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Results: 1 to 20 of 107

1.

Web-links as a means to document annotated sequence and 3D-structure alignments in systems biology.

Gille C, Hoppe A, Holzhütter HG.

Genome Inform. 2008;20:277-84.

PMID:
19425142
[PubMed - indexed for MEDLINE]
2.

Alignment-Annotator web server: rendering and annotating sequence alignments.

Gille C, Fähling M, Weyand B, Wieland T, Gille A.

Nucleic Acids Res. 2014 Jul;42(Web Server issue):W3-6. doi: 10.1093/nar/gku400. Epub 2014 May 9.

PMID:
24813445
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Mapping PDB chains to UniProtKB entries.

Martin AC.

Bioinformatics. 2005 Dec 1;21(23):4297-301. Epub 2005 Sep 27.

PMID:
16188924
[PubMed - indexed for MEDLINE]
Free Article
4.

LALNVIEW: a graphical viewer for pairwise sequence alignments.

Duret L, Gasteiger E, Perrière G.

Comput Appl Biosci. 1996 Dec;12(6):507-10.

PMID:
9021269
[PubMed - indexed for MEDLINE]
5.

Seq2Struct: a resource for establishing sequence-structure links.

Via A, Zanzoni A, Helmer-Citterich M.

Bioinformatics. 2005 Feb 15;21(4):551-3. Epub 2004 Sep 28.

PMID:
15454411
[PubMed - indexed for MEDLINE]
Free Article
6.

Structural interpretation of mutations and SNPs using STRAP-NT.

Gille C.

Protein Sci. 2006 Jan;15(1):208-10. Epub 2005 Dec 1.

PMID:
16322575
[PubMed - indexed for MEDLINE]
Free PMC Article
7.

BAliBASE 3.0: latest developments of the multiple sequence alignment benchmark.

Thompson JD, Koehl P, Ripp R, Poch O.

Proteins. 2005 Oct 1;61(1):127-36.

PMID:
16044462
[PubMed - indexed for MEDLINE]
8.

SAD--a normalized structural alignment database: improving sequence-structure alignments.

Marsden B, Abagyan R.

Bioinformatics. 2004 Oct 12;20(15):2333-44. Epub 2004 Apr 15.

PMID:
15087320
[PubMed - indexed for MEDLINE]
Free Article
9.

MODBASE, a database of annotated comparative protein structure models, and associated resources.

Pieper U, Eswar N, Braberg H, Madhusudhan MS, Davis FP, Stuart AC, Mirkovic N, Rossi A, Marti-Renom MA, Fiser A, Webb B, Greenblatt D, Huang CC, Ferrin TE, Sali A.

Nucleic Acids Res. 2004 Jan 1;32(Database issue):D217-22.

PMID:
14681398
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

FeatureMap3D--a tool to map protein features and sequence conservation onto homologous structures in the PDB.

Wernersson R, Rapacki K, Staerfeldt HH, Sackett PW, Mølgaard A.

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W84-8.

PMID:
16845115
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

PASS2: an automated database of protein alignments organised as structural superfamilies.

Bhaduri A, Pugalenthi G, Sowdhamini R.

BMC Bioinformatics. 2004 Apr 2;5:35.

PMID:
15059245
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

SSMap: a new UniProt-PDB mapping resource for the curation of structural-related information in the UniProt/Swiss-Prot Knowledgebase.

David FP, Yip YL.

BMC Bioinformatics. 2008 Sep 23;9:391. doi: 10.1186/1471-2105-9-391.

PMID:
18811932
[PubMed - indexed for MEDLINE]
Free PMC Article
13.
14.

Sequence alignment visualization in HTML5 without Java.

Gille C, Birgit W, Gille A.

Bioinformatics. 2014 Jan 1;30(1):121-2. doi: 10.1093/bioinformatics/btt614. Epub 2013 Nov 21.

PMID:
24273246
[PubMed - indexed for MEDLINE]
15.

KISS for STRAP: user extensions for a protein alignment editor.

Gille C, Lorenzen S, Michalsky E, Frömmel C.

Bioinformatics. 2003 Dec 12;19(18):2489-91.

PMID:
14668241
[PubMed - indexed for MEDLINE]
Free Article
16.

ESyPred3D: Prediction of proteins 3D structures.

Lambert C, Léonard N, De Bolle X, Depiereux E.

Bioinformatics. 2002 Sep;18(9):1250-6.

PMID:
12217917
[PubMed - indexed for MEDLINE]
Free Article
17.

OXBench: a benchmark for evaluation of protein multiple sequence alignment accuracy.

Raghava GP, Searle SM, Audley PC, Barber JD, Barton GJ.

BMC Bioinformatics. 2003 Oct 10;4:47.

PMID:
14552658
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

METANNOGEN: compiling features of biochemical reactions needed for the reconstruction of metabolic networks.

Gille C, Hoffmann S, Holzhütter HG.

BMC Syst Biol. 2007 Jan 9;1:5.

PMID:
17408512
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

ESPript/ENDscript: Extracting and rendering sequence and 3D information from atomic structures of proteins.

Gouet P, Robert X, Courcelle E.

Nucleic Acids Res. 2003 Jul 1;31(13):3320-3.

PMID:
12824317
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

Protein family annotation in a multiple alignment viewer.

Johnson JM, Mason K, Moallemi C, Xi H, Somaroo S, Huang ES.

Bioinformatics. 2003 Mar 1;19(4):544-5.

PMID:
12611813
[PubMed - indexed for MEDLINE]
Free Article

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