XML schemas and mark-up practices of taxonomic literature

Lyubomir Penev; Christopher Lyal; Anna Weitzman; David Morse; David King; Guido Sautter; Teodor Georgiev; Robert Morris; Terry Catapano; Donat Agosti

doi:10.3897/zookeys.150.2213

Jeremy Miller, Donat Agosti, Lyubomir Penev, Guido Sautter, Teodor Georgiev, Terry Catapano, David Patterson, David King, Serrano Pereira, Rutger Vos, Soraya Sierra (2015)
Integrating and visualizing primary data from prospective and legacy taxonomic literature. Biodiversity Data Journal 3: e5063.

DOI: 10.3897/BDJ.3.e5063

Thomas D. Hamann, Andreas Müller, Marinus C. Roos, Marc Sosef, Erik Smets (2014)
Detailed mark‐up of semi‐monographic legacy taxonomic works using FlorML. TAXON 63: 377.

DOI: 10.12705/632.11

Jeremy Miller, Teodor Georgiev, Pavel Stoev, Guido Sautter, Lyubomir Penev (2015)
Corrected data re-harvested: curating literature in the era of networked biodiversity informatics. Biodiversity Data Journal 3: e4552.

DOI: 10.3897/BDJ.3.e4552

Sarah Faulwetter, Evangelos Pafilis, Lucia Fanini, Nicolas Bailly, Donat Agosti, Christos Arvanitidis, Laura Boicenco, Terry Catapano, Simon Claus, Stefanie Dekeyzer, Teodor Georgiev, Aglaia Legaki, Dimitra Mavraki, Anastasis Oulas, Gabriella Papastefanou, Lyubomir Penev, Guido Sautter, Dmitry Schigel, Viktor Senderov, Adrian Teaca, Marilena Tsompanou (2016)
EMODnet Workshop on mechanisms and guidelines to mobilise historical data into biogeographic databases. Research Ideas and Outcomes 2: e10445.

DOI: 10.3897/rio.2.e10445

Urmas Kõljalg, Henrik R. Nilsson, Dmitry Schigel, Leho Tedersoo, Karl-Henrik Larsson, Tom W. May, Andy F. S. Taylor, Thomas Stjernegaard Jeppesen, Tobias Guldberg Frøslev, Björn D. Lindahl, Kadri Põldmaa, Irja Saar, Ave Suija, Anton Savchenko, Iryna Yatsiuk, Kristjan Adojaan, Filipp Ivanov, Timo Piirmann, Raivo Pöhönen, Allan Zirk, Kessy Abarenkov (2020)
The Taxon Hypothesis Paradigm—On the Unambiguous Detection and Communication of Taxa. Microorganisms 8: 1910.

DOI: 10.3390/microorganisms8121910

Donat Agosti, Laurence Benichou, Wouter Addink, Christos Arvanitidis, Terence Catapano, Guy Cochrane, Mathias Dillen, Markus Döring, Teodor Georgiev, Isabelle Gérard, Quentin Groom, Puneet Kishor, Andreas Kroh, Jiří Kvaček, Patricia Mergen, Daniel Mietchen, Joana Pauperio, Guido Sautter, Lyubomir Penev (2022)
Recommendations for use of annotations and persistent identifiers in taxonomy and biodiversity publishing. Research Ideas and Outcomes 8: .

DOI: 10.3897/rio.8.e97374

David Remsen, Sandra Knapp, Teodor Georgiev, Pavel Stoev, Lyubomir Penev (2012)
From text to structured data: Converting a word-processed floristic checklist into Darwin Core Archive format. PhytoKeys 9: 1.

DOI: 10.3897/phytokeys.9.2770

Mariya Dimitrova, Viktor Senderov, Teodor Georgiev, Georgi Zhelezov, Lyubomir Penev (2019)
OpenBiodiv: Linking Type Materials, Institutions, Locations and Taxonomic Names Extracted From Scholarly Literature. Biodiversity Information Science and Standards 3: .

DOI: 10.3897/biss.3.35089

Christopher Lyal (2016)
Digitising legacy zoological taxonomic literature: Processes, products and using the output. ZooKeys 550: 189.

DOI: 10.3897/zookeys.550.9702

Viktor Senderov, Lyubomir Penev (2016)
The Open Biodiversity Knowledge Management System in Scholarly Publishing. Research Ideas and Outcomes 2: e7757.

DOI: 10.3897/rio.2.e7757

Vincent Smith, Lyubomir Penev (2011)
Collaborative electronic infrastructures to accelerate taxonomic research. ZooKeys 150: 1.

DOI: 10.3897/zookeys.150.2458

Norman F. Johnson (2011)
A collaborative, integrated and electronic future for taxonomy. Invertebrate Systematics 25: 471.

DOI: 10.1071/IS11052

Walter Berendsohn, Anton Güntsch, Niels Hoffmann, Andreas Kohlbecker, Katja Luther, Andreas Müller (2011)
Biodiversity information platforms: From standards to interoperability. ZooKeys 150: 71.

DOI: 10.3897/zookeys.150.2166

Terry Erwin, Pavel Stoev, Teodor Georgiev, Lyubomir Penev (2015)
ZooKeys 500: traditions and innovations hand-in-hand servicing our taxonomic community. ZooKeys 500: 1.

DOI: 10.3897/zookeys.500.9844

F. Andres Rivera-Quiroz, Booppa Petcharad, Jeremy A. Miller (2020)
Mining data from legacy taxonomic literature and application for sampling spiders of the Teutamus group (Araneae; Liocranidae) in Southeast Asia. Scientific Reports 10: .

DOI: 10.1038/s41598-020-72549-8

Jennifer C Girón, Sergei Tarasov, Luis Antonio González Montaña, Nicolas Matentzoglu, Aaron D Smith, Markus Koch, Brendon E Boudinot, Patrice Bouchard, Roger Burks, Lars Vogt, Matthew Yoder, David Osumi-Sutherland, Frank Friedrich, Rolf G Beutel, István Mikó, Lauren Esposito (2023)
Formalizing Invertebrate Morphological Data: A Descriptive Model for Cuticle-Based Skeleto-Muscular Systems, an Ontology for Insect Anatomy, and their Potential Applications in Biodiversity Research and Informatics. Systematic Biology 72: 1084.

DOI: 10.1093/sysbio/syad025

Thor-Seng Liew, Jaap Jan Vermeulen, Mohammad Effendi Marzuki, Menno Schilthuizen (2014)
A cybertaxonomic revision of the micro-landsnail genus Plectostoma Adam (Mollusca, Caenogastropoda, Diplommatinidae), from Peninsular Malaysia, Sumatra and Indochina. ZooKeys 393: 1.

DOI: 10.3897/zookeys.393.6717

Lyubomir Penev, Mariya Dimitrova, Viktor Senderov, Georgi Zhelezov, Teodor Georgiev, Pavel Stoev, Kiril Simov (2019)
OpenBiodiv: A Knowledge Graph for Literature-Extracted Linked Open Data in Biodiversity Science. Publications 7: 38.

DOI: 10.3390/publications7020038

Sarah Faulwetter, Evangelos Pafilis, Lucia Fanini, Nicolas Bailly, Donat Agosti, Christos Arvanitidis, Laura Boicenco, Terry Capatano, Simon Claus, Stefanie Dekeyzer, Teodor Georgiev, Aglaia Legaki, Dimitra Mavraki, Anastasis Oulas, Gabriella Papastefanou, Lyubomir Penev, Guido Sautter, Dmitry Schigel, Viktor Senderov, Adrian Teaca, Marilena Tsompanou (2016)
EMODnet Workshop on mechanisms and guidelines to mobilise historical data into biogeographic databases. Research Ideas and Outcomes 2: e9774.

DOI: 10.3897/rio.2.e9774

Scott Federhen (2015)
Type material in the NCBI Taxonomy Database. Nucleic Acids Research 43: D1086.

DOI: 10.1093/nar/gku1127

Mariya Dimitrova, Viktor Senderov, Teodor Georgiev, Georgi Zhelezov, Lyubomir Penev (2021)
Infrastructure and Population of the OpenBiodiv Biodiversity Knowledge Graph. Biodiversity Data Journal 9: .

DOI: 10.3897/BDJ.9.e67671

Andy Lücking, Christine Driller, Manuel Stoeckel, Giuseppe Abrami, Adrian Pachzelt, Alexander Mehler (2022)
Multiple annotation for biodiversity: developing an annotation framework among biology, linguistics and text technology. Language Resources and Evaluation 56: 807.

DOI: 10.1007/s10579-021-09553-5

Klaus Henle, Sandra Bell, Lluís Brotons, Jean Clobert, Douglas Evans, Christoph Goerg, Malgorzata Grodzinska-Jurcak, Bernd Gruber, Yrjo Haila, Pierre-Yves Henry, Andreas Huth, Romain Julliard, Petr Keil, Michael Kleyer, D. Johan Kotze, William Kunin, Szabolcs Lengyel, Yu-Pin Lin, Adeline Loyau, Gary Luck, William Magnuson, Chris Margules, Yiannis Matsinos, Peter May, Isabel Sousa-Pinto, Hugh Possingham, Simon Potts, Irene Ring, James Pryke, Michael Samways, Denis Saunders, Dirk Schmeller, Jukka Simila, Simone Sommer, Ingolf Steffan-Dewenter, Pavel Stoev, Martin Sykes, Béla Tóthmérész, Rita Yam, Joseph Tzanopoulos, Lyubomir Penev (2012)
Nature Conservation – a new dimension in Open Access publishing bridging science and application. Nature Conservation 1: 1.

DOI: 10.3897/natureconservation.1.3081

David King, David R. Morse (2013)
Metadata and Semantics Research. Chapter 34: 355.

DOI: 10.1007/978-3-319-03437-9_34

A. L. Weitzman, C. H. C. Lyal (2015)
Descriptive Taxonomy. 19: 247.

DOI: 10.1017/CBO9781139028004.025