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Going Against Goliath 23 rd May 2010. Katrina Kurtz , MLIS Carrie Iwema , PhD, MLS Ansuman Chattopadhyay , PhD Health Sciences Library System University of Pittsburgh http://www.hsls.pitt.edu/guides/genetics. Photo credit: http://www.uncabaret.com/node?page=5. Bioinformatics Tools.
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Going Against Goliath23rd May 2010 Katrina Kurtz, MLIS Carrie Iwema, PhD, MLS AnsumanChattopadhyay, PhD Health Sciences Library System University of Pittsburgh http://www.hsls.pitt.edu/guides/genetics
Bioinformatics Tools • Answerbiological questions • Made by informaticsresearchers • Freelyavailable to the public • Published in scholarlyjournals http://www.hsls.pitt.edu/guides/genetics
Bioinformatics Tools • Examples: • Protein structure prediction • Sequencealignment • Databases of genesassociatedwithdisease • Protein interactions http://www.hsls.pitt.edu/guides/genetics
Who Uses Bioinformatics Tools? • Biologists: • Faculty researchers • Graduate students • Undergraduate students • Doctors who do biomedical research • Biomedical informatics researchers http://www.hsls.pitt.edu/guides/genetics
Online BioinformaticsResources Collection • Manuallycurated • Searchable collection of bioinformaticstools • Freelyavailable to the public • 2696 resources • http://www.hsls.pitt.edu/guides/genetics/obrc/ http://www.hsls.pitt.edu/guides/genetics
Common Criticisms… • Whybother? • Everyone uses Google. • Google istaking over. http://www.hsls.pitt.edu/guides/genetics
Is Google ActuallyBetter? • Large amount of data • Popularityranking • Biologists are not librarians http://www.hsls.pitt.edu/guides/genetics
Research Project Hypothesis • OBRC isbetterthan Google at • Locatingbioinformaticstools • Quickly • Easily • Successfully • Leavingusershappierwith: • Results • Overallexperience http://www.hsls.pitt.edu/guides/genetics
Research Project • 10 biologygraduatestudents • Threetasks on both OBRC and Google • Recordedsearch as theynarrated • Search experience survey http://www.hsls.pitt.edu/guides/genetics
Research Project • Measured: • Time spent on eachsearch • Number of searchqueries • Number of sites visited • Success rate • Users’ ratings http://www.hsls.pitt.edu/guides/genetics
Task 1: Protein Interaction • You are a pharmacologist interested in drugs that target proteins. Where would you find reliable information about how drugs interact with proteins, specifically information about the strength of the binding between the protein and ligand? http://www.hsls.pitt.edu/guides/genetics
Task 2: Structure Prediction • Find a tool that performs protein structure prediction. Determine from the search engine how often it has been cited. http://www.hsls.pitt.edu/guides/genetics
Task 3: Ovarian Cancer • Where would you look for information about all the published gene mutations implicated in ovarian cancer, in one place? http://www.hsls.pitt.edu/guides/genetics
Is it faster? Protein Interaction Structure Prediction Ovarian Cancer http://www.hsls.pitt.edu/guides/genetics
Is it easier to find results? Protein Interaction Structure Prediction Ovarian Cancer http://www.hsls.pitt.edu/guides/genetics
Is it easier to find results? Protein Interaction Structure Prediction Ovarian Cancer http://www.hsls.pitt.edu/guides/genetics
Is it successful? Protein Interaction Structure Prediction Ovarian Cancer http://www.hsls.pitt.edu/guides/genetics
Do users like it? http://www.hsls.pitt.edu/guides/genetics
What do theysay about Google? “Google was difficult to navigate with all the information on cancer.” “I was just frustrated [by Google].” “[Google is] time consuming unless we know what we are searching for.” “I realized that Google is not an effective search tool.” http://www.hsls.pitt.edu/guides/genetics
What do they say about OBRC? “[OBRC] was much easier to locate relevant information.” “Wow, this is really direct!” “OBRC is an excellent resource, especially if you don’t know exactly what you’re searching for.” “Gives good results, but I don’t like the interface.” http://www.hsls.pitt.edu/guides/genetics
Whatdidwelearn about OBRC? • Time lag • Scopus and Google Scholar • Spell check • Long searchqueries • Unawareitexists http://www.hsls.pitt.edu/guides/genetics
Limitations • Small sample size • Potentialbiasfromtasks • Previousexperiencewith Google http://www.hsls.pitt.edu/guides/genetics
Future Work • Largersample size • Other user groups • User-chosentask http://www.hsls.pitt.edu/guides/genetics
Conclusions… • Searches using OBRC are: • Faster • Easier • More successful • Users are more satisfied. • Users plan to use OBRC in the future. http://www.hsls.pitt.edu/guides/genetics
Conclusions… …libraries can and should compete! http://www.hsls.pitt.edu/guides/genetics
This study is IRB approved. • Funding provided by: NLM Grant 3 T15 LM007059-23S1 • Thanks to my collaborators, Dr. Carrie Iwema and Dr. AnsumanChattopadhyay • Special thanks to Nancy Tannery and Dr. Rebecca Crowley http://www.hsls.pitt.edu/guides/genetics
Thank you!Any questions? Katrina KurtzCarrie IwemaAnsumanChattopadhyay kak59@pitt.eduiwema@pitt.eduansuman@pitt.edu 412-624-3508 412-648-6887 412-648-1297 http://www.hsls.pitt.edu/guides/genetics