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Visualizing Biodiversity with Voronoi Treemaps
2009
2009 Sixth International Symposium on Voronoi Diagrams
Introduced in 2005, the Voronoi treemap algorithm is an information visualization technique for displaying hierarchical data. ...
In this paper, we present a multi-touch tabletop application called Involv that uses the Voronoi treemap algorithm to create an interactive visualization for the Encyclopedia of Life. ...
ACKNOWLEDGMENTS We thank James Hanken from the Department of Organismic Evolutionary Biology at Harvard for his early discussions on the importance of visualizing phylogeny together with our initial taxonomy ...
doi:10.1109/isvd.2009.22
dblp:conf/isvd/HornTS09
fatcat:ugl4q2ntpjczdk6fe32o3cwibi
An Approach to Generate Spatial Voronoi Treemaps for Points, Lines, and Polygons
2015
Journal of Electrical and Computer Engineering
As a space-filling method, Voronoi Treemaps are used for showcasing hierarchies. Previously presented algorithms are limited to visualize nonspatial data. ...
The approach of spatial Voronoi Treemaps is proposed in this paper to eliminate these problems by enabling the subdivisions for points, lines, and polygons with spatial coordinates and references. ...
Subsequently, approaches to visualize the hierarchies with the nonrectangular regions were addressed, such as Voronoi Treemaps [11, 12] , Jigsaw Treemaps [13] , and Circular Treemaps [14] . ...
doi:10.1155/2015/787163
fatcat:t5w76vskqbgorn3qjkvc3li5sy
Indented Pixel Tree Browser for Exploring Huge Hierarchies
[chapter]
2011
Lecture Notes in Computer Science
By representing tree structures side-by-side, the viewer can easily compare them visually and detect similar patterns and also anomalies. ...
We exploit the indented visual metaphor to map tree structures to one-dimensional zigzag curves to primarily achieve an overview representation for the entire hierarchy. ...
[19] , cushion treemaps by van Wijk and van de Wetering [20] , or Voronoi treemaps by Balzer et al. [21] . ...
doi:10.1007/978-3-642-24028-7_28
fatcat:bl2hvetrdjgrjilhxeic6l6xpi
DevoWorm: data-theoretical synthesis of C. elegans development
[article]
2018
bioRxiv
pre-print
Compared with the great diversity and plasticity found across the tree of life, Caenorhabditis elegans development is a rather unique model system. ...
C. elegans biology provides us with a highly-deterministic developmental cell lineage, and a clear linkage from zygote to cells of the adult phenotype. ...
Voronoi treemaps and Voronoi diagrams more generally have been applied to the study of embryogenesis [18] and biodiversity [19] . ...
doi:10.1101/282004
fatcat:vzmkmtlhrjhlllbdyv7bha4nd4
Visualisation with treemaps and sunbursts in many-objective optimisation
2018
Genetic Programming and Evolvable Machines
trees with which to represent multi- and many-objective solutions. ...
The presentation of the complex data arising in many-objective evolutionary algorithms remains a challenge, and this work examines the use of treemaps and sunbursts for visualising such data. ...
organisms [2] and biodiversity [22] . ...
doi:10.1007/s10710-018-9329-0
pmid:30956541
pmcid:PMC6417388
fatcat:7ophklnyuzht7l4ts7mycklgoy
Soil and leaf litter metaproteomics—a brief guideline from sampling to understanding
2016
FEMS Microbiology Ecology
Voronoi Treemaps. Voronoi treemaps can visualize highly complex hierarchically organized data in a space optimized manner. ...
Voronoi treemaps have proven to be an excellent tool to visualize hierarchical data structures in a space optimized manner (Fig. 3) . ...
doi:10.1093/femsec/fiw180
pmid:27549116
pmcid:PMC5026301
fatcat:inxu4czxtzcbvjw7v43egtstze
In Silico Mining of Terpenes from Red-Sea Invertebrates for SARS-CoV-2 Main Protease (Mpro) Inhibitors
2021
Molecules
Two hundred and twenty-seven terpene natural products isolated from the biodiverse Red-Sea ecosystem were screened for inhibitor activity against the SARS-CoV-2 main protease (Mpro) using molecular docking ...
On the basis of in silico analyses, six terpenes demonstrated high potency as Mpro inhibitors with ΔGbinding ≤ −40.0 kcal/mol. ...
A Voronoi treemap of erylosides B (226) top targeted pathway affected by the top 20 gene targets in response to erylosides B (226) in terms of SARS-CoV-2 infection was constructed
Figure 9 . 9 The Voronoi ...
doi:10.3390/molecules26072082
pmid:33916461
pmcid:PMC8038614
fatcat:y337px6s3ndzni5pfweptyqzk4
Mangroves are an overlooked hotspot of insect diversity despite low plant diversity
2021
BMC Biology
We here show how such knowledge gaps can be closed quickly with new cost-effective NGS barcoding techniques. ...
Conclusions The discovery of such a sizeable and distinct insect fauna in a globally threatened habitat underlines how little is known about global insect biodiversity. ...
Special thanks go to the team from the National Biodiversity Centre of NParks for their assistance in fieldwork (Permits: NP/RP12-022-4, NP/RP12-022-5, NP/RP12-022-6). ...
doi:10.1186/s12915-021-01088-z
pmid:34521395
pmcid:PMC8442405
fatcat:zlxjc2qxdvehtaggauoxnsomzm
G-nome surfer
2010
Proceedings of the 28th international conference on Human factors in computing systems - CHI '10
A first-use study with 16 participants found that G-nome Surfer enables users to gain biological insights that are based on multiple forms of evidence with minimal overhead. ...
G-nome Surfer was developed in close collaboration with domain scientists and is aimed at lowering the threshold for using bioinformatics tools. ...
Finally, Involv [9] is a tabletop application that uses the Voronoi treemap algorithm to create an interactive visualization for the Encyclopedia of Life. ...
doi:10.1145/1753326.1753539
dblp:conf/chi/ShaerKSFGE10
fatcat:sapkzxsrurecpejzg7pll4dg7y
Biofilm and Pathogenesis-Related Proteins in the Foodborne P. fluorescens ITEM 17298 With Distinctive Phenotypes During Cold Storage
2020
Frontiers in Microbiology
In order to provide a new insight into phenotypic biodiversity of Pseudomonas spoilers isolated from cold stored cheese, in this work 19 Pseudomonas spp. were investigated for biofilm, pigments, exopolysaccharide ...
In food chain, Pseudomonas spp. cause spoilage by reducing shelf life of fresh products, especially during cold storage, with a high economic burden for industries. ...
FIGURE 1 | 1 Voronoi treemap visualization of P. fluorescens ITEM 17298 protein patterns after treatment with 0.75 mg/mL of HLF in M63 at 15 • C for 72 h. ...
doi:10.3389/fmicb.2020.00991
pmid:32670211
pmcid:PMC7326052
fatcat:icwwh2ex2bgkzlc5jgr4gq7724
Ecology of the Genus Burkholderia in the Soil
2014
We are thankful to Stefanie Heller for help with microscopic observations. ...
Acknowledgements We are grateful to Sandra Maass and Andreas Otto for helping with protein identification by mass spectrometry. ...
Voronoi treemaps visualizing changes in the proteome composition of B. glathei LMG14190 during fungal co-cultivation. ...
doi:10.5167/uzh-101419
fatcat:x4o3aekjqbgwnij4ti7rda52wm
Comparative metabolic modeling and analysis of human pathogens
2019
Here, constraint-based modeling (CBM) was deployed to integrate disparate data types with genome-scale metabolic models (GEMs) to advance our understanding of the pathogenesis of infectious agents with ...
Further, comparative analysis of the essentiality of metabolic genes for V. cholerae, the causative agent of cholera, growth and survival in single and co-infections with other enteric pathogens led to ...
A quantitative assessment of flux magnitude as well as co-set size across the different stages are visualized as Voronoi plots (Figure 2.4a) . ...
doi:10.25781/kaust-9g8os
fatcat:hh5sm4uiq5c7nnyz7uhnkczhg4