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Items: 13

1.

The minimum information required for a glycomics experiment (MIRAGE) project: improving the standards for reporting glycan microarray-based data.

Liu Y, McBride R, Stoll M, Palma AS, Silva L, Agravat S, Aoki-Kinoshita KF, Campbell MP, Costello CE, Dell A, Haslam SM, Karlsson NG, Khoo KH, Kolarich D, Novotny MV, Packer NH, Ranzinger R, Rapp E, Rudd PM, Struwe WB, Tiemeyer M, Wells L, York WS, Zaia J, Kettner C, Paulson JC, Feizi T, Smith DF.

Glycobiology. 2017 Apr;27(4):280-284. Epub 2016 Nov 22.

2.

The minimum information required for a glycomics experiment (MIRAGE) project: sample preparation guidelines for reliable reporting of glycomics datasets.

Struwe WB, Agravat S, Aoki-Kinoshita KF, Campbell MP, Costello CE, Dell A, Ten Feizi, Haslam SM, Karlsson NG, Khoo KH, Kolarich D, Liu Y, McBride R, Novotny MV, Packer NH, Paulson JC, Rapp E, Ranzinger R, Rudd PM, Smith DF, Tiemeyer M, Wells L, York WS, Zaia J, Kettner C.

Glycobiology. 2016 Sep;26(9):907-910. Epub 2016 Sep 21.

3.

Metadata-driven Clinical Data Loading into i2b2 for Clinical and Translational Science Institutes.

Post AR, Pai AK, Willard R, May BJ, West AC, Agravat S, Granite SJ, Winslow RL, Stephens DS.

AMIA Jt Summits Transl Sci Proc. 2016 Jul 20;2016:184-93. eCollection 2016.

4.

Computational approaches to define a human milk metaglycome.

Agravat SB, Song X, Rojsajjakul T, Cummings RD, Smith DF.

Bioinformatics. 2016 May 15;32(10):1471-8. doi: 10.1093/bioinformatics/btw048. Epub 2016 Jan 23.

5.

GlyTouCan 1.0--The international glycan structure repository.

Aoki-Kinoshita K, Agravat S, Aoki NP, Arpinar S, Cummings RD, Fujita A, Fujita N, Hart GM, Haslam SM, Kawasaki T, Matsubara M, Moreman KW, Okuda S, Pierce M, Ranzinger R, Shikanai T, Shinmachi D, Solovieva E, Suzuki Y, Tsuchiya S, Yamada I, York WS, Zaia J, Narimatsu H.

Nucleic Acids Res. 2016 Jan 4;44(D1):D1237-42. doi: 10.1093/nar/gkv1041. Epub 2015 Oct 17.

6.

GlycoPattern: a web platform for glycan array mining.

Agravat SB, Saltz JH, Cummings RD, Smith DF.

Bioinformatics. 2014 Dec 1;30(23):3417-8. doi: 10.1093/bioinformatics/btu559. Epub 2014 Aug 20.

7.

MIRAGE: the minimum information required for a glycomics experiment.

York WS, Agravat S, Aoki-Kinoshita KF, McBride R, Campbell MP, Costello CE, Dell A, Feizi T, Haslam SM, Karlsson N, Khoo KH, Kolarich D, Liu Y, Novotny M, Packer NH, Paulson JC, Rapp E, Ranzinger R, Rudd PM, Smith DF, Struwe WB, Tiemeyer M, Wells L, Zaia J, Kettner C.

Glycobiology. 2014 May;24(5):402-6. doi: 10.1093/glycob/cwu018. Epub 2014 Mar 20.

8.

Temporal abstraction-based clinical phenotyping with Eureka!

Post AR, Kurc T, Willard R, Rathod H, Mansour M, Pai AK, Torian WM, Agravat S, Sturm S, Saltz JH.

AMIA Annu Symp Proc. 2013 Nov 16;2013:1160-9. eCollection 2013.

9.

Semantic ETL into i2b2 with Eureka!

Post AR, Krc T, Rathod H, Agravat S, Mansour M, Torian W, Saltz JH.

AMIA Jt Summits Transl Sci Proc. 2013 Mar 18;2013:203-7. eCollection 2013.

10.

The minimum information required for a glycomics experiment (MIRAGE) project: improving the standards for reporting mass-spectrometry-based glycoanalytic data.

Kolarich D, Rapp E, Struwe WB, Haslam SM, Zaia J, McBride R, Agravat S, Campbell MP, Kato M, Ranzinger R, Kettner C, York WS.

Mol Cell Proteomics. 2013 Apr;12(4):991-5. doi: 10.1074/mcp.O112.026492. Epub 2013 Feb 1.

11.

Automated motif discovery from glycan array data.

Cholleti SR, Agravat S, Morris T, Saltz JH, Song X, Cummings RD, Smith DF.

OMICS. 2012 Oct;16(10):497-512. Epub 2012 Aug 9.

12.

BSMac: a MATLAB toolbox implementing a Bayesian spatial model for brain activation and connectivity.

Zhang L, Agravat S, Derado G, Chen S, McIntosh BJ, Bowman FD.

J Neurosci Methods. 2012 Feb 15;204(1):133-143. doi: 10.1016/j.jneumeth.2011.10.025. Epub 2011 Nov 10.

13.

Immunogenetic Management Software: a new tool for visualization and analysis of complex immunogenetic datasets.

Johnson ZP, Eady RD, Ahmad SF, Agravat S, Morris T, Else J, Lank SM, Wiseman RW, O'Connor DH, Penedo MC, Larsen CP, Kean LS.

Immunogenetics. 2012 Apr;64(4):329-36. doi: 10.1007/s00251-011-0587-8. Epub 2011 Nov 15.

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