Resources
| Name | Description | Reference | #Data |
|---|---|---|---|
| ACGGD-BD | Database of mouse N-glycoproteins from curated experimental data using IGOT approach. |
Kaji H,Shikanai T,Sasaki-Sawa A,Wen H,Fujita M,Suzuki Y,Sugahara D,Sawaki H,Yamauchi Y,Shinkawa T,Taoka M,Takahashi N,Isobe T,Narimatsu H (2012) Large-scale identification of N-glycosylated proteins of mouse tissues and construction of a glycoprotein database, GlycoProtDB., J Proteome Res, 11, 4553-66. [PubMed][DOI] |
360 |
| CCTOP | The final prediction in TOPDB database or CCTOP prediction if no experimental data |
Dobson L,Reményi I,Tusnády GE (2015) CCTOP: a Consensus Constrained TOPology prediction web server., Nucleic Acids Res, 43, W408-12. [PubMed][DOI] |
36880 |
| ELM | Linear motifs from ELM database |
Kumar M,Gouw M,Michael S,Sámano-Sánchez H,Pancsa R,Glavina J,Diakogianni A,Valverde JA,Bukirova D,Čalyševa J,Palopoli N,Davey NE,Chemes LB,Gibson TJ (2020) ELM-the eukaryotic linear motif resource in 2020., Nucleic Acids Res, 48, D296-D306. [PubMed][DOI] |
142 |
| GPTwiki | GPTwiki is a product of the collaborative work of the [http://glycoscience.georgetown.edu Clinical and Translational Glycoscience Research Center] at Georgetown University, led by Drs. Goldman, Edwards, and Sanda. | 156 | |
| GlyTouCan | GlyTouCan is the international glycan structure repository. |
Tiemeyer M,Aoki K,Paulson J,Cummings RD,York WS,Karlsson NG,Lisacek F,Packer NH,Campbell MP,Aoki NP,Fujita A,Matsubara M,Shinmachi D,Tsuchiya S,Yamada I,Pierce M,Ranzinger R,Narimatsu H,Aoki-Kinoshita KF (2017) GlyTouCan: an accessible glycan structure repository., Glycobiology, 27, 915-919. [PubMed][DOI] |
8710 |
| Glyconnect | GlyConnect is a platform integrating sources of information to help characterise the molecular components of protein glycosylation. |
Alocci D,Mariethoz J,Gastaldello A,Gasteiger E,Karlsson NG,Kolarich D,Packer NH,Lisacek F (2019) GlyConnect: Glycoproteomics Goes Visual, Interactive, and Analytical., J Proteome Res, 18, 664-677. [PubMed][DOI] |
4299 |
| N-GlycoSiteAtlas | N-GlycositeAtlas was assembled by combining more than 10,000 identified N-glycosylation sites from different biological sources including human-derived tissues, body fluids and cell lines from over 100 studies. |
Sun S,Hu Y,Ao M,Shah P,Chen J,Yang W,Jia X,Tian Y,Thomas S,Zhang H (2019) N-GlycositeAtlas: a database resource for mass spectrometry-based human N-linked glycoprotein and glycosylation site mapping., Clin Proteomics, 16, 35. [PubMed][DOI] |
1221 |
| O-GlycoProteomDB | Database of O-glycoproteins/peptides including information on the site of glycosylation. |
Steentoft C,Vakhrushev SY,Joshi HJ,Kong Y,Vester-Christensen MB,Schjoldager KT,Lavrsen K,Dabelsteen S,Pedersen NB,Marcos-Silva L,Gupta R,Bennett EP,Mandel U,Brunak S,Wandall HH,Levery SB,Clausen H (2013) Precision mapping of the human O-GalNAc glycoproteome through SimpleCell technology., EMBO J, 32, 1478-88. [PubMed][DOI] |
1520 |
| OGlycoBase | O-GLYCBASE is a revised, non-redundant set of O- and C-glycosylated proteins. This data set has been used as the training set of the NetOGlyc prediction server. |
Gupta R,Birch H,Rapacki K,Brunak S,Hansen JE (1999) O-GLYCBASE version 4.0: a revised database of O-glycosylated proteins., Nucleic Acids Res, 27, 370-2. [PubMed][DOI] |
104 |
| PDB | Protein Data Bank |
Berman HM,Westbrook J,Feng Z,Gilliland G,Bhat TN,Weissig H,Shindyalov IN,Bourne PE (2000) The Protein Data Bank., Nucleic Acids Res, 28, 235-42. [PubMed][DOI] |
723 |
| PhosphoSitePlus | Data from PhosphoSitePlus database |
Hornbeck PV,Zhang B,Murray B,Kornhauser JM,Latham V,Skrzypek E (2015) PhosphoSitePlus, 2014: mutations, PTMs and recalibrations., Nucleic Acids Res, 43, D512-20. [PubMed][DOI] |
38005 |
| UniCarbKB | UniCarbKb |
Campbell MP,Packer NH (2016) UniCarbKB: New database features for integrating glycan structure abundance, compositional glycoproteomics data, and disease associations., Biochim Biophys Acta, 1860, 1669-75. [PubMed][DOI] |
2071 |
| UniPep | Unipep is a project to provide access to proteomics data from the Serum Biomarker group at the Swiss Federal Institute of Technology (ETH) in Zurich Switzerland, and the Institute for Systems Biology (ISB) in Seattle, Washington USA. |
Zhang H,Loriaux P,Eng J,Campbell D,Keller A,Moss P,Bonneau R,Zhang N,Zhou Y,Wollscheid B,Cooke K,Yi EC,Lee H,Peskind ER,Zhang J,Smith RD,Aebersold R (2006) UniPep--a database for human N-linked glycosites: a resource for biomarker discovery., Genome Biol, 7, R73. [PubMed][DOI] |
352 |
| dbPTM | A database of protein post-translational modifications including glycosylation. |
Huang KY,Lee TY,Kao HJ,Ma CT,Lee CC,Lin TH,Chang WC,Huang HD (2019) dbPTM in 2019: exploring disease association and cross-talk of post-translational modifications., Nucleic Acids Res, 47, D298-D308. [PubMed][DOI] |
1429 |
PubMed references
| Name | # References | |
|---|---|---|
| Experiments | 384 | |
| Glycans (all) | 1273 | |
| Glycans (collected by PolarProtDb Team) | 17 | |
| Interactions | 385 | |
| Motifs (collected by PolarProtDb Team) | 26 |