PubMed

The GlycanBuilder: a fast, intuitive and flexible software tool for building and displaying glycan structures.

Ceroni A, Dell A, Haslam SM.

Source Code Biol Med. 2007 Aug 7;2:3.PMID: 17683623 [PubMed - in process]Related articlesFree article

GlycoWorkbench: a tool for the computer-assisted annotation of mass spectra of glycans.

Ceroni A, Maass K, Geyer H, Geyer R, Dell A, Haslam SM.

J Proteome Res. 2008 Apr;7(4):1650-9. Epub 2008 Mar 1.PMID: 18311910 [PubMed - indexed for MEDLINE]Related articles

KCaM (KEGG Carbohydrate Matcher): a software tool for analyzing the structures of carbohydrate sugar chains.

Aoki KF, Yamaguchi A, Ueda N, Akutsu T, Mamitsuka H, Goto S, Kanehisa M.

Nucleic Acids Res. 2004 Jul 1;32(Web Server issue):W267-72.PMID: 15215393 [PubMed - indexed for MEDLINE]Related articlesFree article

Modeling biochemical transformation processes and information processing with Narrator.

Mandel JJ, Fuss H, Palfreyman NM, Dubitzky W.

BMC Bioinformatics. 2007 Mar 27;8:103.PMID: 17389034 [PubMed - indexed for MEDLINE]Related articlesFree article

Encoding and decoding graphical chemical structures as two-dimensional (PDF417) barcodes.

Karthikeyan M, Bender A.

J Chem Inf Model. 2005 May-Jun;45(3):572-80.PMID: 15921447 [PubMed]Related articles

FASTR3D: a fast and accurate search tool for similar RNA 3D structures.

Lai CE, Tsai MY, Liu YC, Wang CW, Chen KT, Lu CL.

Nucleic Acids Res. 2009 Jul 1;37(Web Server issue):W287-95. Epub 2009 May 12.PMID: 19435878 [PubMed - indexed for MEDLINE]Related articlesFree article

KEGG as a glycome informatics resource.

Hashimoto K, Goto S, Kawano S, Aoki-Kinoshita KF, Ueda N, Hamajima M, Kawasaki T, Kanehisa M.

Glycobiology. 2006 May;16(5):63R-70R. Epub 2005 Jul 13. Review.PMID: 16014746 [PubMed - indexed for MEDLINE]Related articlesFree article

The APEX Quantitative Proteomics Tool: generating protein quantitation estimates from LC-MS/MS proteomics results.

Braisted JC, Kuntumalla S, Vogel C, Marcotte EM, Rodrigues AR, Wang R, Huang ST, Ferlanti ES, Saeed AI, Fleischmann RD, Peterson SN, Pieper R.

BMC Bioinformatics. 2008 Dec 9;9:529.PMID: 19068132 [PubMed - indexed for MEDLINE]Related articlesFree article

FunClust: a web server for the identification of structural motifs in a set of non-homologous protein structures.

Ausiello G, Gherardini PF, Marcatili P, Tramontano A, Via A, Helmer-Citterich M.

BMC Bioinformatics. 2008 Mar 26;9 Suppl 2:S2.PMID: 18387204 [PubMed - indexed for MEDLINE]Related articlesFree article

SeqX: a tool to detect, analyze and visualize residue co-locations in protein and nucleic acid structures.

Biro JC, Fördös G.

BMC Bioinformatics. 2005 Jul 12;6:170.PMID: 16011796 [PubMed - indexed for MEDLINE]Related articlesFree article

Bioinformatics for glycomics: status, methods, requirements and perspectives.

von der Lieth CW, Bohne-Lang A, Lohmann KK, Frank M.

Brief Bioinform. 2004 Jun;5(2):164-78.PMID: 15260896 [PubMed - indexed for MEDLINE]Related articlesFree article

On the analysis of glycomics mass spectrometry data via the regularized area under the ROC curve.

Ye J, Liu H, Kirmiz C, Lebrilla CB, Rocke DM.

BMC Bioinformatics. 2007 Dec 12;8:477.PMID: 18076765 [PubMed - indexed for MEDLINE]Related articlesFree article

Software platform for high-throughput glycomics.

Vakhrushev SY, Dadimov D, Peter-Katalinić J.

Anal Chem. 2009 May 1;81(9):3252-60.PMID: 19341273 [PubMed - indexed for MEDLINE]Related articles

GLYDE-an expressive XML standard for the representation of glycan structure.

Sahoo SS, Thomas C, Sheth A, Henson C, York WS.

Carbohydr Res. 2005 Dec 30;340(18):2802-7. Epub 2005 Oct 20.PMID: 16242678 [PubMed - indexed for MEDLINE]Related articles

RNA FRABASE version 1.0: an engine with a database to search for the three-dimensional fragments within RNA structures.

Popenda M, Blazewicz M, Szachniuk M, Adamiak RW.

Nucleic Acids Res. 2008 Jan;36(Database issue):D386-91. Epub 2007 Oct 5.PMID: 17921499 [PubMed - indexed for MEDLINE]Related articlesFree article

PCI-SS: MISO dynamic nonlinear protein secondary structure prediction.

Green JR, Korenberg MJ, Aboul-Magd MO.

BMC Bioinformatics. 2009 Jul 17;10:222.PMID: 19615046 [PubMed - indexed for MEDLINE]Related articlesFree article

GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists.

Eden E, Navon R, Steinfeld I, Lipson D, Yakhini Z.

BMC Bioinformatics. 2009 Feb 3;10:48.PMID: 19192299 [PubMed - indexed for MEDLINE]Related articlesFree article

WASP: a Web-based Allele-Specific PCR assay designing tool for detecting SNPs and mutations.

Wangkumhang P, Chaichoompu K, Ngamphiw C, Ruangrit U, Chanprasert J, Assawamakin A, Tongsima S.

BMC Genomics. 2007 Aug 14;8:275.PMID: 17697334 [PubMed - indexed for MEDLINE]Related articlesFree article

Glycoconjugate Data Bank: Structures--an annotated glycan structure database and N-glycan primary structure verification service.

Nakahara T, Hashimoto R, Nakagawa H, Monde K, Miura N, Nishimura S.

Nucleic Acids Res. 2008 Jan;36(Database issue):D368-71. Epub 2007 Oct 11.PMID: 17933765 [PubMed - indexed for MEDLINE]Related articlesFree article

JCoast - a biologist-centric software tool for data mining and comparison of prokaryotic (meta)genomes.

Richter M, Lombardot T, Kostadinov I, Kottmann R, Duhaime MB, Peplies J, Glöckner FO.

BMC Bioinformatics. 2008 Apr 1;9:177.PMID: 18380896 [PubMed - indexed for MEDLINE]Related articlesFree article