Diversitymobile Wiki - User contributions [en]

IBFfungicoll About

2009-12-03T18:12:47Z

Grambold:

= About the "IBF Monitoring of Fungi" =

'''Data Collection'''

The purpose of the data collection is described under [http://www.diversitymobile.net/wiki/IBF_Fungi IBF Fungi].

'''Data Project and Service'''

The data project "IBF Monitoring of Fungi" was established by Prof. Dr. Andreas Bresinsky and Josef Simmel. It is part of the DFG funded [http://www.diversitymobile.net/wiki/IBF_Project IBF project] with the aim to gain observational records of fungi in the field using the smart phone application ''DiversityMobile''. The data are processed by [http://www.diversityworkbench.net Diversity Workbench] components and made accessible via national and international portals. They mainly include single observational records and are supplemented with several ecological data. The taxonomy and nomenclature follows the List of Fungal Names hosted by the [http://www.dgfm-ev.de/ Deutschen Gesellschaft für Mykologie DGfM]. With completion of the research project, data will be technically managed by the long-term data repository at the [http://www.snsb.info SNSB IT Center] of the Staatliche Naturwissenschaftliche Sammlungen Bayerns. Notices of errors of any kind are much appreciated by the participants of the project (for email check [[Contact]]).

The data project ""IBF Monitoring of Fungi" and – if not stated otherwise – its supporting files have been copyrighted © 2009 by the University of Regensburg ([http://www.biologie.uni-regensburg.de/Botanik/start.html Ecology/Biology]) and the Staatliche Naturwissenschaftliche Sammlungen Bayerns.

Intellectual properties are with the data owners. Permission is given for free use of data in the search result for non-commercial purposes; any commercial use must be granted by prior written agreement.

© University of Regensburg and Staatliche Naturwissenschaftliche Sammlungen Bayerns 2009-****. All rights reserved.

SelectedPublications

2009-10-07T11:06:06Z

Grambold:

'''IBF publications:'''

Jablonski, S., Kehl, A., Neubacher, D., Poschlod, P., Rambold, G., Schneider, T., Triebel, D. & Weiss, M. 2009. DiversityMobile - Mobile data retrieval platform for biodiversity research projects. – In Fischer, S., Maehle, E. & Reischuk, R. (eds.), Informatik 2009 - Im Focus das Leben. Beiträge der 39. Jahrestagung der Gesellschaft für Informatik e. V. (GI). GI-Edition: Lecture Notes in Informatics (LNI) - Procceedings 154: 27, 610–624. [http://www.diversitymobile.net/wiki/images/3/30/GI2009_jablonski_et-al.pdf download]

'''Recent publications in the DiversityMobile and IBF context:'''

Hagedorn, G. 2008/2007. Structuring descriptive data of organisms - Requirement analysis and information models. – 1–417. Dissertation, Universität Bayreuth.

Hagedorn, G., Weiss, M. & Triebel, D. 2008. DiversityExsiccatae information model (version 2.0, 10 March 2008). – http://www.diversityworkbench.net/Portal/DiversityExsiccataeModel_v2.0.

Hagedorn, G., Weiss, M. & Triebel, D. 2008. DiversityTaxonNames information model (version 2.1, 20 February 2008). – http://www.diversityworkbench.net/Portal/TaxonNamesModel_v2.1.

Kehl, A. 2006. Wirtsselektivität gallinduzierender Pflanzenwespen (Hymenoptera, Tenthredinidae) an Weiden (Salix spp.): die Bedeutung von Phänotyp und Genotyp im Salix alba/S. fragilis-Komplex für die Belegung mit Gallen. Dissertation, Universität Bayreuth.

Triebel, D., Agerer, R., Begerow, D., Boyle, H., Deml, G., Hagedorn, G., Oberwinkler, F., Rambold, G., Schnittler, M., Scholz, R. & Sipman, H.J.M. 2006. Aufbau des deutschen GBIF Knotens für Mykologie: Schlussbericht. – http://www.gbif-mycology.de/PDFs/Schlussbericht_BMBF01LI0202.pdf. – 1–67. München.

Triebel, D., Peršoh, D., Nash, T.H. III, Zedda, L. & Rambold, G. 2007. Chapter 8. LIAS - an interactive database system for structured descriptive data of Ascomycetes. – In Currey, G.B. & Humphries, C.J. (eds.), Biodiversity databases. Techniques, politics, and applications. The Systematics Association Special 73: 99–110.

Weiss, M., Hagedorn, G. & Triebel, D. 2006. DiversityCollection information model (version 2.02). – http://www.diversityworkbench.net/Portal/CollectionModel_v2.02.

Links

2009-10-07T11:04:32Z

Grambold:

'''Software developments with relation to DiversityMobile

[http://www.diversityworkbench.net Diversity Workbench Framework]

[http://www.navikey.net NaviKey]

[http://www.ai4.uni-bayreuth.de/de/research/projects/080_SWfMS/index.html DaltOn Data Logistics and Ontologies]

'''Applications used by specific research communities'''
to store and analyse observation and monitoring data of

''Plants (and lichens):''

[http://www.recordersoftware.org/ Recorder 6] and [http://netphyd.floraweb.de/?q=node/55 Recorder 6 in Germany]

[http://www.synbiosys.alterra.nl/turboveg/ TurboVeg] meta information listed under [http://geobot.botanik.uni-greifswald.de/portal/index.php?option=com_content&task=view&id=99&Itemid=272 Vegetationsdatenbanken]

''Fungi (and lichens):''

[http://www.biooffice.at/index.php/startseite.html BioOffice], web interface for mycological data under [http://austria.mykodata.net/ Datenbank der Pilze Österreichs], further information under [http://forum.dgfm-ev.de/01/index.php?page=Thread&postID=5865 DGfM Forum]

[http://brd.pilzkartierung.de/ Pilzkartierung 2000 online]

[http://www.pilzoek.de/ PILZOEK]

''Ecology:''

[http://www.ecoinformatics.org/tools.html Ecoinformatics Tools]

'''Information systems for descriptive data

Lichens and selected groups of non-lichenized ascomycetes [http://www.lias.net LIAS]

Fungi – Ectomycorrhizae [http://www.deemy.de DEEMY]

'''Portals'''

[http://www.gbif.org GBIF International]

[http://www.bayernflora.de/de/index.html BIB Bayern]

[http://vegbank.org/vegbank/general/info.html VegBank North America]

'''GBIF Germany'''

[http://www.gbif-mykologie.de Participant Node for Mycology/ Lichenology]

[http://132.180.63.25/GBIF-ITFG/ITFG_welcome.html IT-Fachgruppe]

'''IBF relevant standards and models'''

[http://www.diversityworkbench.net Diversity Workbench information models]

[http://www.bgbm.org/biodivinf/docs/CollectionModel BioCISE model]

[http://www.tdwg.org/activities/abcd/ ABCD standard] including [http://www.bgbm.org/TDWG/CODATA/Schema/Codata Schema]

[http://www.tdwg.org/activities/darwincore/ DarwinCore standard] including additions [http://wiki.tdwg.org/twiki/bin/view/DarwinCore/DarwinCoreDraftStandard] [http://wiki.tdwg.org/twiki/bin/view/DarwinCore/CuratorialExtension] [http://wiki.tdwg.org/twiki/bin/view/DarwinCore/GeospatialExtension]

[http://www.vegbank.org/vegdocs/design/erd/vegbank_erd.pdf VegBank standard]

[http://dev.e-taxonomy.eu/trac/wiki/CommonDataModel EDIT CommonDataModel CDM]

'''Topographic Maps'''

[http://www.floraweb.de/recorder/tk25_kacheln/ TK25 Germany]

[http://www.geodaten.bayern.de/ TK25 Bavaria]

[http://www.geodaten.bayern.de/BayernViewer/index.cgi TK25 BayernViewer]

'''IBF relevant documents of the German Research Foundation (DFG)'''

[http://www.dfg.de/aktuelles_presse/reden_stellungnahmen/download/empfehlung_wiss_praxis_0198.pdf DFG Vorschläge zur Sicherung guter wissenschaftlicher Praxis - Empfehlungen der Kommission "Selbstkontrolle in der Wissesnschaft" - Denkschrift 1998]

[http://www.dfg.de/forschungsfoerderung/wissenschaftliche_infrastruktur/lis/veroeffentlichungen/dokumentationen/download/ua_inf_empfehlungen_200901.pdf Aufbewahrung und Bereitstellung digitalisierter Forschungsprimärdaten, Januar 2009]

[http://www.dfg.de/forschungsfoerderung/wissenschaftliche_infrastruktur/lis/download/praxisregeln_digitalisierung.pdf DFG-Praxisregeln Digitalisierung, April 2009]

'''IBF relevant documents of the Deutsche Initiative für Netzwerkinformation e. V. ([http://www.dini.de/startseite/ DINI])'''

Neuroth, H., Oßwald, A., Scheffel, R., Strathmann, S., Jehn, M. (eds.) 2009. Nestor-Handbuch: Eine kleine Enzyklopädie der digitalen Langzeitarchivierung Version 2.0 – Juni 2009 – http://nestor.sub.uni-goettingen.de/handbuch/index.php

[http://edoc.hu-berlin.de/series/dini-schriften/2009-10/PDF/10.pdf Positionspapier Forschungsdaten 2009]

'''Imaging Best Practices and Standards'''

[http://circa.gbif.net/Public/irc/enbi/comm/library?l=/enbi_reports/biological_specimens&vm=detailed&sb=Title Digital Imaging of Biological Type Specimens, ENBI-Report 2006]

[http://wiki.tdwg.org/Image/ TDWG Image Wiki]

[http://www.snsb.info/SNSBInfoOpenWiki/Wiki.jsp?page=SNSBImagingWorkshop Imaging Workshop at the SNSB IT Center]

'''Identification tools for mobile devices'''

EcoPod field identification tool

[http://www.keytonature.eu/wiki/Main_Page KeyToNature]

[http://www.keytonature.eu/w/media/4/4b/D.6.2_FINAL.pdf Prototype KeyToNature]

Schmeil-Fitschen flora mobil

'''National Geographic News in July, 2009'''

Tracking Alien Species with Smart Phones ([http://news.nationalgeographic.com/news/2009/07/090730-survey-video-ap.html Video])

'''[http://www.lifewatch.eu LifeWatch]'''

[http://www.lifewatch.eu/index.php?option=com_content&view=article&id=71&catid=1&Itemid=12 Label your project as a LifeWatch Supporting Project]

Links

2009-10-07T11:03:19Z

Grambold:

'''Software developments with relation to DiversityMobile

[http://www.diversityworkbench.net Diversity Workbench Framework]

[http://www.navikey.net NaviKey]

[http://www.ai4.uni-bayreuth.de/de/research/projects/080_SWfMS/index.html DaltOn Data Logistics and Ontologies]

'''Applications used by specific research communities'''
to store and analyse observation and monitoring data of

''Plants (and lichens):''

[http://www.recordersoftware.org/ Recorder 6] and [http://netphyd.floraweb.de/?q=node/55 Recorder 6 in Germany]

[http://www.synbiosys.alterra.nl/turboveg/ TurboVeg] meta information listed under [http://geobot.botanik.uni-greifswald.de/portal/index.php?option=com_content&task=view&id=99&Itemid=272 Vegetationsdatenbanken]

''Fungi (and lichens):''

[http://www.biooffice.at/index.php/startseite.html BioOffice], web interface for mycological data under [http://austria.mykodata.net/ Datenbank der Pilze Österreichs], further information under [http://forum.dgfm-ev.de/01/index.php?page=Thread&postID=5865 DGfM Forum]

[http://brd.pilzkartierung.de/ Pilzkartierung 2000 online]

[http://www.pilzoek.de/ PILZOEK]

''Ecology:''

[http://www.ecoinformatics.org/tools.html Ecoinformatics Tools]

'''Information systems for descriptive data

Lichens and selected groups of non-lichenized ascomycetes [http://www.lias.net LIAS]

Fungi – Ectomycorrhizae [http://www.deemy.de DEEMY]

'''Portals'''

[http://www.gbif.org GBIF International]

[http://www.bayernflora.de/de/index.html BIB Bayern]

[http://vegbank.org/vegbank/general/info.html VegBank North America]

'''GBIF Germany'''

[http://www.gbif-mykologie.de Participant Node for Mycology/ Lichenology]

[http://132.180.63.25/GBIF-ITFG/ITFG_welcome.html IT-Fachgruppe]

'''IBF relevant standards and models'''

[http://www.diversityworkbench.net Diversity Workbench information models]

[http://www.bgbm.org/biodivinf/docs/CollectionModel BioCISE model]

[http://www.tdwg.org/activities/abcd/ ABCD standard] including [http://www.bgbm.org/TDWG/CODATA/Schema/Codata Schema]

[http://www.tdwg.org/activities/darwincore/ DarwinCore standard] including additions [http://wiki.tdwg.org/twiki/bin/view/DarwinCore/DarwinCoreDraftStandard] [http://wiki.tdwg.org/twiki/bin/view/DarwinCore/CuratorialExtension] [http://wiki.tdwg.org/twiki/bin/view/DarwinCore/GeospatialExtension]

[http://www.vegbank.org/vegdocs/design/erd/vegbank_erd.pdf VegBank standard]

[http://dev.e-taxonomy.eu/trac/wiki/CommonDataModel EDIT CommonDataModel CDM]

'''Topographic Maps'''

[http://www.floraweb.de/recorder/tk25_kacheln/ TK25 Germany]

[http://www.geodaten.bayern.de/ TK25 Bavaria]

[http://www.geodaten.bayern.de/BayernViewer/index.cgi TK25 BayernViewer]

'''IBF relevant documents of the German Research Foundation (DFG)'''

[http://www.dfg.de/aktuelles_presse/reden_stellungnahmen/download/empfehlung_wiss_praxis_0198.pdf DFG Vorschläge zur Sicherung guter wissenschaftlicher Praxis - Empfehlungen der Kommission "Selbstkontrolle in der Wissesnschaft" - Denkschrift 1998]

[http://www.dfg.de/forschungsfoerderung/wissenschaftliche_infrastruktur/lis/veroeffentlichungen/dokumentationen/download/ua_inf_empfehlungen_200901.pdf Aufbewahrung und Bereitstellung digitalisierter Forschungsprimärdaten, Januar 2009]

[http://www.dfg.de/forschungsfoerderung/wissenschaftliche_infrastruktur/lis/download/praxisregeln_digitalisierung.pdf DFG-Praxisregeln Digitalisierung, April 2009]

'''IBF relevant documents of the Deutsche Initiative für Netzwerkinformation e. V. ([http://www.dini.de/startseite/ DINI])'''

Neuroth, H., Oßwald, A., Scheffel, R., Strathmann, S., Jehn, M. (eds.) 2009. Nestor-Handbuch: Eine kleine Enzyklopädie der digitalen Langzeitarchivierung Version 2.0 - Juni 2009 - http://nestor.sub.uni-goettingen.de/handbuch/index.php

[http://edoc.hu-berlin.de/series/dini-schriften/2009-10/PDF/10.pdf Positionspapier Forschungsdaten 2009]

'''Imaging Best Practices and Standards'''

[http://circa.gbif.net/Public/irc/enbi/comm/library?l=/enbi_reports/biological_specimens&vm=detailed&sb=Title Digital Imaging of Biological Type Specimens, ENBI-Report 2006]

[http://wiki.tdwg.org/Image/ TDWG Image Wiki]

[http://www.snsb.info/SNSBInfoOpenWiki/Wiki.jsp?page=SNSBImagingWorkshop Imaging Workshop at the SNSB IT Center]

'''Identification tools for mobile devices'''

EcoPod field identification tool

[http://www.keytonature.eu/wiki/Main_Page KeyToNature]

[http://www.keytonature.eu/w/media/4/4b/D.6.2_FINAL.pdf Prototype KeyToNature]

Schmeil-Fitschen flora mobil

'''National Geographic News in July, 2009'''

Tracking Alien Species with Smart Phones ([http://news.nationalgeographic.com/news/2009/07/090730-survey-video-ap.html Video])

'''[http://www.lifewatch.eu LifeWatch]'''

[http://www.lifewatch.eu/index.php?option=com_content&view=article&id=71&catid=1&Itemid=12 Label your project as a LifeWatch Supporting Project]

IBF Project

2009-08-16T16:15:02Z

Grambold:

"Setting up an '''I'''nformation Network on '''B'''iological Research Data gained in the '''F'''ield up to the Sustainable Storage in a Primary Data Repository ('''I-B-F''')" – a joint project funded by DFG.

*[[IBF Mobile Developments and Data transfer]]

*[[IBF Diversity Workbench Developments and Data Repository]]

*[[IBF Eco]]

*[[IBF Fungi]]

*[[IBF Lichens]]

*[[IBF Plants]]

*[[IBF DiversityMobile Feedback]]

*[[IBF Interne Dokumente]]

*[[IBF Interne Arbeitstreffen]]

* IBF [[News & Events]]

* IBF [[Links]]

The IBF project is based on the development of the [http://www.diversityworkbench.net Diversity Workbench Framework] and will expand the platform by a software application (“''DiversityMobile''”) for a '''smartphone or mobile device'''. The approach is to gain biological research data from the field by using a PDA with '''GPS functionality and a digital imagery option'''. Several user interfaces for two major biological communities allow biodiversity scientists and ecologists to gather and store monitoring data or complex biological data already in the field. The user interface of the PDA will be interchangeable and give access to taxonomic name, ecological descriptor, and general scientific term presets, and allow for selecting reference points in digitized topographic maps. The gathered data are transferred to a '''data repository''' at the IT center of the Bavarian Natural History Collections (SNSB) via '''data synchronisation''' between the databases involved and are further redistributed to end-users via various types of interfaces. Besides this integrated infrastructure, the data repository hosts schemata and generic interfaces for the data exchange with PDAs, wrappers (ABCD schema) and external applications for data analysis and presentation. The complete dataflow and working environment is built up in cooperation between four research groups. In the course of the development, '''new strategies of complex data access and structuring''' will be modelled and tested. This especially concerns more-dimensional interrelations between organisms in a temporal and spatial context.




[[File:IBF-Datenfluss-small.jpg|center|Datenfluss|link=http://www.diversitymobile.net/wiki/images/8/8d/IBF-Datenfluss.pdf]]

'''IBF''' is working with '''biologists on-site and non-professional experts for gaining data in the field'''. Therefore the IBF portal pages devoted to user-specific technical infrastructure and with biological content are '''partly in German'''.

IBF Project

2009-08-16T16:11:26Z

Grambold:

"Setting up an '''I'''nformation Network on '''B'''iological Research Data gained in the '''F'''ield up to the Sustainable Storage in a Primary Data Repository ('''I-B-F''')" - a joint project funded by DFG.

*[[IBF Mobile Developments and Data transfer]]

*[[IBF Diversity Workbench Developments and Data Repository]]

*[[IBF Eco]]

*[[IBF Fungi]]

*[[IBF Lichens]]

*[[IBF Plants]]

*[[IBF DiversityMobile Feedback]]

*[[IBF Interne Dokumente]]

*[[IBF Interne Arbeitstreffen]]

* IBF [[News & Events]]

* IBF [[Links]]

The IBF project is based on the development of the [http://www.diversityworkbench.net Diversity Workbench Framework] and will expand the platform by a software application (“''DiversityMobile''”) for a '''smartphone or mobile device'''. The approach is to gain biological research data from the field by using a PDA with '''GPS functionality and a digital imagery option'''. Several user interfaces for two major biological communities allow biodiversity scientists and ecologists to gather and store monitoring data or complex biological data already in the field. The user interface of the PDA will be interchangeable and give access to taxonomic name, ecological descriptor, and general scientific term presets, and allow for selecting reference points in digitized topographic maps. The gathered data are transferred to a '''data repository''' at the IT center of the Bavarian Natural History Collections (SNSB) via '''data synchronisation''' between the databases involved and are further redistributed to end-users via various types of interfaces. Besides this integrated infrastructure, the data repository hosts schemata and generic interfaces for the data exchange with PDAs, wrappers (ABCD schema) and external applications for data analysis and presentation. The complete dataflow and working environment is built up in cooperation between four research groups. In the course of the development, '''new strategies of complex data access and structuring''' will be modelled and tested. This especially concerns more-dimensional interrelations between organisms in a temporal and spatial context.




[[File:IBF-Datenfluss-small.jpg|center|Datenfluss|link=http://www.diversitymobile.net/wiki/images/8/8d/IBF-Datenfluss.pdf]]

'''IBF''' is working with '''biologists on-site and non-professional experts for gaining data in the field'''. Therefore the IBF portal pages devoted to user-specific technical infrastructure and with biological content are '''partly in German'''.

IBF Project

2009-08-16T16:10:26Z

Grambold:

"Setting up an Information Network on Biological Research Data gained in the Field up to the Sustainable Storage in a Primary Data Repository (I-B-F)" - a joint project funded by DFG.

*[[IBF Mobile Developments and Data transfer]]

*[[IBF Diversity Workbench Developments and Data Repository]]

*[[IBF Eco]]

*[[IBF Fungi]]

*[[IBF Lichens]]

*[[IBF Plants]]

*[[IBF DiversityMobile Feedback]]

*[[IBF Interne Dokumente]]

*[[IBF Interne Arbeitstreffen]]

* IBF [[News & Events]]

* IBF [[Links]]

The IBF project is based on the development of the [http://www.diversityworkbench.net Diversity Workbench Framework] and will expand the platform by a software application (“''DiversityMobile''”) for a '''smartphone or mobile device'''. The approach is to gain biological research data from the field by using a PDA with '''GPS functionality and a digital imagery option'''. Several user interfaces for two major biological communities allow biodiversity scientists and ecologists to gather and store monitoring data or complex biological data already in the field. The user interface of the PDA will be interchangeable and give access to taxonomic name, ecological descriptor, and general scientific term presets, and allow for selecting reference points in digitized topographic maps. The gathered data are transferred to a '''data repository''' at the IT center of the Bavarian Natural History Collections (SNSB) via '''data synchronisation''' between the databases involved and are further redistributed to end-users via various types of interfaces. Besides this integrated infrastructure, the data repository hosts schemata and generic interfaces for the data exchange with PDAs, wrappers (ABCD schema) and external applications for data analysis and presentation. The complete dataflow and working environment is built up in cooperation between four research groups. In the course of the development, '''new strategies of complex data access and structuring''' will be modelled and tested. This especially concerns more-dimensional interrelations between organisms in a temporal and spatial context.




[[File:IBF-Datenfluss-small.jpg|center|Datenfluss|link=http://www.diversitymobile.net/wiki/images/8/8d/IBF-Datenfluss.pdf]]

'''IBF''' is working with '''biologists on-site and non-professional experts for gaining data in the field'''. Therefore the IBF portal pages devoted to user-specific technical infrastructure and with biological content are '''partly in German'''.