenarios: in one, it scores new data based on parameters adjusted from validated data; in the second, the system checks for consistency in the database, that is, it flags records of a species that seem like outliers according to the predominant records distribution for that species. Our initial tests show that we could speed up the detection process for some problematic records. In one of our tests, where we used data that were previously labeled by hand, the method flagged 624 records, out of which 70 were confirmed as incorrect data. If we look only at the precision of the results it might seem like a poor performance, however if we look at the amount of work it might save us, it looks promising because to find the same number of inaccurate records without any assistance we would have had to review almost 5,000 records. This talk is a proof of concept for this system, and details on our initial results, reviewing both weaknesses and strengths.

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SPECIES: A platform for the exploration of ecological data

Cited by 16 publications

References 42 publications

EcoBank: A flexible database platform for sharing ecological data

EcoBank: A flexible database platform for sharing ecological data

EcoBank: A Flexible Data Platform for Sharing Ecological Data

Automatizing the Detection of Erroneous Species Occurrence Records

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