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List of works by Lyubomir Penev

A Nano(publication) Approach Towards Big Data in Biodiversity

scientific article published in 2021

A Possible Workflow from New and Legacy Publications to keep the World Flora Online up to date with New Species and Augmenting Taxonomic Treatments

scientific article published in 2022

A common registration-to-publication automated pipeline for nomenclatural acts for higher plants (International Plant Names Index, IPNI), fungi (Index Fungorum, MycoBank) and animals (ZooBank)

scientific article

A decadal view of biodiversity informatics: challenges and priorities

scientific article

A formalization of one of the main claims of “Creative Commons licenses and the non-commercial condition: Implications for the re-use of biodiversity information” by Hagedorn et al. 2011

ARPHA-BioDiv: A toolbox for scholarly publication and dissemination of biodiversity data based on the ARPHA Publishing Platform

scientific article published on 5 April 2017

Accelerating innovative publishing in taxonomy and systematics: 250 issues of ZooKeys

scientific article

Additions to the lists of publications of Terry Erwin, taxa described by him and named after him after 2015

scientific article published on 16 June 2021

Appendix 1. Listing of directory containing key files for the fruit-fly interactive keys package at http://delta-intkey.com/ffa/ (Carroll et al. 2002)

scientific article published on 23 September 2009

Appendix A. Locality dataset for all published and new records of Eupolybothrus nudicornis and Eupolybothrus kahfi in North Africa

article

Appendix B. Character dataset for larval and post-larval stadia of Eupolybothrus nudicornis based on published (Meinert 1872, Silvestri 1896, Daas et al. 1996) and new data. Post larval stadia of the new material defined after Daas et al. 1996

scientific article published in 2010

Appendix C. BOLD dataset comprising the COI registration numbers of sequenced Eupolybothrus specimens, COI-5P sequence length and locality data

scientific article published in 2010

Appendix D. MorphBank dataset of all published figures comprising figure number, species name, locality data, body part and additional metadata

scientific article published in 2010

Appendix E. GoogleEarth (http://earth.google.com) interactive map displaying the distribution of Eupolybothrus nudicornis and Eupolybothrus kahfi in North Africa

scholarly article by Pavel Stoev et al published 30 June 2010 in ZooKeys

Appendix F. Interactive key for identification of all currently valid species of Eupolybothrus made with Delta software

scientific article published in 2010

Beyond BiCIKL: Towards Building an AI-Assisted “Biodiversity Supergraph”

scientific article published in 2024

Beyond dead trees: integrating the scientific process in the Biodiversity Data Journal

scientific article

Biodiversity Community Integrated Knowledge Library (BiCIKL)

Biodiversity Literature Repository (BLR), a repository for FAIR data and publications

scientific article published in 2019

Biodiversity inventories in high gear: DNA barcoding facilitates a rapid biotic survey of a temperate nature reserve.

scientific article

Biodiversity research in the "big data" era: GigaScience and Pensoft work together to publish the most data-rich species description

scientific article

Collaborative electronic infrastructures to accelerate taxonomic research ⬇️

scientific article published on November 28, 2011

Community engagement: The ‘last mile’ challenge for European research e-infrastructures

scientific article

Community next steps for making globally unique identifiers work for biocollections data

scientific article

Corrected data re-harvested: curating literature in the era of networked biodiversity informatics

scientific article

Creative Commons licenses and the non-commercial condition: Implications for the re-use of biodiversity information

academic article

DNAqua-Net: Developing new genetic tools for bioassessment and monitoring of aquatic ecosystems in Europe

scientific article (publication date: 29 November 2016)

Data Auditing, Cleaning and Quality Assurance Workflows from the Experience of a Scholarly Publisher

scientific article published in 2019

Data Policy Recommendations for Biodiversity Data. EU BON Project Report

scientific article

Data ownership and data publishing

scientific article published on 20 August 2019

Data publication and dissemination of interactive keys under the open access model

scientific article

Data sharing tools adopted by the European Biodiversity Observation Network Project

Developing European conservation and mitigation tools for pollination services: approaches of the STEP (Status and Trends of European Pollinators) project

article

EMODnet Workshop on mechanisms and guidelines to mobilise historical data into biogeographic databases

scholarly article by Sarah Faulwetter et al published 12 September 2016 in Research Ideas and Outcomes

EMODnet Workshop on mechanisms and guidelines to mobilise historical data into biogeographic databases

scholarly article by Sarah Faulwetter et al published 6 July 2016 in Research Ideas and Outcomes

EU BON’s contributions towards meeting Aichi Biodiversity Target 19

Enabling Published Taxonomic Data to be used to Address the Biodiversity Crisis: Biodiversity Literature Repository and TreatmentBank

scientific article published in 2022

Engaging the broader community in biodiversity research: the concept of the COMBER pilot project for divers in ViBRANT

scientific article

Enriched biodiversity data as a resource and service

scientific article

Eupolybothrus cavernicolus Komerički & Stoev sp. n. (Chilopoda: Lithobiomorpha: Lithobiidae): the first eukaryotic species description combining transcriptomic, DNA barcoding and micro-CT imaging data

scientific article published on 28 October 2013

Europa Biodiversity Observation Network: integrating data streams to support policy

scientific article published on 26 January 2022

Fast, linked, and open - the future of taxonomic publishing for plants: launching the journal PhytoKeys

scientific article published in November 2010

Fauna Europaea - all European animal species on the web

scientific article

From Open Access to Open Science from the viewpoint of a scholarly publisher

From taxonomic literature to cybertaxonomic content

scientific article

From text to structured data: Converting a word-processed floristic checklist into Darwin Core Archive format ⬇️

scientific article published on January 30, 2012

Glaciations, deciduous forests, water availability and current geographical patterns in the diversity of European Carabus species

Incentivising use of structured language in biological descriptions: Author-driven phenotype data and ontology production

scientific article published on 07 November 2018

Infrastructure and Population of the OpenBiodiv Biodiversity Knowledge Graph

scientific article published on 24 September 2021

Innovative electronic publication in plant systematics: PhytoKeys and the changes to the "Botanical Code" accepted at the XVIII International Botanical Congress in Melbourne

scientific article

Integrating and visualizing primary data from prospective and legacy taxonomic literature

scientific article published in 2015

Interlinking journal and wiki publications through joint citation: Working examples from ZooKeys and Plazi on Species-ID

scientific article

Liberate the power of biodiversity literature as FAIR digital objects

scientific article published on 30 April 2024

Liberating Biodiversity Data From COVID-19 Lockdown: Toward a knowledge hub for mammal host-virus information

scientific article published on 09 October 2020

Liberating host–virus knowledge from biological dark data

scientific article

Linking Between Molecular and Biodiversity Data: A BiCIKL Perspective

scientific article published in 2024

Long-term effects of sowing high or low diverse seed mixtures on plant and gastropod diversity

article

MACIS: Minimisation of and Adaptation to Climate Change Impacts on Biodiversity

scientific article published in 2008

Mapping and assessing ecosystem services in the EU - Lessons learned from the ESMERALDA approach of integration

scholarly article by Benjamin Burkhard et al published 5 September 2018 in One Ecosystem

Memories of Terry Erwin

scientific article published on 16 June 2021

MycoKeys issue 100: progress and innovation to enhance rapid publication in fungal systematics

scientific article published on 13 November 2023

MycoKeys, or why we need a new journal in mycology?

scientific article

Nanopublications for Biodiversity Go Live

scientific article published in 2023

Nature Conservation – a new dimension in Open Access publishing bridging science and application

article

Nature Conservation – achievements and challenges within its first four years

scientific article published in 2016

On the front line of modern data-management and Open Access publishing: Two years of PhytoKeys - the fastest growing journal in plant systematics

scientific article

One Ecosystem: Innovation in ecology and sustainability research publishing

article

Online direct import of specimen records into manuscripts and automatic creation of data papers from biological databases

article by Viktor Senderov et al published 23 September 2016 in Research Ideas and Outcomes

Open Science meets Food Modelling: Introducing the Food Modelling Journal (FMJ)

scientific article published on 17 September 2019

Open minded and open access: introducing NeoBiota, a new peer-reviewed journal of biological invasions

article published in 2011

Open minded and open access: introducing NeoBiota, a new peer-reviewed journal of biological invasions

scientific article

Open science in practice: 300 published research ideas and outcomes illustrate how RIO Journal facilitates engagement with the research process

OpenBiodiv Computer Demo: an Implementation of a Semantic System Running on top of the Biodiversity Knowledge Graph

scientific article published on 11 August 2017

OpenBiodiv Poster: an Implementation of a Semantic System Running on top of the Biodiversity Knowledge Graph

scientific article published on 14 August 2017

OpenBiodiv for Users: Applications and Approaches to Explore a Biodiversity Knowledge Graph

scientific article published on 9 August 2023

OpenBiodiv-O: ontology of the OpenBiodiv knowledge management system

scientific article published on 18 January 2018

OpenBiodiv-O Ontology: Bridging the Gap Between Biodiversity Data and Biodiversity Publishing

scientific article published in 2019

OpenBiodiv: A Knowledge Graph for Literature-Extracted Linked Open Data in Biodiversity Science ⬇️

scientific article published on 29 May 2019

OpenBiodiv: Linking Type Materials, Institutions, Locations and Taxonomic Names Extracted From Scholarly Literature

scientific article published in 2019

OpenBiodiv: an Implementaion of a Semantic System Running on top of the Biodiversity Knowledge Graph

scientific article published on 07 August 2017

Opening data and research objects in viticulture: The Viticulture Data Journal (VDJ)

scientific article published on 30 December 2019

PESI - a taxonomic backbone for Europe

scientific article

PhytoKeys at 100: progress in sustainability, innovation, and speed to enhance publication in plant systematics.

scientific article

Preface

Publication and dissemination of datasets in taxonomy: ZooKeys working example

scientific article

Publishing online identification keys in the form of scholarly papers

scientific article

Publishing the research process

scientific journal editorial

Ready for the deluge! Introducing the new Metabarcoding and Metagenomics (MBMG) journal

scientific article published in 2017

Real gaps in European bird monitoring: A reply to Voříšek et al

Realizing virtual research environments for the agri‐food community: The AGINFRA PLUS experience

scientific article published on 25 November 2020

Recommendations for interoperability among infrastructures

scientific article published on 14 October 2022

Recommendations for use of annotations and persistent identifiers in taxonomy and biodiversity publishing

scientific article published on 16 November 2022

Revision of the Oriental genera of Agathidinae (Hymenoptera, Braconidae) with an emphasis on Thailand and interactive keys to genera published in three different formats

scientific article

Revolving images and multi-image keys open new horizons in descriptive taxonomy: ZooKeys working examples

scientific article

Rice Ecosystem Services in South-East Asia: The LEGATO Project, Its Approaches and Main Results with a Focus on Biocontrol Services

article

Rice ecosystem services in South-east Asia

article

SKG4EOSC - Scholarly Knowledge Graphs for EOSC: Establishing a backbone of knowledge graphs for FAIR Scholarly Information in EOSC

scientific article

Securing the Conservation of Biodiversity across Administrative Levels and Spatial, Temporal, and Ecological Scales – Research Needs and Approaches of the SCALES Project

article

Semantic Publishing Enables Text Mining of Biotic Interactions

scientific article published on 28 September 2020

Semantic tagging of and semantic enhancements to systematics papers: ZooKeys working examples

scientific article

Species Conservation Profiles compliant with the IUCN Red List of Threatened Species

scientific article

Strategies and guidelines for scholarly publishing of biodiversity data

scientific article (publication date: 28 February 2017)

Streamlined Conversion of Omics Metadata into Manuscript Facilitates Publishing and Reuse of Omics Data

scientific article published on 28 September 2020

Streamlining taxonomic publication: a working example with Scratchpads and ZooKeys

scientific article

Streamlining the use of BOLD specimen data to record species distributions: a case study with ten Nearctic species of Microgastrinae (Hymenoptera: Braconidae).

scientific article

Taxonomy shifts up a gear: New publishing tools to accelerate biodiversity research

scientific article

The Biodiversity Informatics Landscape: Elements, Connections and Opportunities

The Future of Botanical Monography: Report from an international workshop, 12–16 March 2012, Smolenice, Slovak Republic

scientific article published on February 2013

The Open Biodiversity Knowledge Management (eco-)System: Tools and Services for Extraction, Mobilization, Handling and Re-use of Data from the Published Literature

article by Lyubomir Penev et al published 17 May 2018 in Biodiversity Information Science and Standards

The Open Biodiversity Knowledge Management System in Scholarly Publishing

scientific article

The OpenBiodiv Knowledge Graph Rebuilt: A semantic hub on top of the ARPHA-published content and the Biodiversity Literature Repository

scientific article published in 2022

The Pensoft Annotator: A new tool for text annotation with ontology terms

scientific article published in 2020

The Pensoft Data Publishing Workflow: The FAIRway from articles to Linked Open Data

scientific article published in 2019

The centipede genus Eupolybothrus Verhoeff, 1907 (Chilopoda: Lithobiomorpha: Lithobiidae) in North Africa, a cybertaxonomic revision, with a key to all species in the genus and the first use of DNA barcoding for the group ⬇️

scientific article published on 30 June 2010

The data paper: a mechanism to incentivize data publishing in biodiversity science ⬇️

scientific article published on January 1, 2011

The move to open access and growth: experience from Journal of Hymenoptera Research

scientific article published on 30 January 2013

The need for an integrated biodiversity policy support process – Building the European contribution to a global Biodiversity Observation Network (EU BON)

article

The search for common anthropogenic impacts on biodiversity: a global network

article

Towards "Biodiversity PMC"

scientific article published in 2023

Towards Interlinked FAIR Biodiversity Knowledge: The BiCIKL perspective

scientific article published in 2021

Towards mainstreaming of biodiversity data publishing: recommendations of the GBIF Data Publishing Framework Task Group

scientific article

Transforming Knowledge into Practice: Science, Technology and Innovation in Support of the UN SDGs

scientific article published in 2024

Unifying European Biodiversity Informatics (BioUnify)

scientific article published on 15 January 2016

Uniting FAIR data through interlinked, machine-actionable infrastructures

scientific article published on 30 April 2024

Unlocking biodiversity data: Prioritization and filling the gaps in biodiversity observation data in Europe

article by Florian Wetzel et al published May 2018 in Biological Conservation

Why We Need Sustainable Networks Bridging Countries, Disciplines, Cultures and Generations for Aquatic Biomonitoring 2.0: A Perspective Derived From the DNAqua-Net COST Action

scientific article published in 2018

Wikis in scholarly publishing

scientific article published on 6 September 2011

Wikis in scholarly publishing

scientific article published in 2011

Wildlife collection for scientific purposes

scientific article published on 25 June 2020

XML schemas and mark-up practices of taxonomic literature

scientific article

ZooKeys 150: Three and a half years of innovative publishing and growth

scientific article

ZooKeys 500: traditions and innovations hand-in-hand servicing our taxonomic community

scientific article

ZooKeys anniversary: 10 years of leadership toward open-access publishing of zoological data and establishment at Pensoft of like-minded sister journals across the biodiversity spectrum

scientific article

ZooKeys, unlocking Earth’s incredible biodiversity and building a sustainable bridge into the public domain: From “print-based” to “web-based” taxonomy, systematics, and natural history. ZooKeys Editorial Opening Paper

scientific article published on 4 July 2008

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