The Online Bioinformatics Resources Collection at the University of Pittsburgh Health Sciences Library System--a One-stop Gateway to Online Bioinformatics Databases and Software Tools

Overview

Journal Nucleic Acids Res

Publisher Oxford University Press

Specialty Biochemistry

Date 2006 Nov 17

PMID 17108360

Citations 12

Authors

Yi-Bu Chen

Ansuman Chattopadhyay

Phillip Bergen

Cynthia Gadd

Nancy Tannery

Affiliations

Soon will be listed here.

Abstract

To bridge the gap between the rising information needs of biological and medical researchers and the rapidly growing number of online bioinformatics resources, we have created the Online Bioinformatics Resources Collection (OBRC) at the Health Sciences Library System (HSLS) at the University of Pittsburgh. The OBRC, containing 1542 major online bioinformatics databases and software tools, was constructed using the HSLS content management system built on the Zope Web application server. To enhance the output of search results, we further implemented the Vivísimo Clustering Engine, which automatically organizes the search results into categories created dynamically based on the textual information of the retrieved records. As the largest online collection of its kind and the only one with advanced search results clustering, OBRC is aimed at becoming a one-stop guided information gateway to the major bioinformatics databases and software tools on the Web. OBRC is available at the University of Pittsburgh's HSLS Web site (http://www.hsls.pitt.edu/guides/genetics/obrc).

Citing Articles

Developing a framework for digital objects in the Big Data to Knowledge (BD2K) commons: Report from the Commons Framework Pilots workshop.

Jagodnik K, Koplev S, Jenkins S, Ohno-Machado L, Paten B, Schurer S J Biomed Inform. 2017; 71:49-57.

PMID: 28501646 PMC: 5545976. DOI: 10.1016/j.jbi.2017.05.006.

search.bioPreprint: a discovery tool for cutting edge, preprint biomedical research articles.

Iwema C, LaDue J, Zack A, Chattopadhyay A F1000Res. 2016; 5:1396.

PMID: 27508060 PMC: 4957174. DOI: 10.12688/f1000research.8798.2.

From data repositories to submission portals: rethinking the role of domain-specific databases in CollecTF.

Kilic S, Sagitova D, Wolfish S, Bely B, Courtot M, Ciufo S Database (Oxford). 2016; 2016.

PMID: 27114493 PMC: 4843526. DOI: 10.1093/database/baw055.

Ambiguity and variability of database and software names in bioinformatics.

Duck G, Kovacevic A, Robertson D, Stevens R, Nenadic G J Biomed Semantics. 2015; 6:29.

PMID: 26131352 PMC: 4485340. DOI: 10.1186/s13326-015-0026-0.

Using Google blogs and discussions to recommend biomedical resources: a case study.

Reed R, Chattopadhyay A, Iwema C Med Ref Serv Q. 2013; 32(4):396-411.

PMID: 24180648 PMC: 3819719. DOI: 10.1080/02763869.2013.837726.

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