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Results: 1 to 20 of 59

1.

Tools for protein posttranslational modifications analysis: FAK, a case study.

Fonseca C, Voabil P, Carvalho AS, Matthiesen R.

Methods Mol Biol. 2013;1007:335-58. doi: 10.1007/978-1-62703-392-3_15.

PMID:
23666734
[PubMed - indexed for MEDLINE]
2.

Methods and algorithms for quantitative proteomics by mass spectrometry.

Matthiesen R, Carvalho AS.

Methods Mol Biol. 2013;1007:183-217. doi: 10.1007/978-1-62703-392-3_8.

PMID:
23666727
[PubMed - indexed for MEDLINE]
3.

Interpretation of tandem mass spectra of posttranslationally modified peptides.

Bunkenborg J, Matthiesen R.

Methods Mol Biol. 2013;1007:139-71. doi: 10.1007/978-1-62703-392-3_6.

PMID:
23666725
[PubMed - indexed for MEDLINE]
4.

Algorithms for database-dependent search of MS/MS data.

Matthiesen R.

Methods Mol Biol. 2013;1007:119-38. doi: 10.1007/978-1-62703-392-3_5.

PMID:
23666724
[PubMed - indexed for MEDLINE]
5.

LC-MS spectra processing.

Matthiesen R.

Methods Mol Biol. 2013;1007:47-63. doi: 10.1007/978-1-62703-392-3_2.

PMID:
23666721
[PubMed - indexed for MEDLINE]
6.

Introduction to mass spectrometry-based proteomics.

Matthiesen R, Bunkenborg J.

Methods Mol Biol. 2013;1007:1-45. doi: 10.1007/978-1-62703-392-3_1.

PMID:
23666720
[PubMed - indexed for MEDLINE]
7.

Human spermatogenic failure purges deleterious mutation load from the autosomes and both sex chromosomes, including the gene DMRT1.

Lopes AM, Aston KI, Thompson E, Carvalho F, Gonçalves J, Huang N, Matthiesen R, Noordam MJ, Quintela I, Ramu A, Seabra C, Wilfert AB, Dai J, Downie JM, Fernandes S, Guo X, Sha J, Amorim A, Barros A, Carracedo A, Hu Z, Hurles ME, Moskovtsev S, Ober C, Paduch DA, Schiffman JD, Schlegel PN, Sousa M, Carrell DT, Conrad DF.

PLoS Genet. 2013 Mar;9(3):e1003349. doi: 10.1371/journal.pgen.1003349. Epub 2013 Mar 21.

PMID:
23555275
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

PAnalyzer: a software tool for protein inference in shotgun proteomics.

Prieto G, Aloria K, Osinalde N, Fullaondo A, Arizmendi JM, Matthiesen R.

BMC Bioinformatics. 2012 Nov 5;13:288. doi: 10.1186/1471-2105-13-288.

PMID:
23126499
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Strategies to Identify Recognition Signals and Targets of SUMOylation.

Da Silva-Ferrada E, Lopitz-Otsoa F, Lang V, Rodríguez MS, Matthiesen R.

Biochem Res Int. 2012;2012:875148. doi: 10.1155/2012/875148. Epub 2012 Jul 1.

PMID:
22811915
[PubMed]
Free PMC Article
10.

SIR: Deterministic protein inference from peptides assigned to MS data.

Matthiesen R, Prieto G, Amorim A, Aloria K, Fullaondo A, Carvalho AS, Arizmendi JM.

J Proteomics. 2012 Jul 16;75(13):4176-83. doi: 10.1016/j.jprot.2012.05.010. Epub 2012 May 14.

PMID:
22626983
[PubMed - indexed for MEDLINE]
11.

Integrative analysis of the ubiquitin proteome isolated using Tandem Ubiquitin Binding Entities (TUBEs).

Lopitz-Otsoa F, Rodriguez-Suarez E, Aillet F, Casado-Vela J, Lang V, Matthiesen R, Elortza F, Rodriguez MS.

J Proteomics. 2012 Jun 6;75(10):2998-3014. doi: 10.1016/j.jprot.2011.12.001. Epub 2011 Dec 10.

PMID:
22178446
[PubMed - indexed for MEDLINE]
12.

Gains, losses and changes of function after gene duplication: study of the metallothionein family.

Moleirinho A, Carneiro J, Matthiesen R, Silva RM, Amorim A, Azevedo L.

PLoS One. 2011 Apr 25;6(4):e18487. doi: 10.1371/journal.pone.0018487.

PMID:
21541013
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

Discussion on common data analysis strategies used in MS-based proteomics.

Matthiesen R, Azevedo L, Amorim A, Carvalho AS.

Proteomics. 2011 Feb;11(4):604-19. doi: 10.1002/pmic.201000404. Epub 2011 Jan 17. Review.

PMID:
21241018
[PubMed - indexed for MEDLINE]
14.

Functional blockade of α5β1 integrin induces scattering and genomic landscape remodeling of hepatic progenitor cells.

Vellón L, Royo F, Matthiesen R, Torres-Fuenzalida J, Lorenti A, Parada LA.

BMC Cell Biol. 2010 Oct 19;11:81. doi: 10.1186/1471-2121-11-81.

PMID:
20958983
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Identification of species by multiplex analysis of variable-length sequences.

Pereira F, Carneiro J, Matthiesen R, van Asch B, Pinto N, Gusmão L, Amorim A.

Nucleic Acids Res. 2010 Dec;38(22):e203. doi: 10.1093/nar/gkq865. Epub 2010 Oct 4.

PMID:
20923781
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Comparative analyses of the Conserved Oligomeric Golgi (COG) complex in vertebrates.

Quental R, Azevedo L, Matthiesen R, Amorim A.

BMC Evol Biol. 2010 Jul 15;10:212. doi: 10.1186/1471-2148-10-212.

PMID:
20633274
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Virtual expert mass spectrometrist: iTRAQ tool for database-dependent search, quantitation and result storage.

Rodríguez-Suárez E, Gubb E, Alzueta IF, Falcón-Pérez JM, Amorim A, Elortza F, Matthiesen R.

Proteomics. 2010 Apr;10(8):1545-56. doi: 10.1002/pmic.200900255.

PMID:
20140907
[PubMed - indexed for MEDLINE]
18.

Identification of salt-tolerant Sinorhizobium sp. strain BL3 membrane proteins based on proteomics.

Tanthanuch W, Tittabutr P, Mohammed S, Matthiesen R, Yamabhai M, Manassila M, Jensen ON, Boonkerd N, Teaumroong N.

Microbes Environ. 2010;25(4):275-80.

PMID:
21576882
[PubMed - indexed for MEDLINE]
Free Article
19.

Algorithms and methods for correlating experimental results with annotation databases.

Hackenberg M, Matthiesen R.

Methods Mol Biol. 2010;593:315-40. doi: 10.1007/978-1-60327-194-3_15.

PMID:
19957156
[PubMed - indexed for MEDLINE]
20.

Computational methods for analysis of two-dimensional gels.

Lasso G, Matthiesen R.

Methods Mol Biol. 2010;593:231-62. doi: 10.1007/978-1-60327-194-3_12.

PMID:
19957153
[PubMed - indexed for MEDLINE]

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