Comparing bioinformatics software development by computer scientists and biologists: An exploratory study

We present the results of a study designed to better understand information-seeking activities in bioinformatics software development by computer scientists and biologists. We collected data through semi-structured interviews with eight participants from four different bioinformatics labs in North America. The research focus within these labs ranged from computational biology to applied molecular biology and biochemistry. The findings indicate that colleagues play a significant role in information seeking activities, but there is need for better methods of capturing and retaining information from them during development. Also, in terms of online information sources, there is need for more centralization, improved access and organization of resources, and more consistency among formats. More broadly, the findings illustrate a variety of information problems that end-user biologists and professional software developers face in developing bioinformatics software and how they are influenced by the level of domain knowledge and technical expertise.

[1]  C. Palmer Work at the Boundaries of Science , 2001, Springer Netherlands.

[2]  Catherine Letondal,et al.  Participatory Programming: Developing Programmable Bioinformatics Tools for End-Users , 2006, End User Development.

[3]  P. Chisnall Qualitative Interviewing: The Art of Hearing Data , 1996 .

[4]  H. Rubin,et al.  Qualitative Interviewing (2nd ed.): The Art of Hearing Data , 2005 .

[5]  W. John MacMullen,et al.  Information problems in molecular biology and bioinformatics , 2005, J. Assoc. Inf. Sci. Technol..

[6]  H. Rubin,et al.  Qualitative Interviewing: The Art of Hearing Data , 1995 .

[7]  Robert S. Taylor,et al.  Information use environments. , 1991 .

[8]  Matthew B. Miles,et al.  Qualitative Data Analysis: An Expanded Sourcebook , 1994 .

[9]  W. John MacMullen,et al.  Information problems in molecular biology and bioinformatics: Research Articles , 2005 .

[10]  Carole L. Palmer,et al.  Weak Information Work and "Doable" Problems in Interdisciplinary Science , 2007, ASIST.

[11]  Robert S. Taylor,et al.  Problem dimensions and information traits , 1984, Inf. Soc..

[12]  Robert DeLine,et al.  Information Needs in Collocated Software Development Teams , 2007, 29th International Conference on Software Engineering (ICSE'07).

[13]  Elaine Toms,et al.  Developing a protocol for bioinformatics analysis: An integrated information behavior and task analysis approach , 2005, J. Assoc. Inf. Sci. Technol..

[14]  Allan Beveridge,et al.  An Object-Oriented Programming System for the Integration of Internet-Based Bioinformatics Resources , 2006, Applied bioinformatics.

[15]  Steven G. Parker,et al.  Biomedical computing and visualization software environments , 2004, CACM.

[16]  Elaine G. Toms,et al.  Developing a protocol for bioinformatics analysis: An integrated information behavior and task analysis approach: Research Articles , 2005 .

[17]  Michael Travers,et al.  BioLingua: a programmable knowledge environment for biologists , 2005, Bioinform..

[18]  C. Seaman,et al.  Informing Design of a Search Tool for Bioinformatics , 2008 .

[19]  Dat Tran,et al.  Applying Task Analysis to Describe and Facilitate Bioinformatics Tasks , 2004, MedInfo.

[20]  Carole L. Palmer,et al.  Work at the Boundaries of Science: Information and the Interdisciplinary Research Process , 2001 .