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Items: 1 to 50 of 121

1.

Bacterial Feature Finder (BaFF)-a system for extracting features overrepresented in sets of prokaryotic organisms.

López-Ibáñez J, Martín LT, Chagoyen M, Pazos F.

Bioinformatics. 2019 Feb 14. pii: btz099. doi: 10.1093/bioinformatics/btz099. [Epub ahead of print]

PMID:
30844057
2.

Automatic detection of genomic regions with informative epigenetic patterns.

Pazos F, Garcia-Moreno A, Oliveros JC.

BMC Genomics. 2018 Nov 28;19(1):847. doi: 10.1186/s12864-018-5286-5.

3.

Self-association and folding in membrane determine the mode of action of peptides from the lytic segment of sticholysins.

Ros U, Carretero GPB, Paulino J, Crusca E Jr, Pazos F, Cilli EM, Lanio ME, Schreier S, Alvarez C.

Biochimie. 2019 Jan;156:109-117. doi: 10.1016/j.biochi.2018.10.005. Epub 2018 Oct 13.

PMID:
30326255
4.

Effect of the sequence data deluge on the performance of methods for detecting protein functional residues.

Garrido-Martín D, Pazos F.

BMC Bioinformatics. 2018 Feb 27;19(1):67. doi: 10.1186/s12859-018-2084-7.

5.

Sticholysin II-mediated cytotoxicity involves the activation of regulated intracellular responses that anticipates cell death.

Soto C, Bergado G, Blanco R, Griñán T, Rodríguez H, Ros U, Pazos F, Lanio ME, Hernández AM, Álvarez C.

Biochimie. 2018 May;148:18-35. doi: 10.1016/j.biochi.2018.02.006. Epub 2018 Feb 13.

PMID:
29452280
6.

Characteristics and evolution of the ecosystem of software tools supporting research in molecular biology.

Pazos F, Chagoyen M.

Brief Bioinform. 2018 Jan 16. doi: 10.1093/bib/bby001. [Epub ahead of print]

PMID:
29351590
7.

Spanish Consensus Statement: Clinical Management and Treatment of Tendinopathies in Sport.

Spanish Group for Tendon Consensus, Fernandez-Jaén T, Rey GÁ, Angulo F, Cuesta JA, Loureda RA, España FÁ, Ayala J, Matas RB, Pazos FB, de Dios Beas Jiménez J, Rosell JC, Fernandez CC, Del Pilar Doñoro Cuevas M, Ros FE, Colmenero JE, de Prado JF, García Cota JJ, Garrido González JI, de Vega CG, Santander MG, Herrador Munilla MÁ, Ruiz FI, Díaz FJ, Fernandez AM, Marqueta PM, Muñoz Benito JJ, Vilás RO, Pedret C, Teres XP, Amaro JP, Grifell JP, San Roque JP, Parenteu CR, Serna JR, Rodas G, Álvarez MS, Marchori CS, Perez LT, Durán RU, Del Valle Soto M, Villalón Alonso JM, García PG.

Orthop J Sports Med. 2017 Oct 31;5(10):2325967117734127. doi: 10.1177/2325967117734127. eCollection 2017 Oct.

8.

Prevalence of acromegaly in patients with symptoms of sleep apnea.

Sesmilo G, Resmini E, Sambo M, Blanco C, Calvo F, Pazos F, Fernández-Catalina P, Martínez de Icaya P, Páramo C, Fajardo C, Marazuela M, Álvarez-Escolá C, Díez JJ, Perea V; ACROSAHS study group.

PLoS One. 2017 Sep 12;12(9):e0183539. doi: 10.1371/journal.pone.0183539. eCollection 2017.

9.

Biophysical and biochemical strategies to understand membrane binding and pore formation by sticholysins, pore-forming proteins from a sea anemone.

Alvarez C, Ros U, Valle A, Pedrera L, Soto C, Hervis YP, Cabezas S, Valiente PA, Pazos F, Lanio ME.

Biophys Rev. 2017 Oct;9(5):529-544. doi: 10.1007/s12551-017-0316-0. Epub 2017 Aug 29. Review.

10.

Factors affecting interactome-based prediction of human genes associated with clinical signs.

González-Pérez S, Pazos F, Chagoyen M.

BMC Bioinformatics. 2017 Jul 17;18(1):340. doi: 10.1186/s12859-017-1754-1.

11.

Novel Adjuvant Based on the Pore-Forming Protein Sticholysin II Encapsulated into Liposomes Effectively Enhances the Antigen-Specific CTL-Mediated Immune Response.

Laborde RJ, Sanchez-Ferras O, Luzardo MC, Cruz-Leal Y, Fernández A, Mesa C, Oliver L, Canet L, Abreu-Butin L, Nogueira CV, Tejuca M, Pazos F, Álvarez C, Alonso ME, Longo-Maugéri IM, Starnbach MN, Higgins DE, Fernández LE, Lanio ME.

J Immunol. 2017 Apr 1;198(7):2772-2784. doi: 10.4049/jimmunol.1600310. Epub 2017 Mar 3.

12.

The pore forming capacity of Sticholysin I in dipalmitoyl phosphatidyl vesicles is tuned by osmotic stress.

Ahumada M, Calderon C, Lissi E, Alvarez C, Lanio ME, Pazos F.

Chem Phys Lipids. 2017 Mar;203:87-93. doi: 10.1016/j.chemphyslip.2016.12.005. Epub 2016 Dec 31.

PMID:
28048967
13.

A Molecular Basis for the Presentation of Phosphorylated Peptides by HLA-B Antigens.

Alpízar A, Marino F, Ramos-Fernández A, Lombardía M, Jeko A, Pazos F, Paradela A, Santiago C, Heck AJ, Marcilla M.

Mol Cell Proteomics. 2017 Feb;16(2):181-193. doi: 10.1074/mcp.M116.063800. Epub 2016 Dec 5.

14.

Spanish Consensus Statement: The Treatment of Muscle Tears in Sport.

Fernandez-Jaén TF, Rey GÁ, Cuesta JA, Loureda RA, España FÁ, Matas RB, Pazos FB, de Dios Beas Jiménez J, Rosell JC, Fernandez CC, Ros FE, Colmenero JE, de Prado JF, Cota JJ, González JI, Santander MG, Munilla MÁ, Ruiz FI, Díaz FJ, Marqueta PM, Fernandez AM, Benito JJ, Vilás RO, Teres XP, Amaro JP, Roque JP, Parenteu CR, Serna JR, Álvarez MS, Marchori CS, Soto Mdel V, Alonso JM, García PG, de la Iglesia NH, Alcorocho JM.

Orthop J Sports Med. 2016 Feb 4;3(12):2325967115622434. doi: 10.1177/2325967115622434. eCollection 2015 Dec.

15.

Breaking-Cas-interactive design of guide RNAs for CRISPR-Cas experiments for ENSEMBL genomes.

Oliveros JC, Franch M, Tabas-Madrid D, San-León D, Montoliu L, Cubas P, Pazos F.

Nucleic Acids Res. 2016 Jul 8;44(W1):W267-71. doi: 10.1093/nar/gkw407. Epub 2016 May 10.

16.

Functional Analysis of Metabolomics Data.

Chagoyen M, López-Ibáñez J, Pazos F.

Methods Mol Biol. 2016;1415:399-406. doi: 10.1007/978-1-4939-3572-7_20.

PMID:
27115644
17.

MBROLE 2.0-functional enrichment of chemical compounds.

López-Ibáñez J, Pazos F, Chagoyen M.

Nucleic Acids Res. 2016 Jul 8;44(W1):W201-4. doi: 10.1093/nar/gkw253. Epub 2016 Apr 15.

18.

Rare disease relations through common genes and protein interactions.

Fernandez-Novo S, Pazos F, Chagoyen M.

Mol Cell Probes. 2016 Jun;30(3):178-81. doi: 10.1016/j.mcp.2016.03.004. Epub 2016 Mar 16.

PMID:
26995712
19.

Characterization of clinical signs in the human interactome.

Chagoyen M, Pazos F.

Bioinformatics. 2016 Jun 15;32(12):1761-5. doi: 10.1093/bioinformatics/btw054. Epub 2016 Feb 9.

PMID:
26861820
20.

The Presence of Sterols Favors Sticholysin I-Membrane Association and Pore Formation Regardless of Their Ability to Form Laterally Segregated Domains.

Pedrera L, Gomide AB, Sánchez RE, Ros U, Wilke N, Pazos F, Lanio ME, Itri R, Fanani ML, Alvarez C.

Langmuir. 2015 Sep 15;31(36):9911-23. doi: 10.1021/acs.langmuir.5b01687. Epub 2015 Sep 2.

PMID:
26273899
21.

Protein functional features are reflected in the patterns of mRNA translation speed.

López D, Pazos F.

BMC Genomics. 2015 Jul 9;16:513. doi: 10.1186/s12864-015-1734-7.

22.

Practical analysis of specificity-determining residues in protein families.

Chagoyen M, García-Martín JA, Pazos F.

Brief Bioinform. 2016 Mar;17(2):255-61. doi: 10.1093/bib/bbv045. Epub 2015 Jul 2. Review.

PMID:
26141829
23.

Detection of significant protein coevolution.

Ochoa D, Juan D, Valencia A, Pazos F.

Bioinformatics. 2015 Jul 1;31(13):2166-73. doi: 10.1093/bioinformatics/btv102. Epub 2015 Feb 24.

PMID:
25717190
24.

Practical aspects of protein co-evolution.

Ochoa D, Pazos F.

Front Cell Dev Biol. 2014 Apr 22;2:14. doi: 10.3389/fcell.2014.00014. eCollection 2014. Review.

25.

Inactivation of the pore-forming toxin Sticholysin I by peroxynitrite: protection by cys groups incorporated in the toxin.

León L, Lissi EA, Celedón G, Gonzalez G, Pazos F, Alvarez C, Lanio ME.

Protein J. 2014 Oct;33(5):493-501. doi: 10.1007/s10930-014-9582-x.

PMID:
25218252
26.

Rational design of a ligand-based antagonist of jasmonate perception.

Monte I, Hamberg M, Chini A, Gimenez-Ibanez S, García-Casado G, Porzel A, Pazos F, Boter M, Solano R.

Nat Chem Biol. 2014 Aug;10(8):671-6. doi: 10.1038/nchembio.1575. Epub 2014 Jul 6.

PMID:
24997606
27.

Molecular determinants of the ATP hydrolysis asymmetry of the CCT chaperonin complex.

Chagoyen M, Carrascosa JL, Pazos F, Valpuesta JM.

Proteins. 2014 May;82(5):703-7. doi: 10.1002/prot.24510. Epub 2014 Feb 12.

PMID:
24420718
28.

Structural basis for the broad specificity of a new family of amino-acid racemases.

Espaillat A, Carrasco-López C, Bernardo-García N, Pietrosemoli N, Otero LH, Álvarez L, de Pedro MA, Pazos F, Davis BM, Waldor MK, Hermoso JA, Cava F.

Acta Crystallogr D Biol Crystallogr. 2014 Jan;70(Pt 1):79-90. doi: 10.1107/S1399004713024838. Epub 2013 Dec 24.

29.

Solution NMR analysis of the interaction between the actinoporin sticholysin I and DHPC micelles--correlation with backbone dynamics.

López-Castilla A, Pazos F, Schreier S, Pires JR.

Proteins. 2014 Jun;82(6):1022-34. doi: 10.1002/prot.24475. Epub 2013 Dec 6.

PMID:
24218049
30.

Effect of human serum albumin upon the permeabilizing activity of sticholysin II, a pore forming toxin from Stichodactyla heliantus.

Celedón G, González G, Gulppi F, Pazos F, Lanio ME, Alvarez C, Calderón C, Montecinos R, Lissi E.

Protein J. 2013 Dec;32(8):593-600. doi: 10.1007/s10930-013-9521-2.

PMID:
24197505
31.

Protein intrinsic disorder in plants.

Pazos F, Pietrosemoli N, García-Martín JA, Solano R.

Front Plant Sci. 2013 Sep 12;4:363. doi: 10.3389/fpls.2013.00363. Review.

32.

Functional and topological studies with Trp-containing analogs of the peptide StII(1-30) derived from the N-terminus of the pore forming toxin sticholysin II: contribution to understand its orientation in membrane.

Ros U, Souto AL, de Oliveira FJ, Crusca E Jr, Pazos F, Cilli EM, Lanio ME, Schreier S, Alvarez C.

Biopolymers. 2013 Jul;100(4):337-46. doi: 10.1002/bip.22211.

PMID:
23868208
33.

COPRED: prediction of fold, GO molecular function and functional residues at the domain level.

López D, Pazos F.

Bioinformatics. 2013 Jul 15;29(14):1811-2. doi: 10.1093/bioinformatics/btt283. Epub 2013 May 29.

PMID:
23720488
34.

Concomitant prediction of function and fold at the domain level with GO-based profiles.

Lopez D, Pazos F.

BMC Bioinformatics. 2013;14 Suppl 3:S12. doi: 10.1186/1471-2105-14-S3-S12. Epub 2013 Feb 28.

35.

Emerging methods in protein co-evolution.

de Juan D, Pazos F, Valencia A.

Nat Rev Genet. 2013 Apr;14(4):249-61. doi: 10.1038/nrg3414. Epub 2013 Mar 5. Review.

PMID:
23458856
36.

Genome-wide analysis of protein disorder in Arabidopsis thaliana: implications for plant environmental adaptation.

Pietrosemoli N, García-Martín JA, Solano R, Pazos F.

PLoS One. 2013;8(2):e55524. doi: 10.1371/journal.pone.0055524. Epub 2013 Feb 7.

37.

Incorporating information on predicted solvent accessibility to the co-evolution-based study of protein interactions.

Ochoa D, García-Gutiérrez P, Juan D, Valencia A, Pazos F.

Mol Biosyst. 2013 Jan 27;9(1):70-6. doi: 10.1039/c2mb25325a. Epub 2012 Oct 26.

PMID:
23104128
38.

Tools for the functional interpretation of metabolomic experiments.

Chagoyen M, Pazos F.

Brief Bioinform. 2013 Nov;14(6):737-44. doi: 10.1093/bib/bbs055. Epub 2012 Oct 14.

PMID:
23063930
39.

JDet: interactive calculation and visualization of function-related conservation patterns in multiple sequence alignments and structures.

Muth T, García-Martín JA, Rausell A, Juan D, Valencia A, Pazos F.

Bioinformatics. 2012 Feb 15;28(4):584-6. doi: 10.1093/bioinformatics/btr688. Epub 2011 Dec 9.

PMID:
22171333
40.

The membranotropic activity of N-terminal peptides from the pore-forming proteins sticholysin I and II is modulated by hydrophobic and electrostatic interactions as well as lipid composition.

Ros U, Pedrera L, Diaz D, Karam JC, Sudbrack TP, Valiente PA, MartÍnez D, Cilli EM, Pazos F, Itri R, Lanio ME, Schreier S, Ávarez C.

J Biosci. 2011 Dec;36(5):781-91.

PMID:
22116276
41.

Selection of organisms for the co-evolution-based study of protein interactions.

Herman D, Ochoa D, Juan D, Lopez D, Valencia A, Pazos F.

BMC Bioinformatics. 2011 Sep 12;12:363. doi: 10.1186/1471-2105-12-363.

42.

Cys mutants in functional regions of Sticholysin I clarify the participation of these residues in pore formation.

Valle A, López-Castilla A, Pedrera L, Martínez D, Tejuca M, Campos J, Fando R, Lissi E, Alvarez C, Lanio ME, Pazos F, Schreier S.

Toxicon. 2011 Jul;58(1):8-17. doi: 10.1016/j.toxicon.2011.04.005. Epub 2011 Apr 13.

PMID:
21510967
43.

Towards the prediction of protein interaction partners using physical docking.

Wass MN, Fuentes G, Pons C, Pazos F, Valencia A.

Mol Syst Biol. 2011 Feb 15;7:469. doi: 10.1038/msb.2011.3.

44.

Validation of a mutant of the pore-forming toxin sticholysin-I for the construction of proteinase-activated immunotoxins.

Pentón D, Pérez-Barzaga V, Díaz I, Reytor ML, Campos J, Fando R, Calvo L, Cilli EM, Morera V, Castellanos-Serra LR, Pazos F, Lanio ME, Alvarez C, Pons T, Tejuca M.

Protein Eng Des Sel. 2011 Jun;24(6):485-93. doi: 10.1093/protein/gzr002. Epub 2011 Feb 4.

PMID:
21296830
45.

MBRole: enrichment analysis of metabolomic data.

Chagoyen M, Pazos F.

Bioinformatics. 2011 Mar 1;27(5):730-1. doi: 10.1093/bioinformatics/btr001. Epub 2011 Jan 5.

PMID:
21208985
46.

Effect of pre-exposure of human erythrocytes to oxidants on the haemolytic activity of Sticholysin II. A comparison between peroxynitrite and hypochlorous acid.

Celedón G, González G, Lissi E, Cerda T, Bascuñant D, Lepeley M, Pazos F, Lanio ME, Alvarez C.

Free Radic Res. 2011 Apr;45(4):400-8. doi: 10.3109/10715762.2010.536838. Epub 2010 Nov 30.

PMID:
21117890
47.

Retraction.

Beloqui A, Guazzaroni ME, Pazos F, Vieites JM, Godoy M, Golyshina OV, Chernikova TN, Waliczek A, Silva-Rocha R, Al-Ramahi Y, La Cono V, Mendez C, Salas JA, Solano R, Yakimov MM, Timmis KN, Golyshin PN, Ferrer M.

Science. 2010 Nov 12;330(6006):912. doi: 10.1126/science.330.6006.912-a. No abstract available.

PMID:
21071648
48.

Genetic polymorphisms among C57BL/6 mouse inbred strains.

Zurita E, Chagoyen M, Cantero M, Alonso R, González-Neira A, López-Jiménez A, López-Moreno JA, Landel CP, Benítez J, Pazos F, Montoliu L.

Transgenic Res. 2011 Jun;20(3):481-9. doi: 10.1007/s11248-010-9403-8. Epub 2010 May 27.

PMID:
20506040
49.
50.

Studying the co-evolution of protein families with the Mirrortree web server.

Ochoa D, Pazos F.

Bioinformatics. 2010 May 15;26(10):1370-1. doi: 10.1093/bioinformatics/btq137. Epub 2010 Mar 30.

PMID:
20363731

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