WSNetGlycate_1_0

By | September 22, 2011

INTRODUCTION

This Web Service implements NetGlycate 1.0. It predicts glycation of
Epsilon amino groups of lysines in mammalian proteins. The method
is described in detail in the following article:

Analysis and prediction of mammalian protein glycation.
Morten Bo Johansen, Lars Kiemer and Soren Brunak
Glycobiology, 16:844-853, 2006.

Alongside this Web Service the NetGlycate method is also implemented as
a traditional paste-and-click WWW server at:

http://www.cbs.dtu.dk/services/NetGlycate/

The traditional server offers more detailed output (graphics), extended
functionality and comprehensive documentation. It is suitable for close
investigation of few proteins; this service is recommended for high
throughput projects.

WEB SERVICE OPERATION

This Web Service is fully asynchronous; the usage is split into the
following three operations:

1. runService

Input: An object of the type ‘sequencedata’ (see the complete definition
in http://www.cbs.dtu.dk/ws/common/ws_common_1_0b.xsd) holding
protein sequences with mandatory unique identifiers. Each
‘sequence’ is a pair of ‘id’ (identifier) and ‘seq’ (sequence
itself). The sequences must be written in one letter amino acid
code: `acdefghiklmnpqrstvwy’ or `ACDEFGHIKLMNPQRSTVWY’. Other
letters will be converted to `X’ and treated as unknown amino
acids. Other symbols, such as whitespace and numbers, will be
ignored.

Output: Unique job identifier

2. pollQueue

Input: Unique job identifier

Output: ‘jobstatus’ – the status of the job
Possible values are QUEUED, ACTIVE, FINISHED, WAITING,
REJECTED, UNKNOWN JOBID or QUEUE DOWN

3. fetchResult

Input: Unique job identifier of a FINISHED job

Output: An object of the type ‘anndata’ (see the complete definition
in http://www.cbs.dtu.dk/ws/common/ws_common_1_0b.xsd) holding
the predition results. ‘annsource’ states the ‘method’ (in
this case always ‘netglycate’) and ‘version’ (in this case
always 1.0). The objects of the type ‘annrecord’ hold the
predictions for a given residue in a given sequence, the
fields are:

feature – always ‘glycate’;
pos – sequence residue;
score – prediction score, if above 0 the residue
is a predicted glycation site, the higher
the score the more secure the prediction;
comment – appears only when the score is above 0,
contains the word ‘YES’.

CONTACT

Questions concerning the scientific aspects of the NetGlycate method
should go to Morten Bo Johansen, mbj@cbs.dtu.dk; technical questions
concerning the Web Service should go to Peter Fischer Hallin,
pfh@cbs.dtu.dk or Kristoffer Rapacki, rapacki@cbs.dtu.dk.

Name
WSNetGlycate_1_0
Documentation
http://www.cbs.dtu.dk/services/NetGlycate/
Protocol
SOAP
WSDL
Endpoint
http://ws.cbs.dtu.dk/cgi-bin/soap/ws/simple.cgi
Topic
Biology
Type
Tags
Description

INTRODUCTION This Web Service implements NetGlycate 1.0. It predicts glycation of Epsilon amino groups of lysines in mammalian proteins. The [...]

Further information

INTRODUCTION

This Web Service implements NetGlycate 1.0. It predicts glycation of
Epsilon amino groups of lysines in mammalian proteins. The method
is described in detail in the following article:

Analysis and prediction of mammalian protein glycation.
Morten Bo Johansen, Lars Kiemer and Soren Brunak
Glycobiology, 16:844-853, 2006.

Alongside this Web Service the NetGlycate method is also implemented as
a traditional paste-and-click WWW server at:

http://www.cbs.dtu.dk/services/NetGlycate/

The traditional server offers more detailed output (graphics), extended
functionality and comprehensive documentation. It is suitable for close
investigation of few proteins; this service is recommended for high
throughput projects.

WEB SERVICE OPERATION

This Web Service is fully asynchronous; the usage is split into the
following three operations:

1. runService

Input: An object of the type ‘sequencedata’ (see the complete definition
in http://www.cbs.dtu.dk/ws/common/ws_common_1_0b.xsd) holding
protein sequences with mandatory unique identifiers. Each
‘sequence’ is a pair of ‘id’ (identifier) and ‘seq’ (sequence
itself). The sequences must be written in one letter amino acid
code: `acdefghiklmnpqrstvwy’ or `ACDEFGHIKLMNPQRSTVWY’. Other
letters will be converted to `X’ and treated as unknown amino
acids. Other symbols, such as whitespace and numbers, will be
ignored.

Output: Unique job identifier

2. pollQueue

Input: Unique job identifier

Output: ‘jobstatus’ – the status of the job
Possible values are QUEUED, ACTIVE, FINISHED, WAITING,
REJECTED, UNKNOWN JOBID or QUEUE DOWN

3. fetchResult

Input: Unique job identifier of a FINISHED job

Output: An object of the type ‘anndata’ (see the complete definition
in http://www.cbs.dtu.dk/ws/common/ws_common_1_0b.xsd) holding
the predition results. ‘annsource’ states the ‘method’ (in
this case always ‘netglycate’) and ‘version’ (in this case
always 1.0). The objects of the type ‘annrecord’ hold the
predictions for a given residue in a given sequence, the
fields are:

feature – always ‘glycate’;
pos – sequence residue;
score – prediction score, if above 0 the residue
is a predicted glycation site, the higher
the score the more secure the prediction;
comment – appears only when the score is above 0,
contains the word ‘YES’.

CONTACT

Questions concerning the scientific aspects of the NetGlycate method
should go to Morten Bo Johansen, mbj@cbs.dtu.dk; technical questions
concerning the Web Service should go to Peter Fischer Hallin,
pfh@cbs.dtu.dk or Kristoffer Rapacki, rapacki@cbs.dtu.dk.

Original source
BioCatalogue

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