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Items: 15

1.

Modularity of Protein Folds as a Tool for Template-Free Modeling of Structures.

Vallat B, Madrid-Aliste C, Fiser A.

PLoS Comput Biol. 2015 Aug 7;11(8):e1004419. doi: 10.1371/journal.pcbi.1004419. eCollection 2015 Aug.

2.

Buprenorphine decreases the CCL2-mediated chemotactic response of monocytes.

Carvallo L, Lopez L, Che FY, Lim J, Eugenin EA, Williams DW, Nieves E, Calderon TM, Madrid-Aliste C, Fiser A, Weiss L, Angeletti RH, Berman JW.

J Immunol. 2015 Apr 1;194(7):3246-58. doi: 10.4049/jimmunol.1302647. Epub 2015 Feb 25.

3.

Trends in structural coverage of the protein universe and the impact of the Protein Structure Initiative.

Khafizov K, Madrid-Aliste C, Almo SC, Fiser A.

Proc Natl Acad Sci U S A. 2014 Mar 11;111(10):3733-8. doi: 10.1073/pnas.1321614111. Epub 2014 Feb 24. Erratum in: Proc Natl Acad Sci U S A. 2014 Apr 1;111(13):E1159.

4.

The histone code of Toxoplasma gondii comprises conserved and unique posttranslational modifications.

Nardelli SC, Che FY, Silmon de Monerri NC, Xiao H, Nieves E, Madrid-Aliste C, Angel SO, Sullivan WJ Jr, Angeletti RH, Kim K, Weiss LM.

MBio. 2013 Dec 10;4(6):e00922-13. doi: 10.1128/mBio.00922-13.

5.

Enhanced detection of multiply phosphorylated peptides and identification of their sites of modification.

Fleitz A, Nieves E, Madrid-Aliste C, Fentress SJ, Sibley LD, Weiss LM, Angeletti RH, Che FY.

Anal Chem. 2013 Sep 17;85(18):8566-76. doi: 10.1021/ac401691g. Epub 2013 Aug 29.

6.

Analysis of the glycoproteome of Toxoplasma gondii using lectin affinity chromatography and tandem mass spectrometry.

Luo Q, Upadhya R, Zhang H, Madrid-Aliste C, Nieves E, Kim K, Angeletti RH, Weiss LM.

Microbes Infect. 2011 Dec;13(14-15):1199-210. doi: 10.1016/j.micinf.2011.08.013. Epub 2011 Aug 31.

7.

Frozen tissue can provide reproducible proteomic results of subcellular fractionation.

Lim J, Menon V, Bitzer M, Miller LM, Madrid-Aliste C, Weiss LM, Fiser A, Angeletti RH.

Anal Biochem. 2011 Nov 1;418(1):78-84. doi: 10.1016/j.ab.2011.06.045. Epub 2011 Jul 13.

8.

A nuclear variant of ErbB3 receptor tyrosine kinase regulates ezrin distribution and Schwann cell myelination.

Adilakshmi T, Ness-Myers J, Madrid-Aliste C, Fiser A, Tapinos N.

J Neurosci. 2011 Mar 30;31(13):5106-19. doi: 10.1523/JNEUROSCI.5635-10.2011.

9.

Comprehensive proteomic analysis of membrane proteins in Toxoplasma gondii.

Che FY, Madrid-Aliste C, Burd B, Zhang H, Nieves E, Kim K, Fiser A, Angeletti RH, Weiss LM.

Mol Cell Proteomics. 2011 Jan;10(1):M110.000745. doi: 10.1074/mcp.M110.000745. Epub 2010 Oct 10.

10.

EPIC-DB: a proteomics database for studying Apicomplexan organisms.

Madrid-Aliste CJ, Dybas JM, Angeletti RH, Weiss LM, Kim K, Simon I, Fiser A.

BMC Genomics. 2009 Jan 21;10:38. doi: 10.1186/1471-2164-10-38.

11.

Computational analysis and experimental validation of gene predictions in Toxoplasma gondii.

Dybas JM, Madrid-Aliste CJ, Che FY, Nieves E, Rykunov D, Angeletti RH, Weiss LM, Kim K, Fiser A.

PLoS One. 2008;3(12):e3899. doi: 10.1371/journal.pone.0003899. Epub 2008 Dec 9.

12.

Improved scoring function for comparative modeling using the M4T method.

Rykunov D, Steinberger E, Madrid-Aliste CJ, Fiser A.

J Struct Funct Genomics. 2009 Mar;10(1):95-9. doi: 10.1007/s10969-008-9044-9. Epub 2008 Nov 5.

13.

Comparative protein structure modeling by combining multiple templates and optimizing sequence-to-structure alignments.

Fernandez-Fuentes N, Rai BK, Madrid-Aliste CJ, Fajardo JE, Fiser A.

Bioinformatics. 2007 Oct 1;23(19):2558-65. Epub 2007 Sep 6.

PMID:
17823132
14.

M4T: a comparative protein structure modeling server.

Fernandez-Fuentes N, Madrid-Aliste CJ, Rai BK, Fajardo JE, Fiser A.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W363-8. Epub 2007 May 21.

15.

MMM: a sequence-to-structure alignment protocol.

Rai BK, Madrid-Aliste CJ, Fajardo JE, Fiser A.

Bioinformatics. 2006 Nov 1;22(21):2691-2. Epub 2006 Aug 23.

PMID:
16928737

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