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MIME Media Type for the Systems Biology Markup Language (SBML) (RFC3823)

IP.com Disclosure Number: IPCOM000029313D
Original Publication Date: 2004-Jun-01
Included in the Prior Art Database: 2004-Jun-23
Document File: 9 page(s) / 15K

Publishing Venue

Internet Society Requests For Comment (RFCs)

Related People

B. Kovitz: AUTHOR

Abstract

This document registers the MIME sub-type application/sbml+xml, a media type for SBML, the Systems Biology Markup Language. SBML is defined by The SBML Team at the California Institute of Technology and interested members of the systems biology community.

This text was extracted from an ASCII text file.
This is the abbreviated version, containing approximately 18% of the total text.

Network Working Group                                          B. Kovitz

Request for Comments: 3823                                       Caltech

Category: Informational                                        June 2004

     MIME Media Type for the Systems Biology Markup Language (SBML)

Status of this Memo

   This memo provides information for the Internet community.  It does

   not specify an Internet standard of any kind.  Distribution of this

   memo is unlimited.

Copyright Notice

   Copyright (C) The Internet Society (2004).

Abstract

   This document registers the MIME sub-type application/sbml+xml, a

   media type for SBML, the Systems Biology Markup Language.  SBML is

   defined by The SBML Team at the California Institute of Technology

   and interested members of the systems biology community.

1.  Introduction

   SBML is an XML format for representing and exchanging models of

   biochemical reaction networks used in systems biology.  SBML:

   o  enables researchers in systems biology to use multiple tools, such

      as simulators, editors, differential-equation solvers, and

      visualizers, on a single model without rewriting the model for

      each tool;

   o  enables researchers and publishers to make models available on-

      line to other researchers even if they use a different software

      environment;

   o  enables models, and the intellectual effort put into them, to

      survive beyond the lifetime of the software tools used to create

      them.

   Currently, about 60 software applications use SBML, and researchers

   are using these applications to develop quantitative and qualitative

   computational models, mostly in cell biology.  In addition, several

   consortia and alliances have standardized SBML as their model

Kovitz                       Informational                      [Page 1]

RFC 3823         Systems Biology Markup Language (SBML)        June 2004

   definition language.  The SBML community hopes that a standardized

   MIME media type will help researchers share models on a larger scale,

   drawing more heavily on the capabilities of the world-wide web.

   A detailed exposition of SBML and its uses within the systems biology

   community is available in references [HUCKA2003], [FINNEY2003], and

   [HUCKA2004].

2.  IANA Registration

   This section registers application/sbml+xml as a MIME media type

   according to the parameters set forth in [RFC2048].

   MIME media type name: application

   MIME subtype name: sbml+xml

   Required parameters: none.

   Optional parameters: none.

      There is no charset parameter.  Character handling has identical

      semantics to the case where the charset parameter of the

  ...