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Items: 1 to 20 of 93

1.

Towards a standardized bioinformatics infrastructure for N- and O-glycomics.

Rojas-Macias MA, Mariethoz J, Andersson P, Jin C, Venkatakrishnan V, Aoki NP, Shinmachi D, Ashwood C, Madunic K, Zhang T, Miller RL, Horlacher O, Struwe WB, Watanabe Y, Okuda S, Levander F, Kolarich D, Rudd PM, Wuhrer M, Kettner C, Packer NH, Aoki-Kinoshita KF, Lisacek F, Karlsson NG.

Nat Commun. 2019 Jul 22;10(1):3275. doi: 10.1038/s41467-019-11131-x. Review.

PMID:
31332201
2.

Updates to the Symbol Nomenclature for Glycans guidelines.

Neelamegham S, Aoki-Kinoshita K, Bolton E, Frank M, Lisacek F, Lütteke T, O'Boyle N, Packer NH, Stanley P, Toukach P, Varki A, Woods RJ; SNFG Discussion Group .

Glycobiology. 2019 Aug 20;29(9):620-624. doi: 10.1093/glycob/cwz045.

PMID:
31184695
3.

A targeted proteomics approach reveals a serum protein signature as diagnostic biomarker for resectable gastric cancer.

Shen Q, Polom K, Williams C, de Oliveira FMS, Guergova-Kuras M, Lisacek F, Karlsson NG, Roviello F, Kamali-Moghaddam M.

EBioMedicine. 2019 Jun;44:322-333. doi: 10.1016/j.ebiom.2019.05.044. Epub 2019 May 28.

4.

A Bioinformatics View of Glycan⁻Virus Interactions.

Le Mercier P, Mariethoz J, Lascano-Maillard J, Bonnardel F, Imberty A, Ricard-Blum S, Lisacek F.

Viruses. 2019 Apr 23;11(4). pii: E374. doi: 10.3390/v11040374. Review.

5.

Sweet and Sour Ehrlichia: Glycoproteomics and Phosphoproteomics Reveal New Players in Ehrlichia ruminantium Physiology and Pathogenesis.

Marcelino I, Colomé-Calls N, Holzmuller P, Lisacek F, Reynaud Y, Canals F, Vachiéry N.

Front Microbiol. 2019 Mar 15;10:450. doi: 10.3389/fmicb.2019.00450. eCollection 2019.

6.

Architecture and Evolution of Blade Assembly in β-propeller Lectins.

Bonnardel F, Kumar A, Wimmerova M, Lahmann M, Perez S, Varrot A, Lisacek F, Imberty A.

Structure. 2019 May 7;27(5):764-775.e3. doi: 10.1016/j.str.2019.02.002. Epub 2019 Mar 7.

PMID:
30853410
7.

Correction to "Large-Scale Reanalysis of Publicly Available HeLa Cell Proteomics Data in the Context of the Human Proteome Project".

Robin T, Bairoch A, Müller M, Lisacek F, Lane L.

J Proteome Res. 2019 Apr 5;18(4):1926-1927. doi: 10.1021/acs.jproteome.9b00113. Epub 2019 Feb 25. No abstract available.

PMID:
30802063
8.

rBAN: retro-biosynthetic analysis of nonribosomal peptides.

Ricart E, Leclère V, Flissi A, Mueller M, Pupin M, Lisacek F.

J Cheminform. 2019 Feb 8;11(1):13. doi: 10.1186/s13321-019-0335-x.

9.

GlyConnect: Glycoproteomics Goes Visual, Interactive, and Analytical.

Alocci D, Mariethoz J, Gastaldello A, Gasteiger E, Karlsson NG, Kolarich D, Packer NH, Lisacek F.

J Proteome Res. 2019 Feb 1;18(2):664-677. doi: 10.1021/acs.jproteome.8b00766. Epub 2019 Jan 15.

PMID:
30574787
10.

SugarSketcher: Quick and Intuitive Online Glycan Drawing.

Alocci D, Suchánková P, Costa R, Hory N, Mariethoz J, Vařeková RS, Toukach P, Lisacek F.

Molecules. 2018 Dec 5;23(12). pii: E3206. doi: 10.3390/molecules23123206.

11.

UniLectin3D, a database of carbohydrate binding proteins with curated information on 3D structures and interacting ligands.

Bonnardel F, Mariethoz J, Salentin S, Robin X, Schroeder M, Perez S, Lisacek F, Imberty A.

Nucleic Acids Res. 2019 Jan 8;47(D1):D1236-D1244. doi: 10.1093/nar/gky832.

12.

A pipeline to translate glycosaminoglycan sequences into 3D models. Application to the exploration of glycosaminoglycan conformational space.

Clerc O, Mariethoz J, Rivet A, Lisacek F, Pérez S, Ricard-Blum S.

Glycobiology. 2019 Jan 1;29(1):36-44. doi: 10.1093/glycob/cwy084.

PMID:
30239692
13.

Large-Scale Reanalysis of Publicly Available HeLa Cell Proteomics Data in the Context of the Human Proteome Project.

Robin T, Bairoch A, Müller M, Lisacek F, Lane L.

J Proteome Res. 2018 Dec 7;17(12):4160-4170. doi: 10.1021/acs.jproteome.8b00392. Epub 2018 Sep 17. Erratum in: J Proteome Res. 2019 Apr 5;18(4):1926-1927.

PMID:
30175587
14.

Glycomics@ExPASy: Bridging the Gap.

Mariethoz J, Alocci D, Gastaldello A, Horlacher O, Gasteiger E, Rojas-Macias M, Karlsson NG, Packer NH, Lisacek F.

Mol Cell Proteomics. 2018 Nov;17(11):2164-2176. doi: 10.1074/mcp.RA118.000799. Epub 2018 Aug 10.

15.

Understanding the glycome: an interactive view of glycosylation from glycocompositions to glycoepitopes.

Alocci D, Ghraichy M, Barletta E, Gastaldello A, Mariethoz J, Lisacek F.

Glycobiology. 2018 Jun 1;28(6):349-362. doi: 10.1093/glycob/cwy019.

PMID:
29518231
16.

PepSweetener: A Web-Based Tool to Support Manual Annotation of Intact Glycopeptide MS Spectra.

Domagalski MJ, Alocci D, Almeida A, Kolarich D, Lisacek F.

Proteomics Clin Appl. 2018 Sep;12(5):e1700069. doi: 10.1002/prca.201700069. Epub 2017 Oct 30.

PMID:
28975713
17.

GlyTouCan: an accessible 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.

Glycobiology. 2017 Oct 1;27(10):915-919. doi: 10.1093/glycob/cwx066.

18.

Glycoforest 1.0.

Horlacher O, Jin C, Alocci D, Mariethoz J, Müller M, Karlsson NG, Lisacek F.

Anal Chem. 2017 Oct 17;89(20):10932-10940. doi: 10.1021/acs.analchem.7b02754. Epub 2017 Sep 25.

PMID:
28901741
19.

Glycoinformatics.

Campbell MP, Aoki-Kinoshita KF, Lisacek F, York WS, Packer NH.

In: Varki A, Cummings RD, Esko JD, Stanley P, Hart GW, Aebi M, Darvill AG, Kinoshita T, Packer NH, Prestegard JH, Schnaar RL, Seeberger PH, editors. Essentials of Glycobiology [Internet]. 3rd edition. Cold Spring Harbor (NY): Cold Spring Harbor Laboratory Press; 2015-2017. Chapter 52.
2017.

20.

A community proposal to integrate proteomics activities in ELIXIR.

Vizcaíno JA, Walzer M, Jiménez RC, Bittremieux W, Bouyssié D, Carapito C, Corrales F, Ferro M, Heck AJR, Horvatovich P, Hubalek M, Lane L, Laukens K, Levander F, Lisacek F, Novak P, Palmblad M, Piovesan D, Pühler A, Schwämmle V, Valkenborg D, van Rijswijk M, Vondrasek J, Eisenacher M, Martens L, Kohlbacher O.

F1000Res. 2017 Jun 13;6. pii: ELIXIR-875. doi: 10.12688/f1000research.11751.1. eCollection 2017.

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