Harmonizing taxon names in biodiversity data: A review of tools, databases and best practices

M Grenié, E Berti, J Carvajal‐Quintero… - Methods in Ecology …, 2023 - Wiley Online Library
The process of standardizing taxon names, taxonomic name harmonization, is necessary to
properly merge data indexed by taxon names. The large variety of taxonomic databases and …

Biodiversity at the global scale: the synthesis continues

RA Folk, CM Siniscalchi - American Journal of Botany, 2021 - Wiley Online Library
Traditionally, the generation and use of biodiversity data and their associated specimen
objects have been primarily the purview of individuals and small research groups. While …

Validating taxonomic identifications in entomological research

L Packer, SK Monckton, TM Onuferko… - Insect Conservation …, 2018 - Wiley Online Library
We surveyed the treatment of taxonomic information in 567 papers published in nine
entomological journals in 2016. The proportion of papers that provide taxonomic data in …

Temporal degradation of data limits biodiversity research

G Tessarolo, R Ladle, T Rangel… - Ecology and …, 2017 - Wiley Online Library
Spatial and/or temporal biases in biodiversity data can directly influence the utility,
comparability, and reliability of ecological and evolutionary studies. While the effects of …

Cloud computing in a distributed e‐infrastructure using the web processing service standard

G Coro, G Panichi, P Scarponi… - … Practice and Experience, 2017 - Wiley Online Library
New Science paradigms have recently evolved to promote open publication of scientific
findings as well as multi‐disciplinary collaborative approaches to scientific experimentation …

[HTML][HTML] COPIOUS: A gold standard corpus of named entities towards extracting species occurrence from biodiversity literature

NTH Nguyen, RS Gabud, S Ananiadou - Biodiversity data journal, 2019 - ncbi.nlm.nih.gov
Background Species occurrence records are very important in the biodiversity domain.
While several available corpora contain only annotations of species names or habitats and …

[HTML][HTML] Challenges with using names to link digital biodiversity information

D Patterson, D Mozzherin, DP Shorthouse… - Biodiversity data …, 2016 - ncbi.nlm.nih.gov
The need for a names-based cyber-infrastructure for digital biology is based on the
argument that scientific names serve as a standardized metadata system that has been used …

Constructing a biodiversity terminological inventory

NTH Nguyen, AJ Soto, G Kontonatsios… - PLoS …, 2017 - journals.plos.org
The increasing growth of literature in biodiversity presents challenges to users who need to
discover pertinent information in an efficient and timely manner. In response, text mining …

“gnparser”: a powerful parser for scientific names based on Parsing Expression Grammar

DY Mozzherin, AA Myltsev, DJ Patterson - BMC bioinformatics, 2017 - Springer
Background Scientific names in biology act as universal links. They allow us to cross-
reference information about organisms globally. However variations in spelling of scientific …

A standardized reference data set for vertebrate taxon name resolution

PF Zermoglio, RP Guralnick, JR Wieczorek - PLoS One, 2016 - journals.plos.org
Taxonomic names associated with digitized biocollections labels have flooded into
repositories such as GBIF, iDigBio and VertNet. The names on these labels are often …