Literature DB >> 29993603

Lineage: Visualizing Multivariate Clinical Data in Genealogy Graphs.

Carolina Nobre, Nils Gehlenborg, Hilary Coon, Alexander Lex.   

Abstract

The majority of diseases that are a significant challenge for public and individual heath are caused by a combination of hereditary and environmental factors. In this paper we introduce Lineage, a novel visual analysis tool designed to support domain experts who study such multifactorial diseases in the context of genealogies. Incorporating familial relationships between cases with other data can provide insights into shared genomic variants and shared environmental exposures that may be implicated in such diseases. We introduce a data and task abstraction, and argue that the problem of analyzing such diseases based on genealogical, clinical, and genetic data can be mapped to a multivariate graph visualization problem. The main contribution of our design study is a novel visual representation for tree-like, multivariate graphs, which we apply to genealogies and clinical data about the individuals in these families. We introduce data-driven aggregation methods to scale to multiple families. By designing the genealogy graph layout to align with a tabular view, we are able to incorporate extensive, multivariate attributes in the analysis of the genealogy without cluttering the graph. We validate our designs by conducting case studies with our domain collaborators.

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Year:  2018        PMID: 29993603      PMCID: PMC6170727          DOI: 10.1109/TVCG.2018.2811488

Source DB:  PubMed          Journal:  IEEE Trans Vis Comput Graph        ISSN: 1077-2626            Impact factor:   4.579


  40 in total

1.  GeneaQuilts: a system for exploring large genealogies.

Authors:  Anastasia Bezerianos; Pierre Dragicevic; Jean-Daniel Fekete; Juhee Bae; Ben Watson
Journal:  IEEE Trans Vis Comput Graph       Date:  2010 Nov-Dec       Impact factor: 4.579

2.  Design Study Methodology: Reflections from the Trenches and the Stacks.

Authors:  M Sedlmair; M Meyer; T Munzner
Journal:  IEEE Trans Vis Comput Graph       Date:  2012-12       Impact factor: 4.579

3.  Standardized human pedigree nomenclature: update and assessment of the recommendations of the National Society of Genetic Counselors.

Authors:  Robin L Bennett; Kathryn Steinhaus French; Robert G Resta; Debra Lochner Doyle
Journal:  J Genet Couns       Date:  2008-09-16       Impact factor: 2.537

4.  Acute air pollution exposure and risk of suicide completion.

Authors:  Amanda V Bakian; Rebekah S Huber; Hilary Coon; Douglas Gray; Phillip Wilson; William M McMahon; Perry F Renshaw
Journal:  Am J Epidemiol       Date:  2015-02-10       Impact factor: 4.897

5.  Method for calculating risk associated with family history of a disease.

Authors:  R A Kerber
Journal:  Genet Epidemiol       Date:  1995       Impact factor: 2.135

6.  Pathfinder: Visual Analysis of Paths in Graphs.

Authors:  C Partl; S Gratzl; M Streit; A M Wassermann; H Pfister; D Schmalstieg; A Lex
Journal:  Comput Graph Forum       Date:  2016-07-04       Impact factor: 2.078

7.  Helium: visualization of large scale plant pedigrees.

Authors:  Paul D Shaw; Martin Graham; Jessie Kennedy; Iain Milne; David F Marshall
Journal:  BMC Bioinformatics       Date:  2014-08-01       Impact factor: 3.169

8.  Shared genomic segment analysis: the power to find rare disease variants.

Authors:  Stacey Knight; Ryan P Abo; Haley J Abel; Deborah W Neklason; Therese M Tuohy; Randall W Burt; Alun Thomas; Nicola J Camp
Journal:  Ann Hum Genet       Date:  2012-09-19       Impact factor: 1.670

9.  Contribution of copy number variants to schizophrenia from a genome-wide study of 41,321 subjects.

Authors:  Christian R Marshall; Daniel P Howrigan; Daniele Merico; Bhooma Thiruvahindrapuram; Wenting Wu; Douglas S Greer; Danny Antaki; Aniket Shetty; Peter A Holmans; Dalila Pinto; Madhusudan Gujral; William M Brandler; Dheeraj Malhotra; Zhouzhi Wang; Karin V Fuentes Fajarado; Michelle S Maile; Stephan Ripke; Ingrid Agartz; Margot Albus; Madeline Alexander; Farooq Amin; Joshua Atkins; Silviu A Bacanu; Richard A Belliveau; Sarah E Bergen; Marcelo Bertalan; Elizabeth Bevilacqua; Tim B Bigdeli; Donald W Black; Richard Bruggeman; Nancy G Buccola; Randy L Buckner; Brendan Bulik-Sullivan; William Byerley; Wiepke Cahn; Guiqing Cai; Murray J Cairns; Dominique Campion; Rita M Cantor; Vaughan J Carr; Noa Carrera; Stanley V Catts; Kimberley D Chambert; Wei Cheng; C Robert Cloninger; David Cohen; Paul Cormican; Nick Craddock; Benedicto Crespo-Facorro; James J Crowley; David Curtis; Michael Davidson; Kenneth L Davis; Franziska Degenhardt; Jurgen Del Favero; Lynn E DeLisi; Dimitris Dikeos; Timothy Dinan; Srdjan Djurovic; Gary Donohoe; Elodie Drapeau; Jubao Duan; Frank Dudbridge; Peter Eichhammer; Johan Eriksson; Valentina Escott-Price; Laurent Essioux; Ayman H Fanous; Kai-How Farh; Martilias S Farrell; Josef Frank; Lude Franke; Robert Freedman; Nelson B Freimer; Joseph I Friedman; Andreas J Forstner; Menachem Fromer; Giulio Genovese; Lyudmila Georgieva; Elliot S Gershon; Ina Giegling; Paola Giusti-Rodríguez; Stephanie Godard; Jacqueline I Goldstein; Jacob Gratten; Lieuwe de Haan; Marian L Hamshere; Mark Hansen; Thomas Hansen; Vahram Haroutunian; Annette M Hartmann; Frans A Henskens; Stefan Herms; Joel N Hirschhorn; Per Hoffmann; Andrea Hofman; Hailiang Huang; Masashi Ikeda; Inge Joa; Anna K Kähler; René S Kahn; Luba Kalaydjieva; Juha Karjalainen; David Kavanagh; Matthew C Keller; Brian J Kelly; James L Kennedy; Yunjung Kim; James A Knowles; Bettina Konte; Claudine Laurent; Phil Lee; S Hong Lee; Sophie E Legge; Bernard Lerer; Deborah L Levy; Kung-Yee Liang; Jeffrey Lieberman; Jouko Lönnqvist; Carmel M Loughland; Patrik K E Magnusson; Brion S Maher; Wolfgang Maier; Jacques Mallet; Manuel Mattheisen; Morten Mattingsdal; Robert W McCarley; Colm McDonald; Andrew M McIntosh; Sandra Meier; Carin J Meijer; Ingrid Melle; Raquelle I Mesholam-Gately; Andres Metspalu; Patricia T Michie; Lili Milani; Vihra Milanova; Younes Mokrab; Derek W Morris; Bertram Müller-Myhsok; Kieran C Murphy; Robin M Murray; Inez Myin-Germeys; Igor Nenadic; Deborah A Nertney; Gerald Nestadt; Kristin K Nicodemus; Laura Nisenbaum; Annelie Nordin; Eadbhard O'Callaghan; Colm O'Dushlaine; Sang-Yun Oh; Ann Olincy; Line Olsen; F Anthony O'Neill; Jim Van Os; Christos Pantelis; George N Papadimitriou; Elena Parkhomenko; Michele T Pato; Tiina Paunio; Diana O Perkins; Tune H Pers; Olli Pietiläinen; Jonathan Pimm; Andrew J Pocklington; John Powell; Alkes Price; Ann E Pulver; Shaun M Purcell; Digby Quested; Henrik B Rasmussen; Abraham Reichenberg; Mark A Reimers; Alexander L Richards; Joshua L Roffman; Panos Roussos; Douglas M Ruderfer; Veikko Salomaa; Alan R Sanders; Adam Savitz; Ulrich Schall; Thomas G Schulze; Sibylle G Schwab; Edward M Scolnick; Rodney J Scott; Larry J Seidman; Jianxin Shi; Jeremy M Silverman; Jordan W Smoller; Erik Söderman; Chris C A Spencer; Eli A Stahl; Eric Strengman; Jana Strohmaier; T Scott Stroup; Jaana Suvisaari; Dragan M Svrakic; Jin P Szatkiewicz; Srinivas Thirumalai; Paul A Tooney; Juha Veijola; Peter M Visscher; John Waddington; Dermot Walsh; Bradley T Webb; Mark Weiser; Dieter B Wildenauer; Nigel M Williams; Stephanie Williams; Stephanie H Witt; Aaron R Wolen; Brandon K Wormley; Naomi R Wray; Jing Qin Wu; Clement C Zai; Rolf Adolfsson; Ole A Andreassen; Douglas H R Blackwood; Elvira Bramon; Joseph D Buxbaum; Sven Cichon; David A Collier; Aiden Corvin; Mark J Daly; Ariel Darvasi; Enrico Domenici; Tõnu Esko; Pablo V Gejman; Michael Gill; Hugh Gurling; Christina M Hultman; Nakao Iwata; Assen V Jablensky; Erik G Jönsson; Kenneth S Kendler; George Kirov; Jo Knight; Douglas F Levinson; Qingqin S Li; Steven A McCarroll; Andrew McQuillin; Jennifer L Moran; Bryan J Mowry; Markus M Nöthen; Roel A Ophoff; Michael J Owen; Aarno Palotie; Carlos N Pato; Tracey L Petryshen; Danielle Posthuma; Marcella Rietschel; Brien P Riley; Dan Rujescu; Pamela Sklar; David St Clair; James T R Walters; Thomas Werge; Patrick F Sullivan; Michael C O'Donovan; Stephen W Scherer; Benjamin M Neale; Jonathan Sebat
Journal:  Nat Genet       Date:  2016-11-21       Impact factor: 38.330

10.  enRoute: dynamic path extraction from biological pathway maps for exploring heterogeneous experimental datasets.

Authors:  Christian Partl; Alexander Lex; Marc Streit; Denis Kalkofen; Karl Kashofer; Dieter Schmalstieg
Journal:  BMC Bioinformatics       Date:  2013-11-12       Impact factor: 3.169

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  1 in total

1.  Juniper: A Tree+ Table Approach to Multivariate Graph Visualization.

Authors:  Carolina Nobre; Marc Streit; Alexander Lex
Journal:  IEEE Trans Vis Comput Graph       Date:  2018-09-03       Impact factor: 4.579

  1 in total

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