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Items: 1 to 20 of 106

1.

LipidHome: a database of theoretical lipids optimized for high throughput mass spectrometry lipidomics.

Foster JM, Moreno P, Fabregat A, Hermjakob H, Steinbeck C, Apweiler R, Wakelam MJ, Vizcaíno JA.

PLoS One. 2013 May 7;8(5):e61951. doi: 10.1371/journal.pone.0061951.

2.

The SwissLipids knowledgebase for lipid biology.

Aimo L, Liechti R, Hyka-Nouspikel N, Niknejad A, Gleizes A, Götz L, Kuznetsov D, David FP, van der Goot FG, Riezman H, Bougueleret L, Xenarios I, Bridge A.

Bioinformatics. 2015 Sep 1;31(17):2860-6. doi: 10.1093/bioinformatics/btv285.

3.

UniProtKB/Swiss-Prot, the Manually Annotated Section of the UniProt KnowledgeBase: How to Use the Entry View.

Boutet E, Lieberherr D, Tognolli M, Schneider M, Bansal P, Bridge AJ, Poux S, Bougueleret L, Xenarios I.

Methods Mol Biol. 2016;1374:23-54. doi: 10.1007/978-1-4939-3167-5_2.

PMID:
26519399
4.

The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology.

Camon E, Magrane M, Barrell D, Lee V, Dimmer E, Maslen J, Binns D, Harte N, Lopez R, Apweiler R.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D262-6.

5.

The Universal Protein Resource (UniProt) in 2010.

UniProt Consortium..

Nucleic Acids Res. 2010 Jan;38(Database issue):D142-8. doi: 10.1093/nar/gkp846.

6.

The RESID Database of Protein Modifications as a resource and annotation tool.

Garavelli JS.

Proteomics. 2004 Jun;4(6):1527-33.

PMID:
15174122
7.

LMPD: LIPID MAPS proteome database.

Cotter D, Maer A, Guda C, Saunders B, Subramaniam S.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D507-10.

8.

The Proteomics Identifications database: 2010 update.

Vizcaíno JA, Côté R, Reisinger F, Barsnes H, Foster JM, Rameseder J, Hermjakob H, Martens L.

Nucleic Acids Res. 2010 Jan;38(Database issue):D736-42. doi: 10.1093/nar/gkp964.

9.

ms-data-core-api: an open-source, metadata-oriented library for computational proteomics.

Perez-Riverol Y, Uszkoreit J, Sanchez A, Ternent T, Del Toro N, Hermjakob H, Vizcaíno JA, Wang R.

Bioinformatics. 2015 Sep 1;31(17):2903-5. doi: 10.1093/bioinformatics/btv250.

10.

Introducing the PRIDE Archive RESTful web services.

Reisinger F, del-Toro N, Ternent T, Hermjakob H, Vizcaíno JA.

Nucleic Acids Res. 2015 Jul 1;43(W1):W599-604. doi: 10.1093/nar/gkv382.

11.

Prototype semantic infrastructure for automated small molecule classification and annotation in lipidomics.

Chepelev LL, Riazanov A, Kouznetsov A, Low HS, Dumontier M, Baker CJ.

BMC Bioinformatics. 2011 Jul 26;12:303. doi: 10.1186/1471-2105-12-303.

12.

PRIDE and "Database on Demand" as valuable tools for computational proteomics.

Vizcaíno JA, Reisinger F, Côté R, Martens L.

Methods Mol Biol. 2011;696:93-105. doi: 10.1007/978-1-60761-987-1_6.

PMID:
21063943
13.

Bioinformatics tools and challenges in structural analysis of lipidomics MS/MS data.

Hartler J, Tharakan R, Köfeler HC, Graham DR, Thallinger GG.

Brief Bioinform. 2013 May;14(3):375-90. doi: 10.1093/bib/bbs030.

14.

Profiling of Yeast Lipids by Shotgun Lipidomics.

Klose C, Tarasov K.

Methods Mol Biol. 2016;1361:309-24. doi: 10.1007/978-1-4939-3079-1_17.

PMID:
26483029
15.

MetaBasis: a web-based database containing metadata on software tools and databases in the field of bioinformatics.

Atlamazoglou V, Thireou T, Hamodrakas Y, Spyrou G.

Appl Bioinformatics. 2006;5(3):187-92.

PMID:
16922600
16.

E-MSD: an integrated data resource for bioinformatics.

Velankar S, McNeil P, Mittard-Runte V, Suarez A, Barrell D, Apweiler R, Henrick K.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D262-5.

17.

Qupe--a Rich Internet Application to take a step forward in the analysis of mass spectrometry-based quantitative proteomics experiments.

Albaum SP, Neuweger H, Fränzel B, Lange S, Mertens D, Trötschel C, Wolters D, Kalinowski J, Nattkemper TW, Goesmann A.

Bioinformatics. 2009 Dec 1;25(23):3128-34. doi: 10.1093/bioinformatics/btp568.

18.

Lipidomics from an analytical perspective.

Sandra K, Sandra P.

Curr Opin Chem Biol. 2013 Oct;17(5):847-53. doi: 10.1016/j.cbpa.2013.06.010. Review.

PMID:
23830914
19.

Structural characterization of ether lipids from the archaeon Sulfolobus islandicus by high-resolution shotgun lipidomics.

Jensen SM, Brandl M, Treusch AH, Ejsing CS.

J Mass Spectrom. 2015 Mar;50(3):476-87. doi: 10.1002/jms.3553.

PMID:
25800184
20.

The EMBL-EBI bioinformatics web and programmatic tools framework.

Li W, Cowley A, Uludag M, Gur T, McWilliam H, Squizzato S, Park YM, Buso N, Lopez R.

Nucleic Acids Res. 2015 Jul 1;43(W1):W580-4. doi: 10.1093/nar/gkv279.

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