Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis |
2021
|
Rebeca Kawahara, Anastasia Chernykh, Kathirvel Alagesan, Marshall Bern, Weiqian Cao, Robert J. Chalkley, Kai Cheng, Matthew S. Choo, Nathan Edwards, Radoslav Goldman, Marcus Hoffmann, Yingwei Hu, Yifan Huang, Jin Young Kim, Doron Kletter, Benoit Liquet, Mingqi Liu, Yehia Mechref, Bo Meng, Sriram Neelamegham, Terry Nguyen-Khuong, Jonas Nilsson, Adam Pap, Gun Wook Park, Benjamin L. Parker, Cassandra L. Pegg, Josef M. Penninger, Toan K. Phung, Markus Pioch, Erdmann Rapp, Enes Sakalli, Miloslav Sanda, Benjamin L. Schulz, Nichollas E. Scott, Georgy Sofronov, Johannes Stadlmann, Sergey Y. Vakhrushev, Christina M. Woo, Hung-Yi Wu, Pengyuan Yang, Wantao Ying, Hui Zhang, Yong Zhang, Jingfu Zhao, Joseph Zaia, Stuart M. Haslam, Giuseppe Palmisano, Jong Shin Yoo, Göran Larson, Kai-Hooi Khoo, Katalin F. Medzihradszky, Daniel Kolarich, Nicolle H. Packer, Morten Thaysen-Andersen
|
Nat Methods
|
Reviewed
|
|
Reference
- Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis
(2021 - Rebeca Kawahara, Anastasia Chernykh, Kathirvel Alagesan, Marshall Bern, Weiqian Cao, Robert J. Chalkley, Kai Cheng, Matthew S. Choo, Nathan Edwards, Radoslav Goldman, Marcus Hoffmann, Yingwei Hu, Yifan Huang, Jin Young Kim, Doron Kletter, Benoit Liquet, Mingqi Liu, Yehia Mechref, Bo Meng, Sriram Neelamegham, Terry Nguyen-Khuong, Jonas Nilsson, Adam Pap, Gun Wook Park, Benjamin L. Parker, Cassandra L. Pegg, Josef M. Penninger, Toan K. Phung, Markus Pioch, Erdmann Rapp, Enes Sakalli, Miloslav Sanda, Benjamin L. Schulz, Nichollas E. Scott, Georgy Sofronov, Johannes Stadlmann, Sergey Y. Vakhrushev, Christina M. Woo, Hung-Yi Wu, Pengyuan Yang, Wantao Ying, Hui Zhang, Yong Zhang, Jingfu Zhao, Joseph Zaia, Stuart M. Haslam, Giuseppe Palmisano, Jong Shin Yoo, Göran Larson, Kai-Hooi Khoo, Katalin F. Medzihradszky, Daniel Kolarich, Nicolle H. Packer, Morten Thaysen-Andersen) / Status : Reviewed
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Site-specific O-glycosylation analysis of SARS-CoV-2 spike protein produced in insect and human cells |
2021
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Ieva Bagdonaite, Andrew J. Thompson, Xiaoning Wang, Max Søgaard, Cyrielle Fougeroux, Martin Frank, Jolene K. Diedrich, John R. Yates 3rd, Ali Salanti, Sergey Y. Vakhrushev, James C. Paulson, Hans H. Wandall
|
Viruses
|
Reviewed
|
|
Reference
- Site-specific O-glycosylation analysis of SARS-CoV-2 spike protein produced in insect and human cells
(2021 - Ieva Bagdonaite, Andrew J. Thompson, Xiaoning Wang, Max Søgaard, Cyrielle Fougeroux, Martin Frank, Jolene K. Diedrich, John R. Yates 3rd, Ali Salanti, Sergey Y. Vakhrushev, James C. Paulson, Hans H. Wandall) / Status : Reviewed
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Cysteine Aminoethylation Enables the Site-Specific Glycosylation Analysis of Recombinant Human Erythropoietin using Trypsin |
2020
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Steffen Lippold, Alexander Büttner, Matthew S.F. Choo, Michaela Hook, Coen J. de Jong, Terry Nguyen-Khuong, Markus Haberger, Dietmar Reusch, Manfred Wuhrer, Noortje de Haan
|
Anal Chem
|
Reviewed
|
|
|
Quantitative Longitudinal Inventory of the N-Glycoproteome of Human Milk from a Single Donor Reveals the Highly Variable Repertoire and Dynamic Site-Specific Changes |
2020
|
Jing Zhu, Yu-Hsien Lin, Kelly A Dingess, Marko Mank, Bernd Stahl, Albert J R Heck
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J Proteome Res
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Reviewed
|
|
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Comprehensive N- and O-glycosylation mapping of human coagulation factor V. |
2020
|
Ma C, Liu D, Li D, Zhang J, Xu XQ, Zhu H, Wan XF, Miao CH, Konkle BA, Onigman P, Xiao W, Li L
|
J Thromb Haemost
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Reviewed
|
|
Reference
- Comprehensive N- and O-glycosylation mapping of human coagulation factor V.
(2020 - Ma C, Liu D, Li D, Zhang J, Xu XQ, Zhu H, Wan XF, Miao CH, Konkle BA, Onigman P, Xiao W, Li L) / Status : Reviewed
Mass spectrometry observed peptide
|
Identification of protein O-glycosylation site and corresponding glycans using liquid chromatography-tandem mass spectrometry via mapping accurate mass and retention time shift |
2014
|
Huang LJ, Lin JH, Tsai JH, Chu YY, Chen YW, Chen SL, Chen SH
|
J Chromatogr A
|
Reviewed
|
|
Mass spectrometry observed peptide
|
The O-glycomap of lubricin, a novel mucin responsible for joint lubrication, identified by site-specific glycopeptide analysis |
2014
|
Ali L, Flowers SA, Jin C, Bennet EP, Ekwall AK, Karlsson NG
|
Mol Cell Proteomics
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Identification of N-linked glycosylation and putative O-fucosylation, C-mannosylation sites in plasma derived ADAMTS13 |
2014
|
Sorvillo N, Kaijen PH, Matsumoto M, Fujimura Y, van der Zwaan C, Verbij FC, Pos W, Fijnheer R, Voorberg J, Meijer AB
|
J Thromb Haemost
|
Reviewed
|
|
Reference
- Identification of N-linked glycosylation and putative O-fucosylation, C-mannosylation sites in plasma derived ADAMTS13
(2014 - Sorvillo N, Kaijen PH, Matsumoto M, Fujimura Y, van der Zwaan C, Verbij FC, Pos W, Fijnheer R, Voorberg J, Meijer AB) / Status : Reviewed
Mass spectrometry observed peptide
|
Electron Transfer Dissociation (ETD): The Mass Spectrometric Breakthrough Essential for O-GlcNAc Protein Site Assignments-A Study of the O-GlcNAcylated Protein Host Cell Factor C1 |
2013
|
Samuel A Myers, Salima Daou, El Bachir Affar, Al Burlingame
|
Proteomics
|
Reviewed
|
|
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Human urinary glycoproteomics; attachment site specific analysis of N- and O-linked glycosylations by CID and ECD |
2012
|
Halim A, Nilsson J, Rüetschi U, Hesse C, Larson G
|
Mol Cell Proteomics
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Determination of site-specific glycan heterogeneity on glycoproteins |
2012
|
Kolarich D1, Jensen PH, Altmann F, Packer NH.
|
Nat Protoc
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Naturally Occurring Structural Isomers in Serum IgA1 O-Glycosylation |
2012
|
Kazuo Takahashi, Archer D. Smith, IV, Knud Poulsen, Mogens Kilian, Bruce A. Julian, Jiri Mestecky, Jan Novak, Matthew B. Renfrow
|
J Proteome Res
|
Reviewed
|
|
|
Modification of Histones by Sugar β-N-acetylglucosamine (GlcNAc) Occurs on Multiple Residues, Including Histone H3 Serine 10, and Is Cell Cycle-Regulated |
2011
|
Suisheng Zhang, Kevin Roche, Heinz-Peter Nasheuer, Noel Francis Lowndes
|
J Biol Chem
|
Reviewed
|
|
|
Mapping O-GlcNAc modification sites on tau and generation of a site-specific O-GlcNAc tau antibody |
2011
|
Scott A Yuzwa, Anuj K Yadav, Yuliya Skorobogatko, Thomas Clark, Keith Vosseller, David J Vocadlo
|
Amino acids
|
Unreviewed
|
|
|
Identification of O-GlcNAc sites within peptides of the Tau protein and their impact on phosphorylation |
2011
|
Caroline Smet-Nocca, Malgorzata Broncel, Jean-Michel Wieruszeski, Caroline Tokarski, Xavier Hanoulle, Arnaud Leroy, Isabelle Landrieu, Christian Rolando, Guy Lippens, Christian P R Hackenberger
|
Mol Biosyst
|
Unreviewed
|
|
|
Extensive Crosstalk Between O-GlcNAcylation and Phosphorylation Regulates Cytokinesis |
2010
|
Zihao Wang, Namrata D Udeshi, Chad Slawson, Philip D Compton, Kaoru Sakabe, Win D Cheung, Jeffrey Shabanowitz, Donald F Hunt, Gerald W Hart
|
Sci Signal
|
Reviewed
|
|
|
Affinity enrichment and characterization of mucin core-1 type glycopeptides from bovine serum |
2009
|
Darula Z, Medzihradszky KF.
|
Mol Cell Proteomics
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Site-specific GlcNAcylation of Human Erythrocyte Proteins: Potential Biomarker(s) for Diabetes |
2009
|
Zihao Wang, Kyoungsook Park, Frank Comer, Linda C Hsieh-Wilson, Christopher D Saudek, Gerald W Hart
|
Diabetes
|
Reviewed
|
|
|
Loss of p53 Enhances Catalytic Activity of IKKbeta Through O-linked beta-N-acetyl Glucosamine Modification |
2009
|
Keiko Kawauchi, Keigo Araki, Kei Tobiume, Nobuyuki Tanaka
|
Proc Natl Acad Sci USA
|
Reviewed
|
|
|
O-GlcNAc Regulates FoxO Activation in Response to Glucose |
2008
|
Michael P Housley, Joseph T Rodgers, Namrata D Udeshi, Timothy J Kelly, Jeffrey Shabanowitz, Donald F Hunt, Pere Puigserver, Gerald W Hart
|
J Biol Chem
|
Reviewed
|
|
|
The diversity of O-linked glycans expressed during Drosophila melanogaster development reflects stage- and tissue-specific requirements for cell signaling. |
2008
|
Kazuhiro Aoki, Mindy Porterfield, Samuel S Lee, Brian Dong, Khoi Nguyen, Katherine H McGlamry, Michael Tiemeyer
|
J Biol Chem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Glycomic studies of Drosophila melanogaster embryos. |
2006
|
Simon J North, Kate Koles, Caleb Hembd, Howard R Morris, Anne Dell, Vladislav M Panin, Stuart M Haslam
|
Glycoconj J
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Occurrence of O-linked Xyl-GlcNAc and Xyl-Glc disaccharides in trocarin, a factor Xa homolog from snake venom |
2003
|
Joseph JS, Valiyavettil M, Gowda DC, Kini RM
|
J Thromb Haemost
|
Reviewed
|
|
Mass spectrometry observed peptide
|
The capsid protein of a plant single-stranded RNA virus is modified by O-linked N-acetylglucosamine |
2002
|
Fernandez-Fernandez, Camafeita, Bonay, Mendez, Albar, Garcia
|
J Biol Chem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Intestinal mucins from cystic fibrosis mice show increased fucosylation due to an induced Fucalpha1-2 glycosyltransferase. |
2002
|
Thomsson KA, Hinojosa-Kurtzberg M, Axelsson KA, Domino SE, Lowe JB, Gendler SJ, Hansson GC
|
Biochem J
|
Reviewed
|
|
Mass spectrometry observed peptide
|
C-mannosylation and O-fucosylation of the thrombospondin type 1 module. |
2001
|
Hofsteenge J, Huwiler K, Macek B, Hess D, Lawler J, Mosher D, Peter-Katalinic J
|
J Biol Chem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Neutralization of pH in the Golgi apparatus causes redistribution of glycosyltransferases and changes in the O-glycosylation of mucins. |
2001
|
Axelsson M, Karlsson N, Steel D, Ouwendijk J, Nilsson T, Hansson G
|
Glycobiology
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Glycosylated polyproline II rods with kinks as a structural motif in plant hydroxyproline-rich glycoproteins |
2001
|
Ferris, Woessner, Waffenschmidt, Kilz, Drees, Goodenough
|
Biochemistry
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Multiple O-glycoforms on the spore coat protein SP96 in Dictyostelium discoideum. Fuc(alpha1-3)GlcNAc-alpha-1-P-Ser is the major modification. |
2000
|
Mreyen M, Champion A, Srinivasan S, Karuso P, Williams K, Packer N
|
J Biol Chem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Mammalian Notch1 is modified with two unusual forms of O-linked glycosylation found on epidermal growth factor-like modules. |
2000
|
Moloney D, Shair L, Lu F, Xia J, Locke R, Matta K, Haltiwanger R
|
J Biol Chem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Isolation and characterization of glycophorin from nucleated (chicken) erythrocytes. |
2000
|
Duk M, Krotkiewski H, Stasyk T, Lutsik-Kordovsky M, Syper D, Lisowska E
|
Arch Biochem Biophys
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Alternative O-glycosylation/O-phosphorylation of the murine estrogen receptor beta. |
2000
|
Cheng X, Cole R, Zaia J, Hart G
|
Biochemistry
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Functional analysis of O-linked oligosaccharides in threonine/serine-rich region of Aspergillus glucoamylase by expression in mannosyltransferase-disruptants of yeast. |
1999
|
Goto M, Tsukamoto M, Kwon I, Ekino K, Furukawa K
|
Eur J Biochem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
X-ray crystallography and mass spectroscopy reveal that the N-lobe of human transferrin expressed in Pichia pastoris is folded correctly but is glycosylated on serine-32. |
1999
|
Bewley M, Tam B, Grewal J, He S, Shewry S, Murphy M, Mason A, Woodworth R, Baker E, MacGillivray R
|
Biochemistry
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Schizosaccharomyces pombe produces novel Gal0-2Man1-3 O-linked oligosaccharides. |
1999
|
Gemmill T, Trimble R
|
Glycobiology
|
Reviewed
|
|
Mass spectrometry observed peptide
|
High prevalence of 2-mono- and 2,6-di-substituted manol-terminating sequences among O-glycans released from brain glycopeptides by reductive alkaline hydrolysis. |
1999
|
Chai W, Yuen C, Kogelberg H, Carruthers R, Margolis R, Feizi T, Lawson A
|
Eur J Biochem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Purification and characterization of the MUC1 mucin-type glycoprotein, epitectin, from human urine: structures of the major oligosaccharide alditols. |
1998
|
Bhavanandan V, Zhu Q, Yamakami K, Dilulio N, Nair S, Capon C, Lemoine J, Fournet B
|
Glycoconj J
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Structural analysis of oligosaccharide-alditols released by reductive beta-elimination from the jelly coats of the anuran Bufo arenarum. |
1998
|
Morelle W, Cabada M, Strecker G
|
Eur J Biochem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Human low-molecular-weight salivary mucin expresses the sialyl lewisx determinant and has L-selectin ligand activity. |
1998
|
Prakobphol A, Thomsson K, Hansson G, Rosen S, Singer M, Phillips N, Medzihradszky K, Burlingame A, Leffler H, Fisher S
|
Biochemistry
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Reduction of O-linked N-acetylglucosamine-modified assembly protein-3 in Alzheimer's disease. |
1998
|
Yao P, Coleman P
|
J Neurosci
|
Reviewed
|
|
Mass spectrometry observed peptide
|
SV40 large T antigen is modified with O-linked N-acetylglucosamine but not with other forms of glycosylation. |
1998
|
Medina L, Grove K, Haltiwanger R
|
Glycobiology
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Structure of the O-glycopeptides isolated from bovine milk component PP3. |
1998
|
Coddeville B, Girardet J, Plancke Y, Campagna S, Linden G, Spik G
|
Glycoconj J
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Structural study of the O-linked sugar chains of human leukocyte tyrosine phosphatase CD45. |
1998
|
Furukawa K, Funakoshi Y, Autero M, Horejsi V, Kobata A, Gahmberg C
|
Eur J Biochem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
An evaluation of sialation of the nucleoporin p62. |
1998
|
Fang B, Hanover J, Miller M
|
Arch Biochem Biophys
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Detection of O-mannosyl glycans in rabbit skeletal muscle alpha-dystroglycan. |
1998
|
Sasaki T, Yamada H, Matsumura K, Shimizu T, Kobata A, Endo T
|
Biochim Biophys Acta
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Phosphorylation and O-glycosylation sites of human chromogranin A (CGA79-439) from urine of patients with carcinoid tumors. |
1998
|
Gadroy P, Stridsberg M, Capon C, Michalski J, Strub J, Van Dorsselaer A, Aunis D, Metz-Boutigue M
|
J Biol Chem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Neutral core oligosaccharides of bovine submaxillary mucin--use of lead tetraacetate in the cold for establishing branch positions. |
1998
|
Martensson S, Levery S, Fang T, Bendiak B
|
Eur J Biochem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Cytochrome b558/566 from the archaeon Sulfolobus acidocaldarius. A novel highly glycosylated, membrane-bound b-type hemoprotein. |
1998
|
Hettmann T, Schmidt C, Anemller S, Zhringer U, Moll H, Petersen A, Schfer G
|
J Biol Chem
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Structural analysis of the oligosaccharide-alditols released by reductive beta-elimination from oviducal mucins of Rana temporaria. |
1997
|
Maes E, Florea D, Delplace F, Lemoine J, Plancke Y, Strecker G
|
Glycoconj J
|
Reviewed
|
|
Mass spectrometry observed peptide
|
Structure of the O-linked oligosaccharides from a major thyroid cell surface glycoprotein. |
1997
|
Edge A, Spiro R
|
Arch Biochem Biophys
|
Reviewed
|
|
Mass spectrometry observed peptide
|