Justin Zobel

GeneMates: an R package for detecting horizontal gene co-transfer between bacteria using gene-gene associations controlled for population structure

Yu Wan, Ryan R Wick, Justin Zobel, Danielle J Ingle, Michael Inouye, Kathryn E Holt

Journal article  |  2020  |  BMC Genomics

BACKGROUND: Horizontal gene transfer contributes to bacterial evolution through mobilising genes across various taxonomical bounda..

Quality Matters: Biocuration Experts on the Impact of Duplication and Other Data Quality Issues in Biological Databases.

Qingyu Chen, Ramona Britto, Ivan Erill, Constance J Jeffery, Arthur Liberzon, Michele Magrane, Jun-Ichi Onami, Marc Robinson-Rechavi, Jana Sponarova, Justin Zobel, Karin Verspoor

Journal article  |  2020  |  Genomics, Proteomics & Bioinformatics

Biological databases represent an extraordinary collective volume of work. Diligently built up over decades and comprising many mi..

GeneMates: an R package for Detecting Horizontal Gene Co-transfer between Bacteria Using Gene-gene Associations Controlled for Population Structure

Yu Wan, Ryan Wick, Justin Zobel, Danielle Ingle, Michael Inouye, Kathryn Holt

Journal article  |  2020

Abstract Antimicrobial resistance (AMR) in bacteria has been a global threat to public health for decades. A well-known driving fo..

Generation of Synthetic Query Auto Completion Logs

U Krishnan, A Moffat, J Zobel, B Billerbeck

Conference Proceedings  |  2020  |  Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

Privacy concerns can prohibit research access to large-scale commercial query logs. Here we focus on generation of a synthetic log..

Exploring effective approaches for haplotype block phasing.

Ziad Al Bkhetan, Justin Zobel, Adam Kowalczyk, Karin Verspoor, Benjamin Goudey

Journal article  |  2019  |  BMC Bioinformatics

BACKGROUND: Knowledge of phase, the specific allele sequence on each copy of homologous chromosomes, is increasingly recognized as..

Quality Matters: Biocuration Experts on the Impact of Duplication and Other Data Quality Issues in Biological Databases

Qingyu Chen, Ramona Britto, Ivan Erill, Constance J. Jeffery, Arthur Liberzon, Michele Magrane, Jun-ichi Onami, Marc Robinson-Rechavi, Jana Sponarova, Justin Zobel, Karin Verspoor

Journal article  |  2019

Abstract The volume of biological database records is growing rapidly, populated by complex records drawn from heterogeneous sourc..

Abstraction of query auto completion logs for anonymity-preserving analysis

Unni Krishnan, Bodo Billerbeck, Alistair Moffat, Justin Zobel

Journal article  |  2019  |  Information Retrieval Journal

Query auto completion (QAC) is used in search interfaces to interactively offer a list of suggestions to users as they enter queri..

Automated assessment of biological database assertions using the scientific literature

Mohamed Reda Bouadjenek, Justin Zobel, Karin Verspoor

Journal article  |  2019  |  BMC Bioinformatics

Background The large biological databases such as GenBank contain vast numbers of records, the content of which is substantively b..

Modeling user actions in job search

AF Wicaksono, A Moffat, J Zobel

Conference Proceedings  |  2019  |  Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)

© Springer Nature Switzerland AG 2019. Users of online job search tools interact with result pages in three different ways: via im..

Search Effectiveness in Nonredundant Sequence Databases: Assessments and Solutions.

Qingyu Chen, Xiuzhen Zhang, Yu Wan, Justin Zobel, Karin Verspoor

Journal article  |  2018  |  Journal of Computational Biology

Duplicate sequence records-that is, records having similar or identical sequences-are a challenge in search of biological sequence..