activity
20112024
most citedLarge-scale generation of computational models from biochemical pathway maps

185 citations · 336 across the 8 of their papers we have counts for

collaborators

9 papers

cs.HC2024★ 3 cited

Putting Our Minds Together: Iterative Exploration for Collaborative Mind Mapping

Ying Yang, Tim Dwyer, Zachari Swiecki +6

We delineate the development of a mind-mapping system designed concurrently for both VR and desktop platforms. Employing an iterative methodology with groups of users, we systemati…

cs.HC2022★ 37 cited

Towards Immersive Collaborative Sensemaking

Ying Yang, Tim Dwyer, Michael Wybrow +4

When collaborating face-to-face, people commonly use the surfaces and spaces around them to perform sensemaking tasks, such as spatially organising documents, notes or images. Howe…

cs.HC2020★ 58 cited

Scalability of Network Visualisation from a Cognitive Load Perspective

Vahan Yoghourdjian, Yalong Yang, Tim Dwyer +3

Node-link diagrams are widely used to visualise networks. However, even the best network layout algorithms ultimately result in 'hairball' visualisations when the graph reaches a c…

cs.AI2020★ 46 cited

BARD: A structured technique for group elicitation of Bayesian networks to support analytic reasoning

Ann E. Nicholson, Kevin B. Korb, Erik P. Nyberg +13

In many complex, real-world situations, problem solving and decision making require effective reasoning about causation and uncertainty. However, human reasoning in these cases is…

cs.HC2019★ 7 cited

OntoPlot: A Novel Visualisation for Non-hierarchical Associations in Large Ontologies

Ying Yang, Michael Wybrow, Yuan-Fang Li +2

Ontologies are formal representations of concepts and complex relationships among them. They have been widely used to capture comprehensive domain knowledge in areas such as biolog…

cs.OH2014

Stress-Minimizing Orthogonal Layout of Data Flow Diagrams with Ports

Ulf Rüegg, Steve Kieffer, Tim Dwyer +2

We present a fundamentally different approach to orthogonal layout of data flow diagrams with ports. This is based on extending constrained stress majorization to cater for ports a…

cs.HC2013

Incremental Grid-like Layout Using Soft and Hard Constraints

Steve Kieffer, Tim Dwyer, Kim Marriott +1

We explore various techniques to incorporate grid-like layout conventions into a force-directed, constraint-based graph layout framework. In doing so we are able to provide high-qu…

q-bio.MN2013★ 185 cited

Large-scale generation of computational models from biochemical pathway maps

Finja Büchel, Nicolas Rodriguez, Neil Swainston +23

Background: Systems biology projects and omics technologies have led to a growing number of biochemical pathway reconstructions. However, mathematical models are still most often c…

cs.DS2011

The Open Graph Archive: A Community-Driven Effort

Christian Bachmaier, Franz J. Brandenburg, Philip Effinger +6

In order to evaluate, compare, and tune graph algorithms, experiments on well designed benchmark sets have to be performed. Together with the goal of reproducibility of experimenta…