CROSSWORK for Glycans: Glycan Identificatin Through Mass Spectrometry and Bioinformatics

Morten Rasmussen; Morten Thaysen-Andersen; Peter Højrup

CROSSWORK for Glycans: Glycan Identificatin Through Mass Spectrometry and Bioinformatics

Morten Rasmussen, Morten Thaysen-Andersen, Peter Højrup

Research output: Contribution to conference without publisher/journal › Poster › Research

Abstract

We have developed "GLYCANthrope " - CROSSWORKS for glycans: a bioinformatics tool, which assists in identifying N-linked glycosylated peptides as well as their glycan moieties from MS2 data of enzymatically digested glycoproteins.

The program runs either as a stand-alone application or as a plug-in for CROSSWORKS: our tool for investigating protein interaction and structure from MS data of chemically cross-linked proteins. The program can utilise mass spectrometric data fragmented by CID, ETD and HCD in the standard .mgf format - alone or in combination.

We have investigated the efficiency of GLYCANthrope by searching CID and ETD MS2 data from a mixture of six known glycoprotins: Fetuin, RNAse1, Transferrin, a1-acid-glycoprotein, Ovalbumin and Ovomucoid. The glycopeptides and N-linked glycans reported by the program were then compared to the previously reported observations.

The algorithm correctly identified all glycopeptides and suggested glycan structures for 10 out of 11 glycans, which were in agreement with earlier observations. We further observed previously undrescribed glycan structures for Ribonuclease, Asn60.

Original language	English
Publication date	2009
Publication status	Published - 2009
Event	2009Comparison of methods for selecting the midventilation bin in 4dct - San Diego, United States Duration: 12. Nov 2009 → 15. Nov 2009

Conference

Conference	2009Comparison of methods for selecting the midventilation bin in 4dct
Country/Territory	United States
City	San Diego
Period	12/11/2009 → 15/11/2009

Annual Conference of the Society for Glycobiology
Morten Rasmussen (Participant)
12. Nov 2009 → 15. Nov 2009
Activity: Attending an event › Conference organisation or participation

Cite this

@conference{0f746270e30911deaefb000ea68e967b,

title = "CROSSWORK for Glycans: Glycan Identificatin Through Mass Spectrometry and Bioinformatics",

abstract = " We have developed {"}GLYCANthrope {"} - CROSSWORKS for glycans: a bioinformatics tool, which assists in identifying N-linked glycosylated peptides as well as their glycan moieties from MS2 data of enzymatically digested glycoproteins. The program runs either as a stand-alone application or as a plug-in for CROSSWORKS: our tool for investigating protein interaction and structure from MS data of chemically cross-linked proteins. The program can utilise mass spectrometric data fragmented by CID, ETD and HCD in the standard .mgf format - alone or in combination.We have investigated the efficiency of GLYCANthrope by searching CID and ETD MS2 data from a mixture of six known glycoprotins: Fetuin, RNAse1, Transferrin, a1-acid-glycoprotein, Ovalbumin and Ovomucoid. The glycopeptides and N-linked glycans reported by the program were then compared to the previously reported observations. The algorithm correctly identified all glycopeptides and suggested glycan structures for 10 out of 11 glycans, which were in agreement with earlier observations. We further observed previously undrescribed glycan structures for Ribonuclease, Asn60. ",

author = "Morten Rasmussen and Morten Thaysen-Andersen and Peter H{\o}jrup",

year = "2009",

language = "English",

note = "2009Comparison of methods for selecting the midventilation bin in 4dct ; Conference date: 12-11-2009 Through 15-11-2009",

}

CROSSWORK for Glycans: Glycan Identificatin Through Mass Spectrometry and Bioinformatics. / Rasmussen, Morten; Thaysen-Andersen, Morten; Højrup, Peter.

2009. Poster session presented at 2009Comparison of methods for selecting the midventilation bin in 4dct, San Diego, United States.

Research output: Contribution to conference without publisher/journal › Poster › Research

TY - CONF

T1 - CROSSWORK for Glycans: Glycan Identificatin Through Mass Spectrometry and Bioinformatics

AU - Rasmussen, Morten

AU - Thaysen-Andersen, Morten

AU - Højrup, Peter

PY - 2009

Y1 - 2009

N2 - We have developed "GLYCANthrope " - CROSSWORKS for glycans: a bioinformatics tool, which assists in identifying N-linked glycosylated peptides as well as their glycan moieties from MS2 data of enzymatically digested glycoproteins. The program runs either as a stand-alone application or as a plug-in for CROSSWORKS: our tool for investigating protein interaction and structure from MS data of chemically cross-linked proteins. The program can utilise mass spectrometric data fragmented by CID, ETD and HCD in the standard .mgf format - alone or in combination.We have investigated the efficiency of GLYCANthrope by searching CID and ETD MS2 data from a mixture of six known glycoprotins: Fetuin, RNAse1, Transferrin, a1-acid-glycoprotein, Ovalbumin and Ovomucoid. The glycopeptides and N-linked glycans reported by the program were then compared to the previously reported observations. The algorithm correctly identified all glycopeptides and suggested glycan structures for 10 out of 11 glycans, which were in agreement with earlier observations. We further observed previously undrescribed glycan structures for Ribonuclease, Asn60.

AB - We have developed "GLYCANthrope " - CROSSWORKS for glycans: a bioinformatics tool, which assists in identifying N-linked glycosylated peptides as well as their glycan moieties from MS2 data of enzymatically digested glycoproteins. The program runs either as a stand-alone application or as a plug-in for CROSSWORKS: our tool for investigating protein interaction and structure from MS data of chemically cross-linked proteins. The program can utilise mass spectrometric data fragmented by CID, ETD and HCD in the standard .mgf format - alone or in combination.We have investigated the efficiency of GLYCANthrope by searching CID and ETD MS2 data from a mixture of six known glycoprotins: Fetuin, RNAse1, Transferrin, a1-acid-glycoprotein, Ovalbumin and Ovomucoid. The glycopeptides and N-linked glycans reported by the program were then compared to the previously reported observations. The algorithm correctly identified all glycopeptides and suggested glycan structures for 10 out of 11 glycans, which were in agreement with earlier observations. We further observed previously undrescribed glycan structures for Ribonuclease, Asn60.

M3 - Poster

T2 - 2009Comparison of methods for selecting the midventilation bin in 4dct

Y2 - 12 November 2009 through 15 November 2009

ER -

CROSSWORK for Glycans: Glycan Identificatin Through Mass Spectrometry and Bioinformatics

Abstract

Conference

Related Activities

Annual Conference of the Society for Glycobiology

Cite this