Database Commons

a catalog of biological databases

e.g., animal; RNA; Methylation; China

Database Profile

General information

Description: PAZAR is a software framework for the construction and maintenance of regulatory sequence data annotations; a framework which allows multiple boutique databases to function independently within a larger system (or information mall).
Year founded: 2009
Last update: 2012-01-25
Version: v1.0
Accessibility:
Manual:
Accessible
Real time : Checking...
Country/Region: Canada
Data type:
Data object:
NA
Database category:
Major organism:
NA
Keywords:

Contact information

University/Institution: University of British Columbia
Address: Vancouver, British Columbia, Canada
City: Vancouver
Province/State: British Columbia
Country/Region: Canada
Contact name (PI/Team): Wyeth W. Wasserman
Contact email (PI/Helpdesk): wyeth@cmmt.ubc.ca

Publications

18971253
The PAZAR database of gene regulatory information coupled to the ORCA toolkit for the study of regulatory sequences. [PMID: 18971253]
Portales-Casamar E, Arenillas D, Lim J, Swanson MI, Jiang S, McCallum A, Kirov S, Wasserman WW.

The PAZAR database unites independently created and maintained data collections of transcription factor and regulatory sequence annotation. The flexible PAZAR schema permits the representation of diverse information derived from experiments ranging from biochemical protein-DNA binding to cellular reporter gene assays. Data collections can be made available to the public, or restricted to specific system users. The data 'boutiques' within the shopping-mall-inspired system facilitate the analysis of genomics data and the creation of predictive models of gene regulation. Since its initial release, PAZAR has grown in terms of data, features and through the addition of an associated package of software tools called the ORCA toolkit (ORCAtk). ORCAtk allows users to rapidly develop analyses based on the information stored in the PAZAR system. PAZAR is available at http://www.pazar.info. ORCAtk can be accessed through convenient buttons located in the PAZAR pages or via our website at http://www.cisreg.ca/ORCAtk.

Nucleic Acids Res. 2009:37(Database issue) | 63 Citations (from Europe PMC, 2020-10-31)
17916232
PAZAR: a framework for collection and dissemination of cis-regulatory sequence annotation. [PMID: 17916232]
Portales-Casamar E, Kirov S, Lim J, Lithwick S, Swanson MI, Ticoll A, Snoddy J, Wasserman WW.

PAZAR is an open-access and open-source database of transcription factor and regulatory sequence annotation with associated web interface and programming tools for data submission and extraction. Curated boutique data collections can be maintained and disseminated through the unified schema of the mall-like PAZAR repository. The Pleiades Promoter Project collection of brain-linked regulatory sequences is introduced to demonstrate the depth of annotation possible within PAZAR. PAZAR, located at http://www.pazar.info, is open for business.

Genome Biol. 2007:8(10) | 57 Citations (from Europe PMC, 2020-10-31)

Ranking

All databases:
834/4695 (82.258%)
Gene genome and annotation:
281/1245 (77.51%)
Interaction:
142/699 (79.828%)
834
Total Rank
120
Citations
9.231
z-index

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Record metadata

Created on: 2015-07-18
Curated by:
Lina Ma [2018-06-11]
Tongkun Guo [2018-01-26]
Shixiang Sun [2016-03-24]
Shixiang Sun [2015-11-19]