AMI moth
Antenna is an online platform that leverages machine learning to scale insect biodiversity monitoring. One such project, carried out as part of The Vermont Atlas of Life, involves the deployment of two Automated Monitoring Insect (AMI) traps to study patterns in moth diversity. The instruments operated during fixed monitoring periods (sessions), typically lasting one night, and collectively produced over one million image captures. All images are stored in a shared Amazon S3 repository provided by Compute Alliance Canada. Each detected insect capture received two automated identifications generated by pre-trained image recognition models: a Moth / Non-Moth classifier, which determines whether the organism is a moth, and a more detailed Quebec & Vermont species classifier, capable of producing species-level identifications.
The data was obtained by querying the demo Django REST API.
The URI for this graph is https://bioboum.org/graph/ami-moth.
Aulavik lemming nests
In order to monitor lemming populations in Arctic ecosystems, where they constitute a key food source for a wide range of predators, a long-term study of lemming abundance was conducted in Aulavik National Park, Canada. The study consists of annual counts of lemming nests at nine predetermined 1-hectare sampling plots within the park. Surveys were carried out each year in mid-July and span the period from 1999 through 2016.
The data was downloaded from the Government of Canada website.
The URI for this graph is https://bioboum.org/graph/aulavik-lemming-nests.
BROKE-West fish
During the the BROKE-West cruise of RV Aurora Australis from January 2nd to March 17th, 2006, fish were sampled in the CCAMLR subarea of the Antarctic coastline. Sampling was conducted using Rectangular Midwater Trawl (RMT) nets to target midwater fish. Two trawling methods were employed: target trawls directed at acoustically detected aggregations, and routine double oblique hauls from the surface down to 200 m and back. The study considers a variety of material entities derived from the caught fish, as well as media images of these entities.
The data was downloaded from the GBIF test IPT.
The URI for this graph is https://bioboum.org/graph/broke-west-fish.
Colombia bird ringing
As part of SELVA's Migration Ecology research program to study the ecology of migratory birds across ten departments in Colombia, a set of mist nets were set up across Colombia to study wild birds. This study would enable a better understanding of bird patterns, especially at stopover sites and for key conservation species such as the cerulean warbler (Setophaga cerulea) and the blackpoll warbler (Setophaga striata). Between 2018 and 2023, a total of 5 581 birds were recorded, banded and had measurements taken before being released into the wild.
The data was downloaded from GBIF.
The URI for this graph is https://bioboum.org/graph/colombia-bird-ring.
Crop pollinisator visits
Between 2017 and 2021, the National Agriculture and Food Research Organization (NARO) of Japan conducted a series of monitoring activities focusing on insects visiting crop flowers across the country. At multiple farms, wild insects visiting crop production trees were captured and preserved in plastic vials. These preserved organisms were later identified to assess the abundance and diversity of pollinators contributing to crop production.
The data was downloaded from GBIF.
The URI for this graph is https://bioboum.org/graph/crop-flower-visit.
Gouin reservoir lake zooplankton
Zooplankton density (ind./m3) and water quality were assessed in 20 reference lakes, nine logged-watershed lakes, and nine burnedwatershed lakes during three summers following watershed disturbances by logging or wildfires during june, july and september 1996.
The dataset was obtained as a submission from the researchers that carried out the study
The URI for this graph is https://bioboum.org/graph/gouin-lake-zooplankton.
Insektmobilen
As part of the Insektmobilen project, through the Natural History Museum of Denmark, citizen scientists were recruited to collect insects using car nets near their homes (in Denmark) in June and July 2018. Their cars were equipped with funnel-shaped nets, which had a detachable sampling bag in which flying insects were collected and preserved in 96% ethanol. Each route was sampled once during two daily time intervals, midday (12-15 h) and evening (17-20 h), while driving at a maximum speed of 50 km/h. Samples were sent back to the research institution for analysis, allowing assessment of insect diversity. Taxonomic identifications were carried out using both morphological examination and metabarcoding based on genetic sequencing.
The dataset, as an occurrence dataset with various extensions can be downloaded from GBIF. The conversion considered here is based on the files available from the Darwin Core DataPackage examples GitHub repository.
The URI for this graph is https://bioboum.org/graph/insektmobilen.
Jiulongfeng Nature Reserve camtrap
Within the Jiulongfeng Nature Reserve (九龙峰自然保护区) in Huangshan, eastern China, a set of 32 camera traps was deployed to document the diversity and distribution of mammals. Cameras were installed at different locations and operated for periods ranging from 43 to 252 days (typically around 100 days). Every mammal detection was identified, and an occurrence dataset was produced.
The data was downloaded from GBIF.
The URI for this graph is https://bioboum.org/graph/jiulongfeng-mammals-camtrap.
Joseph Rock herbarium
Founded in 1908, the Joseph F. Rock Herbarium (HAW) is the University of Hawai‘i's official repository for botanical specimens, including the Lyon Arboretum collection. It holds around 50 000 dried plant specimens, representing Hawaiian and Pacific Island flora, with a focus on vascular plants. The collection reflects over a century of plant exploration across the Pacific basin and continues to grow through ongoing research. Its digitization efforts make the collection increasingly accessible to researchers and the public worldwide.
The data was downloaded from GBIF.
The URI for this graph is https://bioboum.org/graph/joseph-rock-herbarium.
Kalimantan odonata survey
To characterize Odonata communities across mixed-mosaic heath (kerangas) forests, a survey was conducted in the habitats of the Mungku Baru Education Forest in Central Kalimantan, Indonesia. Fieldwork occurred between November 2019 and February 2020 as part of a broader biodiversity conservation program. The sampling design consisted of 250-m line transects surveyed across three habitat types: kerangas, low pole peat swamp, and mixed swamp forest. Each habitat contained two transects, and each transect was assessed eight times.
The data was downloaded from GBIF.
The URI for this graph is https://bioboum.org/graph/kalimantan-odonata-survey.
Lake Mburo Park rodents
In 2005, an experimental setup was conducted to assess the factors affecting small mammal communities in African savannahs in Lake Mburo National Park, Uganda. Four treatments were considered based on two factors. The first factor is whether the plot showed large vegetated Macrotermes termite mounds or was in adjacent savannah areas. The second factor is the presence or absence of large-herbivore grazing. Large grazing mammals were excluded by erecting a 2-m high fence to prevent their entry and grazing. Each combination was replicated three times. Rodents were trapped using live traps placed in the plots, captured individuals were identified, sexed, and measured.
The data was downloaded from GBIF.
The URI for this graph is https://bioboum.org/graph/mburo-park-rodents.
Lanternfish gut metabarcoding
During the 2nd International Indian Ocean Expedition (May-June 2019), aboard the RV Investigator, juvenile lanternfish (Hygophum) were sampled in the Indian Ocean. Their gut contents and gut lining were analyzed using DNA metabarcoding following several protocols. The protocols compared included the Nanopore MinION and Illumina MiSeq sequencing platforms, as well as three primer sets: COI "Leray", 18S rRNA V4 "Zhan", and COI "Lobo". The resulting nucleotide sequences were submitted to BLASTN (blastn 2.12.0, e-value cutoff = 0.001, percent identity ≥ 80%) to evaluate the diet of these fishes.
The data was downloaded from OBIS.
The URI for this graph is https://bioboum.org/graph/lanternfish-gut-metabarcoding.
Lianas of Suriname
Lianas are ecologically important woody climbers in tropical forests, contributing substantially to biodiversity, forest structure, carbon dynamics, and providing resources for wildlife and people. A research project initiated by an NGO, – The Amazon Conservation Team – Suriname, sought to document and advance understanding of liana and climbing plant diversity in the forests of the Guiana Shield region. As part of this effort, plant specimens were systematically collected to support taxonomic research and biodiversity documentation of woody climbers. The dataset also contains vernacular names of the plants in various languages, including Trió (an indigenous language) and Samaraccan (a creole language). The project culminated in the publication of The Lianas of the Guianas: A guide to woody climbers in the tropical forests of Guyana, French Guiana, and Suriname, an illustrated field guide describing hundreds of species and designed for both specialists and non-specialists.
The data was downloaded from GBIF.
The URI for this graph is https://bioboum.org/graph/lianas-part-suriname.
Liloan reef survey
To provide a baseline for the evaluation and implementation of reef conservation and management, a sampling campaign was conducted between 2015 and 2016 on Poblacion and Kadurong Reefs (Liloan, Philippines). The survey recorded multiple types of measurements, including physico-chemical variables (e.g., water quality), percent cover of benthic reef components, and occurrences of several biological communities. Sampled communities comprised phytoplankton, zooplankton, and fish.
The data was downloaded from OBIS.
The URI for this graph is https://bioboum.org/graph/liloan-reef-survey.
NMNH paleobiology specimen
The Smithsonian National Museum of Natural History houses more than 139 000 specimens spanning a wide range of taxa, including animals, plants, and protists. Although the largest proportion of observations originate from the United States, the geographic scope of the collection is global. The collection includes information about fossil collection campaigns as well as media documenting the collected fossil material. The dataset used here is a subset specifically designed to highlight the distinctive modelling challenges associated with fossil specimens.
The entire dataset can be downloaded from GBIF. However, the current analysis is based on a modification of the smaller subset that was published on the test IPT.
The URI for this graph is https://bioboum.org/graph/nmnh-paleobiology-specimen.
Protégé Pizza Ontology
The Protégé Pizza Ontology is a teaching model used in Protégé to demonstrate how knowledge can be structured using the Web Ontology Language (OWL). It represents concepts like pizzas, toppings, and bases, along with relationships between them. The ontology is mainly used for learning how logical rules and reasoning can automatically classify information in Semantic Web systems.
The dataset considered is was obtained from Michael DeBellis' Pizza Tutorial.
The URI for this graph is https://bioboum.org/graph/dapizz.
Ryukyu Islands reef media
Along the coral reefs of the Ryukyu Islands (Japan), the Global Oceanographic Data Center (GODAC) collected images and videos of marine organisms using a remotely operated underwater vehicle. Organisms visible in these media were later identified, and biological occurrence records were generated based on the geographic location at which each photograph or video was captured. Identifications were based on Japanese vernacular names and, when identifications required additional clarification, relevant taxonomic literature was consulted.
The data was downloaded from OBIS.
The URI for this graph is https://bioboum.org/graph/ryukyu-reef-images.
Solidobalanus fallax records publication
In 2004, the Journal of the Marine Biological Association of the United Kingdom (volume 84) published a paper titled Habitat and distribution of the warm-water barnacle Solidobalanus fallax (Crustacea: Cirripedia) records. The paper compiles occurrence records for the barnacle Solidobalanus fallax in the Plymouth area (south-west England). Records derive from a variety of sources, including trawl surveys on the Plymouth inshore grounds (since 1994), SCUBA observations (since 2000), and personal communications. The species is noted as having the potential to become a pest of aquaculture infrastructure south of Britain.
The data was downloaded from OBIS.
The URI for this graph is https://bioboum.org/graph/solidobalanus-barnacle-paper.
Spider species diversity in northern habitats
Spider species-level data were collected using pan traps across four habitat types in Cambridge Bay, Nunavut. The study included two wet habitat types and two dry habitat types. Sampling was conducted continuously from July 3 to August 11, 2014, and data were organized into discrete sampling periods averaging approximately six days in duration.
The data was downloaded from GBIF.
The URI for this graph is https://bioboum.org/graph/spiders-north.
Turtle remote sensing dataset
As part of the Marine Bioresource Conservation and Restoration Research project, a marine conservation initiative aimed at restoring ecosystem health through the protection and recovery of marine species, fifteen sea turtles were equipped with radio-transmitters. Their movements throughout the Western Pacific Ocean were monitored to inform species protection and habitat management strategies. The dataset spans October 2015 to October 2022. Although most tracks fall within the waters of South Korea and Japan, some individuals traveled as far as China and Vietnam.
The dataset was obtained from Movebank through the Tracking Data Map.
The URI for this graph is https://bioboum.org/graph/turtle-remote-sensing.
Viridian forest survey
The dataset documents a single-event survey of flying Bug-type Pokémon in Viridian Forest. The survey took place on 17 October 2025 at one site, using a net sweep protocol with a total event duration of 15 minutes. Material entities of size-sorted bulk specimens were collected during the event, and had images taken of them and assertions made about it. These material entities also constituted the basis of almost all identifications, except for a single Pikachu, which appeared during the survey.
The dataset, as a Darwin Core DataPackage, was obtained from the GBIF test IPT.
The URI for this graph is https://bioboum.org/graph/viridian-forest-survey.