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Author, Editor(s)

Author(s):

Schlicker, Andreas
Albrecht, Mario

dblp
dblp



BibTeX cite key*:

Albrecht2008a

Title

Title*:

FunSimMat: a comprehensive functional similarity database

Journal

Journal Title*:

Nucleic Acids Research

Journal's URL:

http://nar.oxfordjournals.org/

Download URL
for the article:

http://nar.oxfordjournals.org/cgi/reprint/36/suppl_1/D434

Language:

English

Publisher

Publisher's
Name:

Oxford Journals

Publisher's URL:

http://www.oxfordjournals.org/

Publisher's
Address:

Oxford

ISSN:

0305-1048

Vol, No, pp, Date

Volume*:

36

Number:

Database Issue

Publishing Date:

2008

Pages*:

D434-D439

Number of
VG Pages:


Page Start:


Page End:


Sequence Number:


DOI:

10.1093/nar/gkm806

Note, Abstract, ©

Note:


(LaTeX) Abstract:

Functional similarity based on Gene Ontology (GO) annotation is used in diverse applications like gene clustering, gene expression data analysis, protein interaction prediction and evaluation. However, there exists no comprehensive resource of functional similarity values although such a database would facilitate the use of functional similarity measures in different applications. Here, we describe FunSimMat (Functional Similarity Matrix, http://funsimmat.bioinf.mpi-inf.mpg.de/), a large new database that provides several different semantic similarity measures for GO terms. It offers various precomputed functional similarity values for proteins contained in UniProtKB and for protein families in Pfam and SMART. The web interface allows users to efficiently perform both semantic similarity searches with GO terms and functional similarity searches with proteins or protein families. All results can be downloaded in tab-delimited files for use with other tools. An additional XML–RPC interface gives automatic online access to FunSimMat for programs and remote services.

URL for the Abstract:

http://nar.oxfordjournals.org/cgi/content/abstract/gkm806v2?papetoc

Categories,
Keywords:

semantic similarity, functional similarity, gene ontology, database

HyperLinks / References / URLs:

http://funsimmat.bioinf.mpi-inf.mpg.de

Copyright Message:

© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Personal Comments:


Download
Access Level:

Internal

Correlation

MPG Unit:

Max-Planck-Institut für Informatik



MPG Subunit:

Computational Biology and Applied Algorithmics

Audience:

experts only

Appearance:

MPII WWW Server, MPII FTP Server, MPG publications list, university publications list, working group publication list, Fachbeirat, VG Wort


BibTeX Entry:

@ARTICLE{Albrecht2008a,
AUTHOR = {Schlicker, Andreas and Albrecht, Mario},
TITLE = {{FunSimMat}: a comprehensive functional similarity database},
JOURNAL = {Nucleic Acids Research},
PUBLISHER = {Oxford Journals},
YEAR = {2008},
NUMBER = {Database Issue},
VOLUME = {36},
PAGES = {D434--D439},
ADDRESS = {Oxford},
ISBN = {0305-1048},
DOI = {10.1093/nar/gkm806},
}


Entry last modified by Andreas Schlicker, 03/03/2009
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Editor(s)
Andreas Schlicker
Created
12/11/2007 04:26:15 PM
Revisions
6.
5.
4.
3.
2.
Editor(s)
Andreas Schlicker
Mario Albrecht
Mario Albrecht
Mario Albrecht
Mario Albrecht
Edit Dates
01/14/2008 11:27:22 AM
01/02/2008 09:44:46 PM
01/02/2008 09:36:10 PM
01/02/2008 09:35:56 PM
01/02/2008 09:34:08 PM