Web Service WSNetOGlyc_3_1d SOAP

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This service has been archived because it may not be active anymore (or is close to being non active). Please do not use it as it may not be accessible.

aka NetOGlyc - Prediction of o-GalNAc (mucin type) glycosylation sites in mammalian proteins Add_annotation_inactiveAdd_annotation_inactiveLog in to add alternative_name
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Annotations: 16 Total number of annotations from the provider's definition / description document. 1 Total number of annotations submitted by members of BioCatalogue. 6 Total number of annotations sourced from other registries. 9

Overview

Provider:
Center for Biological Sequence Analysis (CBS)

Location:
European Union

Submitter/Source:
The EMBRACE Registry (over 11 years ago)

Base URL:
http://ws.cbs.dtu.dk/cgi-bin/soap/ws/simple.cgi

WSDL Location:
http://www.cbs.dtu.dk/ws/NetOGlyc/NetOGlyc_3_1d.wsdl (download last cached WSDL file)

Description(s):
from provider's description doc (over 11 years ago)
		INTRODUCTION

		This Web Service implements NetOGlyc 3.1d. It predicts mucin type GalNAc
		O-glycosylation sites in mammalian proteins. The method is described in
		detail in the following article:

		"Prediction, conservation analysis and structural characterization
		of mammalian mucin-type O-glycosylation sites".
		K. Julenius, A. Moelgaard, R. Gupta and S. Brunak.
		Glycobiology, 15:153-164, 2005.

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

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

		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.

		NetOglyc is also available as a stand-alone software package to install
		and run at the user's site, with the same functionality. For academic
		users there is a download page at:

		    http://www.cbs.dtu.dk/cgi-bin/nph-sw_request?netOglyc

		Other users are requested to write to software@cbs.dtu.dk for details.


		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 'netOglyc') and 'version' (in this case 3.1b).
		           The objects of the type 'annrecord' hold the predictions for
		           a given residue in a given sequence, the fields are:

		           feature       - always "O-glyc";
		           pos           - sequence residue;
		           score         - G-score: general prediction score;
		           score         - I-score: isolated site prediction score
		                           (threonine residues only);
		           comment       - appears only when the residue is predicted as
		                           glycosylated, contains the letter 'T' or 'S'.

		           A residue is predicted as glycosylated when the G-score for
		           that residue is >0.5. For threonines an additional score is
		           used: if the G-score is <0.5 but the I-score >0.5 and there
		           are no predicted neighbouring sites (distance <10 residues)
		           the residue is also predicted as glycosylated.


		CONTACT

		Questions concerning the scientific aspects of the NetPhos method should
		go to Ramneek Gupta, ramneek@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.
by The EMBRACE Registry (over 11 years ago)

NetOGlyc predicts mucin type GalNAc O-glycosylation sites in mammalian proteins. The method is described in detail in the following article:

  "Prediction, conservation analysis and structural characterization
  of mammalian mucin-type O-glycosyl
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