Literature DB >> 15043221

A guide to building image-centric databases.

William Bug1, Jonathan Nissanov.   

Abstract

There is a paucity of image-centric neuroinformatics infrastructure within the individual investigator's laboratory despite the obvious need for automation and integration of experimental results. Yet, solutions can often be readily built using off-the-shelf databases and associated tools. Doing so simplifies day-to-day research operation and increases throughput. Proper construction of in-house solutions may also expedite community-wide integration of private and public data repositories. Here we describe neuroinformatics approaches at different levels of functionality, required expertise, and size of image datasets. The simplest approach offers ease of image browsing and rudimentary searching. More sophisticated systems provide powerful search capabilities, a means of tracking analysis, and even automated serial processing pipelines. In this practicum, we provide guidance in selecting among the different options.

Mesh:

Year:  2003        PMID: 15043221     DOI: 10.1385/NI:1:4:359

Source DB:  PubMed          Journal:  Neuroinformatics        ISSN: 1539-2791


  18 in total

1.  Nomenclature committee of the international union of biochemistry and molecular biology (NC-IUBMB), Enzyme Supplement 5 (1999).

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Journal:  Eur J Biochem       Date:  1999-09

2.  Minimum information about a microarray experiment (MIAME)-toward standards for microarray data.

Authors:  A Brazma; P Hingamp; J Quackenbush; G Sherlock; P Spellman; C Stoeckert; J Aach; W Ansorge; C A Ball; H C Causton; T Gaasterland; P Glenisson; F C Holstege; I F Kim; V Markowitz; J C Matese; H Parkinson; A Robinson; U Sarkans; S Schulze-Kremer; J Stewart; R Taylor; J Vilo; M Vingron
Journal:  Nat Genet       Date:  2001-12       Impact factor: 38.330

3.  The PROSITE database, its status in 2002.

Authors:  Laurent Falquet; Marco Pagni; Philipp Bucher; Nicolas Hulo; Christian J A Sigrist; Kay Hofmann; Amos Bairoch
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

4.  Guidelines for human gene nomenclature.

Authors:  Hester M Wain; Elspeth A Bruford; Ruth C Lovering; Michael J Lush; Mathew W Wright; Sue Povey
Journal:  Genomics       Date:  2002-04       Impact factor: 5.736

Review 5.  Microarray databases: standards and ontologies.

Authors:  Christian J Stoeckert; Helen C Causton; Catherine A Ball
Journal:  Nat Genet       Date:  2002-12       Impact factor: 38.330

6.  The cell-centered database: a database for multiscale structural and protein localization data from light and electron microscopy.

Authors:  Maryann E Martone; Shenglan Zhang; Amarnath Gupta; Xufei Qian; Haiyun He; Diana L Price; Mona Wong; Simone Santini; Mark H Ellisman
Journal:  Neuroinformatics       Date:  2003

7.  NeuroNames 2002.

Authors:  Douglas M Bowden; Mark F Dubach
Journal:  Neuroinformatics       Date:  2003

8.  Database resources of the National Center for Biotechnology Information.

Authors:  D L Wheeler; C Chappey; A E Lash; D D Leipe; T L Madden; G D Schuler; T A Tatusova; B A Rapp
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

9.  dbEST--database for "expressed sequence tags".

Authors:  M S Boguski; T M Lowe; C M Tolstoshev
Journal:  Nat Genet       Date:  1993-08       Impact factor: 38.330

10.  The informatics of a C57BL/6J mouse brain atlas.

Authors:  Allan MacKenzie-Graham; Eagle S Jones; David W Shattuck; Ivo D Dinov; Mihail Bota; Arthur W Toga
Journal:  Neuroinformatics       Date:  2003
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  2 in total

1.  Toward a workbench for rodent brain image data: systems architecture and design.

Authors:  Ivar A Moene; Shankar Subramaniam; Dmitri Darin; Trygve B Leergaard; Jan G Bjaalie
Journal:  Neuroinformatics       Date:  2007

2.  Graphical neuroimaging informatics: application to Alzheimer's disease.

Authors:  John Darrell Van Horn; Ian Bowman; Shantanu H Joshi; Vaughan Greer
Journal:  Brain Imaging Behav       Date:  2014-06       Impact factor: 3.978

  2 in total

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