K
Karin Verspoor
Researcher at University of Melbourne
Publications - 312
Citations - 8256
Karin Verspoor is an academic researcher from University of Melbourne. The author has contributed to research in topics: Computer science & Information extraction. The author has an hindex of 38, co-authored 274 publications receiving 6798 citations. Previous affiliations of Karin Verspoor include University of Colorado Boulder & Los Alamos National Laboratory.
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Journal ArticleDOI
A large-scale evaluation of computational protein function prediction
Predrag Radivojac,Wyatt T. Clark,Tal Ronnen Oron,Alexandra M. Schnoes,Tobias Wittkop,Artem Sokolov,Artem Sokolov,Kiley Graim,Christopher S. Funk,Karin Verspoor,Asa Ben-Hur,Gaurav Pandey,Gaurav Pandey,Jeffrey M. Yunes,Ameet Talwalkar,Susanna Repo,Susanna Repo,Michael L Souza,Damiano Piovesan,Rita Casadio,Zheng Wang,Jianlin Cheng,Hai Fang,Julian Gough,Patrik Koskinen,Petri Törönen,Jussi Nokso-Koivisto,Liisa Holm,Domenico Cozzetto,Daniel W. A. Buchan,Kevin Bryson,David T. Jones,Bhakti Limaye,Harshal Inamdar,Avik Datta,Sunitha K Manjari,Rajendra Joshi,Meghana Chitale,Daisuke Kihara,Andreas Martin Lisewski,Serkan Erdin,Eric Venner,Olivier Lichtarge,Robert Rentzsch,Haixuan Yang,Alfonso E. Romero,Prajwal Bhat,Alberto Paccanaro,Tobias Hamp,Rebecca Kaßner,Stefan Seemayer,Esmeralda Vicedo,Christian Schaefer,Dominik Achten,Florian Auer,Ariane Boehm,Tatjana Braun,Maximilian Hecht,Mark Heron,Peter Hönigschmid,Thomas A. Hopf,Stefanie Kaufmann,Michael Kiening,Denis Krompass,Cedric Landerer,Yannick Mahlich,Manfred Roos,Jari Björne,Tapio Salakoski,Andrew Wong,Hagit Shatkay,Hagit Shatkay,Fanny Gatzmann,Ingolf Sommer,Mark N. Wass,Michael J.E. Sternberg,Nives Škunca,Fran Supek,Matko Bošnjak,Panče Panov,Sašo Džeroski,Tomislav Šmuc,Yiannis A. I. Kourmpetis,Yiannis A. I. Kourmpetis,Aalt D. J. van Dijk,Cajo J. F. ter Braak,Yuanpeng Zhou,Qingtian Gong,Xinran Dong,Weidong Tian,Marco Falda,Paolo Fontana,Enrico Lavezzo,Barbara Di Camillo,Stefano Toppo,Liang Lan,Nemanja Djuric,Yuhong Guo,Slobodan Vucetic,Amos Marc Bairoch,Amos Marc Bairoch,Michal Linial,Patricia C. Babbitt,Steven E. Brenner,Christine A. Orengo,Burkhard Rost,Sean D. Mooney,Iddo Friedberg +107 more
TL;DR: Today's best protein function prediction algorithms substantially outperform widely used first-generation methods, with large gains on all types of targets, and there is considerable need for improvement of currently available tools.
Proceedings ArticleDOI
Findings of the 2016 Conference on Machine Translation
Ondˇrej Bojar,Rajen Chatterjee,Christian Federmann,Yvette Graham,Barry Haddow,Matthias Huck,Antonio Jimeno Yepes,Philipp Koehn,Varvara Logacheva,Christof Monz,Matteo Negri,Aurélie Névéol,Mariana Neves,Martin Popel,Matt Post,Raphael Rubino,Carolina Scarton,Lucia Specia,Marco Turchi,Karin Verspoor,Marcos Zampieri +20 more
TL;DR: The results of the WMT16 shared tasks are presented, which included five machine translation (MT) tasks (standard news, IT-domain, biomedical, multimodal, pronoun), three evaluation tasks (metrics, tuning, run-time estimation of MT quality), and an automatic post-editing task and bilingual document alignment task.
Journal ArticleDOI
The CHEMDNER corpus of chemicals and drugs and its annotation principles.
Martin Krallinger,Obdulia Rabal,Florian Leitner,Miguel Vazquez,David Salgado,Zhiyong Lu,Robert Leaman,Yanan Lu,Donghong Ji,Daniel M. Lowe,Roger A. Sayle,Riza Theresa Batista-Navarro,Rafal Rak,Torsten Huber,Tim Rocktäschel,Sérgio Matos,David Campos,Buzhou Tang,Hua Xu,Tsendsuren Munkhdalai,Keun Ho Ryu,S. V. Ramanan,Senthil Nathan,Slavko Žitnik,Marko Bajec,Lutz Weber,Matthias Irmer,Saber A. Akhondi,Jan A. Kors,Shuo Xu,Xin An,Utpal Kumar Sikdar,Asif Ekbal,Masaharu Yoshioka,Thaer M. Dieb,Miji Choi,Karin Verspoor,Madian Khabsa,C. Lee Giles,Hongfang Liu,Komandur Elayavilli Ravikumar,Andre Lamurias,Francisco M. Couto,Hong-Jie Dai,Richard Tzong-Han Tsai,Caglar Ata,Tolga Can,Anabel Usié,Rui Alves,Isabel Segura-Bedmar,Paloma Martínez,Julen Oyarzabal,Alfonso Valencia +52 more
TL;DR: The CHEMDNER corpus is presented, a collection of 10,000 PubMed abstracts that contain a total of 84,355 chemical entity mentions labeled manually by expert chemistry literature curators, following annotation guidelines specifically defined for this task.
Journal ArticleDOI
An expanded evaluation of protein function prediction methods shows an improvement in accuracy
Yuxiang Jiang,Tal Ronnen Oron,Wyatt T. Clark,Asma R. Bankapur,Daniel D'Andrea,Rosalba Lepore,Christopher S. Funk,Indika Kahanda,Karin Verspoor,Asa Ben-Hur,Da Chen Emily Koo,Duncan Penfold-Brown,Dennis Shasha,Noah Youngs,Richard Bonneau,Alexandra Lin,Sayed Mohammad Ebrahim Sahraeian,Pier Luigi Martelli,Giuseppe Profiti,Rita Casadio,Renzhi Cao,Zhaolong Zhong,Jianlin Cheng,Adrian M. Altenhoff,Adrian M. Altenhoff,Nives Škunca,Nives Škunca,Christophe Dessimoz,Christophe Dessimoz,Christophe Dessimoz,Tunca Doğan,Kai Hakala,Suwisa Kaewphan,Farrokh Mehryary,Tapio Salakoski,Filip Ginter,Hai Fang,Ben Smithers,Matt E. Oates,Julian Gough,Petri Törönen,Patrik Koskinen,Liisa Holm,Ching-Tai Chen,Wen-Lian Hsu,Kevin Bryson,Domenico Cozzetto,Federico Minneci,David T. Jones,Samuel Chapman,Dukka Bkc,Ishita K. Khan,Daisuke Kihara,Dan Ofer,Nadav Rappoport,Amos Stern,Elena Cibrian-Uhalte,Paul Denny,Rebecca E. Foulger,Reija Hieta,Duncan Legge,Ruth C. Lovering,Michele Magrane,Anna N. Melidoni,Prudence Mutowo-Meullenet,Klemens Pichler,Aleksandra Shypitsyna,Biao Li,Pooya Zakeri,Pooya Zakeri,Sarah ElShal,Sarah ElShal,Léon-Charles Tranchevent,Léon-Charles Tranchevent,Sayoni Das,Natalie L. Dawson,David A. Lee,Jonathan G. Lees,Ian Sillitoe,Prajwal Bhat,Tamás Nepusz,Alfonso E. Romero,Rajkumar Sasidharan,Haixuan Yang,Alberto Paccanaro,Jesse Gillis,Adriana E. Sedeno-Cortes,Paul Pavlidis,Shou Feng,Juan Miguel Cejuela,Tatyana Goldberg,Tobias Hamp,Lothar Richter,Asaf Salamov,Toni Gabaldón,Toni Gabaldón,Marina Marcet-Houben,Fran Supek,Fran Supek,Qingtian Gong,Wei Ning,Yuanpeng Zhou,Weidong Tian,Marco Falda,Paolo Fontana,Enrico Lavezzo,Stefano Toppo,Carlo Ferrari,Manuel Giollo,Damiano Piovesan,Silvio C. E. Tosatto,Angela del Pozo,José M. Fernández,Paolo Maietta,Alfonso Valencia,Michael L. Tress,Alfredo Benso,Stefano Di Carlo,Gianfranco Politano,Alessandro Savino,Hafeez Ur Rehman,Matteo Re,Marco Mesiti,Giorgio Valentini,Joachim W. Bargsten,Aalt D. J. van Dijk,Branislava Gemovic,Sanja Glisic,Vladmir Perovic,Veljko Veljkovic,Nevena Veljkovic,Danillo C Almeida-E-Silva,Ricardo Z. N. Vêncio,Malvika Sharan,Jörg Vogel,Lakesh Kansakar,Shanshan Zhang,Slobodan Vucetic,Zheng Wang,Michael J.E. Sternberg,Mark N. Wass,Rachael P. Huntley,Maria Jesus Martin,Claire O'Donovan,Peter N. Robinson,Yves Moreau,Anna Tramontano,Patricia C. Babbitt,Steven E. Brenner,Michal Linial,Christine A. Orengo,Burkhard Rost,Casey S. Greene,Sean D. Mooney,Iddo Friedberg,Iddo Friedberg,Predrag Radivojac +156 more
TL;DR: The second critical assessment of functional annotation (CAFA), a timed challenge to assess computational methods that automatically assign protein function, was conducted by as mentioned in this paper. But the results of the CAFA2 assessment are limited.
Journal ArticleDOI
Concept annotation in the CRAFT corpus
Michael Bada,Miriam R. Eckert,Donald Evans,Kristin Garcia,Krista Shipley,Dmitry Sitnikov,William A. Baumgartner,K. Bretonnel Cohen,Karin Verspoor,Judith A. Blake,Lawrence Hunter +10 more
TL;DR: The concept annotations of the Colorado Richly Annotated Full-Text (CRAFT) Corpus have the potential to significantly advance biomedical text mining by providing a high-quality gold standard for NLP systems.