G-nome surfer: a tabletop interface for collaborative exploration of genomic data

Molecular and computational biologists develop new insights by gathering heterogeneous data from genomic databases and leveraging bioinformatics tools. Through a qualitative study with 17 participants, we found that molecular and computational biologists experience difficulties interpreting, comparing, annotating, sharing, and relating this vast amount of biological information. We further observed that such interactions are critical for forming new scientific hypotheses. These observations motivated the creation of G-nome Surfer, a tabletop interface for collaborative exploration of genomic data that implements multi-touch and tangible interaction techniques. G-nome Surfer was developed in close collaboration with domain scientists and is aimed at lowering the threshold for using bioinformatics tools. 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.

[1]  Frederick P. Brooks,et al.  Project GROPEHaptic displays for scientific visualization , 1990, SIGGRAPH.

[2]  Hiroshi Ishii,et al.  A comparison of spatial organization strategies in graphical and tangible user interfaces , 2000, DARE '00.

[3]  Gaetano Borriello,et al.  Labscape: A Smart Environment for the Cell Biology Laboratory , 2002, IEEE Pervasive Comput..

[4]  David S. Goodsell,et al.  Augmented reality with tangible auto-fabricated models for molecular biology applications , 2004, IEEE Visualization 2004.

[5]  Hiroshi Ishii,et al.  Immersive design of DMA molecules with a tangible interface , 2004, IEEE Visualization 2004.

[6]  Chris North,et al.  An insight-based methodology for evaluating bioinformatics visualizations , 2005, IEEE Transactions on Visualization and Computer Graphics.

[7]  Scott R. Klemmer,et al.  ButterflyNet: a mobile capture and access system for field biology research , 2006, CHI.

[8]  Meredith Ringel Morris,et al.  Experiences with and observations of direct-touch tabletops , 2006, First IEEE International Workshop on Horizontal Interactive Human-Computer Systems (TABLETOP '06).

[9]  Meredith Ringel Morris,et al.  Reading Revisited: Evaluating the Usability of Digital Display Surfaces for Active Reading Tasks , 2007, Second Annual IEEE International Workshop on Horizontal Interactive Human-Computer Systems (TABLETOP'07).

[10]  Ahmed Seffah,et al.  Refining the Usability Engineering Toolbox: Lessons Learned from a User Study on a Visualization Tool , 2007, USAB.

[11]  Philip E. Bourne,et al.  Computational Biology Resources Lack Persistence and Usability , 2008, PLoS Comput. Biol..

[12]  Orit Shaer,et al.  Reality-based interaction: a framework for post-WIMP interfaces , 2008, CHI.

[13]  Patrick Reuter,et al.  GeoTUI: a tangible user interface for geoscience , 2008, TEI.

[14]  Yvonne Rogers,et al.  Collaboration and interference: awareness with mice or touch input , 2008, CSCW.

[15]  E. Mardis The impact of next-generation sequencing technology on genetics. , 2008, Trends in genetics : TIG.

[16]  M. Cline,et al.  Understanding genome browsing , 2009, Nature Biotechnology.

[17]  Michael S. Horn,et al.  Visualizing Biodiversity with Voronoi Treemaps , 2009, 2009 Sixth International Symposium on Voronoi Diagrams.

[18]  Abigail Sellen,et al.  Putting the physical into the digital: issues in designing hybrid interactive surfaces , 2009, BCS HCI.

[19]  L. Stein,et al.  JBrowse: a next-generation genome browser. , 2009, Genome research.

[20]  Vito Perrone,et al.  Better bioinformatics through usability analysis , 2009, Bioinform..

[21]  Hao Jiang,et al.  WeSpace: the design development and deployment of a walk-up and share multi-surface visual collaboration system , 2009, CHI.

[22]  Barbara Mirel,et al.  Supporting cognition in systems biology analysis: findings on users' processes and design implications , 2009, Journal of biomedical discovery and collaboration.