A hymenopterists’ guide to the Hymenoptera Anatomy Ontology: utility, clarification, and future directions

Katja C. Seltmann; Matthew J. Yoder; Istvan  Miko; Mattias Forshage; Matthew A. Bertone; Andrew R. Deans; Donat Agosti; Andrew D. Austin; James P. Balhoff; Marek L. Borowiec; Seán G. Brady; Gavin R. Broad; Denis J. Brothers; Roger A. Burks; Matthew L. Buffington; Heather M. Campbell; Kelly J. Dew; Andrew F. Ernst; José L. Fernández-Triana; Michael W. Gates; Gary A. P. Gibson; John T. Jennings; Norman F. Johnson; Dave Karlsson; Ricardo Kawada; Lars Krogsmann; Robert R. Kula; Patricia L. Mullins; Michael Ohl; Claus Rasmussen; Fredrik Ronquist; Susanne Schulmeister; Michael J. Sharkey; Elijah Talamas; Erika Tucker; Lars Vilhelmsen; Philip S. Ward; Robert A. Wharton; Andrew R. Deans

doi:10.3897/JHR.27.2961

A hymenopterists’ guide to the Hymenoptera Anatomy Ontology: utility, clarification, and future directions

Katja C. Seltmann, Matthew J. Yoder, Istvan Miko, Mattias Forshage, Matthew A. Bertone, Andrew R. Deans, Donat Agosti, Andrew D. Austin, James P. Balhoff, Marek L. Borowiec, Seán G. Brady, Gavin R. Broad, Denis J. Brothers, Roger A. Burks, Matthew L. Buffington, Heather M. Campbell, Kelly J. Dew, Andrew F. Ernst, José L. Fernández-Triana, Michael W. GatesGary A. P. Gibson, John T. Jennings, Norman F. Johnson, Dave Karlsson, Ricardo Kawada, Lars Krogsmann, Robert R. Kula, Patricia L. Mullins, Michael Ohl, Claus Rasmussen, Fredrik Ronquist, Susanne Schulmeister, Michael J. Sharkey, Elijah Talamas, Erika Tucker, Lars Vilhelmsen, Philip S. Ward, Robert A. Wharton, Andrew R. Deans

53 Citationer (Scopus)

41 Downloads (Pure)

Abstract

Hymenoptera exhibit an incredible diversity of phenotypes, the result of ~240 million years of evolution and the primary subject of more than 250 years of research. Here we describe the history, development, and utility of the Hymenoptera Anatomy Ontology (HAO) and its associated applications. These resources are designed to facilitate accessible and extensible research on hymenopteran phenotypes. Outreach with the hymenopterist community is of utmost importance to the HAO project, and this paper is a direct response to questions that arose from project workshops. In a concerted attempt to surmount barriers of understanding, especially regarding the format, utility, and development of the HAO, we discuss the roles of homology, "preferred terms", and "structural equivalency". We also outline the use of Universal Resource Identifiers (URIs) and posit that they are a key element necessary for increasing the objectivity and repeatability of science that references hymenopteran anatomy. Pragmatically, we detail a mechanism (the "URI table") by which authors can use URIs to link their published text to the HAO, and we describe an associated tool (the "Analyzer") to derive these tables. These tools, and others, are available through the HAO Portal website (http://portal.hymao.org). We conclude by discussing the future of the HAO with respect to digital publication, cross-taxon ontology alignment, the advent of semantic phenotypes, and community-based curation. Copyright Katja C.

Originalsprog	Engelsk
Tidsskrift	Journal of Hymenoptera Research
Vol/bind	27
Udgave nummer	67-88
Sider (fra-til)	67-88
Antal sider	22
ISSN	1070-9428
DOI	https://doi.org/10.3897/JHR.27.2961
Status	Udgivet - 31 maj 2012

Adgang til dokumentet

10.3897/JHR.27.2961Licens: CC BY

Seltmann_2012_A_hymenopterists_guideForlagets udgivne version, 2,16 MBLicens: CC BY

Citationsformater

Seltmann, K. C., Yoder, M. J., Miko, I., Forshage, M., Bertone, M. A., Deans, A. R., Agosti, D., Austin, A. D., Balhoff, J. P., Borowiec, M. L., Brady, S. G., Broad, G. R., Brothers, D. J., Burks, R. A., Buffington, M. L., Campbell, H. M., Dew, K. J., Ernst, A. F., Fernández-Triana, J. L., ... Deans, A. R. (2012). A hymenopterists’ guide to the Hymenoptera Anatomy Ontology: utility, clarification, and future directions. Journal of Hymenoptera Research, 27(67-88), 67-88. https://doi.org/10.3897/JHR.27.2961

Seltmann, KC, Yoder, MJ, Miko, I, Forshage, M, Bertone, MA, Deans, AR, Agosti, D, Austin, AD, Balhoff, JP, Borowiec, ML, Brady, SG, Broad, GR, Brothers, DJ, Burks, RA, Buffington, ML, Campbell, HM, Dew, KJ, Ernst, AF, Fernández-Triana, JL, Gates, MW, Gibson, GAP, Jennings, JT, Johnson, NF, Karlsson, D, Kawada, R, Krogsmann, L, Kula, RR, Mullins, PL, Ohl, M, Rasmussen, C, Ronquist, F, Schulmeister, S, Sharkey, MJ, Talamas, E, Tucker, E, Vilhelmsen, L, Ward, PS, Wharton, RA & Deans, AR 2012, 'A hymenopterists’ guide to the Hymenoptera Anatomy Ontology: utility, clarification, and future directions', Journal of Hymenoptera Research, bind 27, nr. 67-88, s. 67-88. https://doi.org/10.3897/JHR.27.2961

@article{f581f36cd7fb40e7bb7cfe0b9c8a2e72,

title = "A hymenopterists{\textquoteright} guide to the Hymenoptera Anatomy Ontology: utility, clarification, and future directions",

abstract = "Hymenoptera exhibit an incredible diversity of phenotypes, the result of ~240 million years of evolution and the primary subject of more than 250 years of research. Here we describe the history, development, and utility of the Hymenoptera Anatomy Ontology (HAO) and its associated applications. These resources are designed to facilitate accessible and extensible research on hymenopteran phenotypes. Outreach with the hymenopterist community is of utmost importance to the HAO project, and this paper is a direct response to questions that arose from project workshops. In a concerted attempt to surmount barriers of understanding, especially regarding the format, utility, and development of the HAO, we discuss the roles of homology, {"}preferred terms{"}, and {"}structural equivalency{"}. We also outline the use of Universal Resource Identifiers (URIs) and posit that they are a key element necessary for increasing the objectivity and repeatability of science that references hymenopteran anatomy. Pragmatically, we detail a mechanism (the {"}URI table{"}) by which authors can use URIs to link their published text to the HAO, and we describe an associated tool (the {"}Analyzer{"}) to derive these tables. These tools, and others, are available through the HAO Portal website (http://portal.hymao.org). We conclude by discussing the future of the HAO with respect to digital publication, cross-taxon ontology alignment, the advent of semantic phenotypes, and community-based curation. Copyright Katja C.",

author = "Seltmann, {Katja C.} and Yoder, {Matthew J.} and Istvan Miko and Mattias Forshage and Bertone, {Matthew A.} and Deans, {Andrew R.} and Donat Agosti and Austin, {Andrew D.} and Balhoff, {James P.} and Borowiec, {Marek L.} and Brady, {Se{\'a}n G.} and Broad, {Gavin R.} and Brothers, {Denis J.} and Burks, {Roger A.} and Buffington, {Matthew L.} and Campbell, {Heather M.} and Dew, {Kelly J.} and Ernst, {Andrew F.} and Fern{\'a}ndez-Triana, {Jos{\'e} L.} and Gates, {Michael W.} and Gibson, {Gary A. P.} and Jennings, {John T.} and Johnson, {Norman F.} and Dave Karlsson and Ricardo Kawada and Lars Krogsmann and Kula, {Robert R.} and Mullins, {Patricia L.} and Michael Ohl and Claus Rasmussen and Fredrik Ronquist and Susanne Schulmeister and Sharkey, {Michael J.} and Elijah Talamas and Erika Tucker and Lars Vilhelmsen and Ward, {Philip S.} and Wharton, {Robert A.} and Deans, {Andrew R.}",

year = "2012",

month = may,

day = "31",

doi = "10.3897/JHR.27.2961",

language = "English",

volume = "27",

pages = "67--88",

journal = "Journal of Hymenoptera Research",

issn = "1070-9428",

publisher = "Pensoft Publishers",

number = "67-88",

}

TY - JOUR

T1 - A hymenopterists’ guide to the Hymenoptera Anatomy Ontology

T2 - utility, clarification, and future directions

AU - Seltmann, Katja C.

AU - Yoder, Matthew J.

AU - Miko, Istvan

AU - Forshage, Mattias

AU - Bertone, Matthew A.

AU - Deans, Andrew R.

AU - Agosti, Donat

AU - Austin, Andrew D.

AU - Balhoff, James P.

AU - Borowiec, Marek L.

AU - Brady, Seán G.

AU - Broad, Gavin R.

AU - Brothers, Denis J.

AU - Burks, Roger A.

AU - Buffington, Matthew L.

AU - Campbell, Heather M.

AU - Dew, Kelly J.

AU - Ernst, Andrew F.

AU - Fernández-Triana, José L.

AU - Gates, Michael W.

AU - Gibson, Gary A. P.

AU - Jennings, John T.

AU - Johnson, Norman F.

AU - Karlsson, Dave

AU - Kawada, Ricardo

AU - Krogsmann, Lars

AU - Kula, Robert R.

AU - Mullins, Patricia L.

AU - Ohl, Michael

AU - Rasmussen, Claus

AU - Ronquist, Fredrik

AU - Schulmeister, Susanne

AU - Sharkey, Michael J.

AU - Talamas, Elijah

AU - Tucker, Erika

AU - Vilhelmsen, Lars

AU - Ward, Philip S.

AU - Wharton, Robert A.

AU - Deans, Andrew R.

PY - 2012/5/31

Y1 - 2012/5/31

N2 - Hymenoptera exhibit an incredible diversity of phenotypes, the result of ~240 million years of evolution and the primary subject of more than 250 years of research. Here we describe the history, development, and utility of the Hymenoptera Anatomy Ontology (HAO) and its associated applications. These resources are designed to facilitate accessible and extensible research on hymenopteran phenotypes. Outreach with the hymenopterist community is of utmost importance to the HAO project, and this paper is a direct response to questions that arose from project workshops. In a concerted attempt to surmount barriers of understanding, especially regarding the format, utility, and development of the HAO, we discuss the roles of homology, "preferred terms", and "structural equivalency". We also outline the use of Universal Resource Identifiers (URIs) and posit that they are a key element necessary for increasing the objectivity and repeatability of science that references hymenopteran anatomy. Pragmatically, we detail a mechanism (the "URI table") by which authors can use URIs to link their published text to the HAO, and we describe an associated tool (the "Analyzer") to derive these tables. These tools, and others, are available through the HAO Portal website (http://portal.hymao.org). We conclude by discussing the future of the HAO with respect to digital publication, cross-taxon ontology alignment, the advent of semantic phenotypes, and community-based curation. Copyright Katja C.

AB - Hymenoptera exhibit an incredible diversity of phenotypes, the result of ~240 million years of evolution and the primary subject of more than 250 years of research. Here we describe the history, development, and utility of the Hymenoptera Anatomy Ontology (HAO) and its associated applications. These resources are designed to facilitate accessible and extensible research on hymenopteran phenotypes. Outreach with the hymenopterist community is of utmost importance to the HAO project, and this paper is a direct response to questions that arose from project workshops. In a concerted attempt to surmount barriers of understanding, especially regarding the format, utility, and development of the HAO, we discuss the roles of homology, "preferred terms", and "structural equivalency". We also outline the use of Universal Resource Identifiers (URIs) and posit that they are a key element necessary for increasing the objectivity and repeatability of science that references hymenopteran anatomy. Pragmatically, we detail a mechanism (the "URI table") by which authors can use URIs to link their published text to the HAO, and we describe an associated tool (the "Analyzer") to derive these tables. These tools, and others, are available through the HAO Portal website (http://portal.hymao.org). We conclude by discussing the future of the HAO with respect to digital publication, cross-taxon ontology alignment, the advent of semantic phenotypes, and community-based curation. Copyright Katja C.

U2 - 10.3897/JHR.27.2961

DO - 10.3897/JHR.27.2961

M3 - Journal article

SN - 1070-9428

VL - 27

SP - 67

EP - 88

JO - Journal of Hymenoptera Research

JF - Journal of Hymenoptera Research

IS - 67-88

ER -

A hymenopterists’ guide to the Hymenoptera Anatomy Ontology: utility, clarification, and future directions

Abstract

Adgang til dokumentet

Fingeraftryk

Citationsformater