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Items: 16

1.

Literature information in PubChem: associations between PubChem records and scientific articles.

Kim S, Thiessen PA, Cheng T, Yu B, Shoemaker BA, Wang J, Bolton EE, Wang Y, Bryant SH.

J Cheminform. 2016 Jun 10;8:32. doi: 10.1186/s13321-016-0142-6. eCollection 2016.

2.

PubChem Substance and Compound databases.

Kim S, Thiessen PA, Bolton EE, Chen J, Fu G, Gindulyte A, Han L, He J, He S, Shoemaker BA, Wang J, Yu B, Zhang J, Bryant SH.

Nucleic Acids Res. 2016 Jan 4;44(D1):D1202-13. doi: 10.1093/nar/gkv951. Epub 2015 Sep 22.

3.

PUG-SOAP and PUG-REST: web services for programmatic access to chemical information in PubChem.

Kim S, Thiessen PA, Bolton EE, Bryant SH.

Nucleic Acids Res. 2015 Jul 1;43(W1):W605-11. doi: 10.1093/nar/gkv396. Epub 2015 Apr 30.

4.

MMDB and VAST+: tracking structural similarities between macromolecular complexes.

Madej T, Lanczycki CJ, Zhang D, Thiessen PA, Geer RC, Marchler-Bauer A, Bryant SH.

Nucleic Acids Res. 2014 Jan;42(Database issue):D297-303. doi: 10.1093/nar/gkt1208. Epub 2013 Dec 6.

5.

MMDB: 3D structures and macromolecular interactions.

Madej T, Addess KJ, Fong JH, Geer LY, Geer RC, Lanczycki CJ, Liu C, Lu S, Marchler-Bauer A, Panchenko AR, Chen J, Thiessen PA, Wang Y, Zhang D, Bryant SH.

Nucleic Acids Res. 2012 Jan;40(Database issue):D461-4. doi: 10.1093/nar/gkr1162. Epub 2011 Dec 1.

6.

PubChem3D: a new resource for scientists.

Bolton EE, Chen J, Kim S, Han L, He S, Shi W, Simonyan V, Sun Y, Thiessen PA, Wang J, Yu B, Zhang J, Bryant SH.

J Cheminform. 2011 Sep 20;3(1):32. doi: 10.1186/1758-2946-3-32.

7.

MMDB: annotating protein sequences with Entrez's 3D-structure database.

Wang Y, Addess KJ, Chen J, Geer LY, He J, He S, Lu S, Madej T, Marchler-Bauer A, Thiessen PA, Zhang N, Bryant SH.

Nucleic Acids Res. 2007 Jan;35(Database issue):D298-300. Epub 2006 Nov 29.

8.

State of the art: refinement of multiple sequence alignments.

Chakrabarti S, Lanczycki CJ, Panchenko AR, Przytycka TM, Thiessen PA, Bryant SH.

BMC Bioinformatics. 2006 Nov 14;7:499. Erratum in: BMC Bioinformatics. 2010;11:3.

9.

Refining multiple sequence alignments with conserved core regions.

Chakrabarti S, Lanczycki CJ, Panchenko AR, Przytycka TM, Thiessen PA, Bryant SH.

Nucleic Acids Res. 2006 May 17;34(9):2598-606. Print 2006.

10.

A structure-based method for protein sequence alignment.

Kann MG, Thiessen PA, Panchenko AR, Schäffer AA, Altschul SF, Bryant SH.

Bioinformatics. 2005 Apr 15;21(8):1451-6. Epub 2004 Dec 21.

11.

CDD: a Conserved Domain Database for protein classification.

Marchler-Bauer A, Anderson JB, Cherukuri PF, DeWeese-Scott C, Geer LY, Gwadz M, He S, Hurwitz DI, Jackson JD, Ke Z, Lanczycki CJ, Liebert CA, Liu C, Lu F, Marchler GH, Mullokandov M, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Yamashita RA, Yin JJ, Zhang D, Bryant SH.

Nucleic Acids Res. 2005 Jan 1;33(Database issue):D192-6.

12.

MMDB: Entrez's 3D-structure database.

Chen J, Anderson JB, DeWeese-Scott C, Fedorova ND, Geer LY, He S, Hurwitz DI, Jackson JD, Jacobs AR, Lanczycki CJ, Liebert CA, Liu C, Madej T, Marchler-Bauer A, Marchler GH, Mazumder R, Nikolskaya AN, Rao BS, Panchenko AR, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Vasudevan S, Wang Y, Yamashita RA, Yin JJ, Bryant SH.

Nucleic Acids Res. 2003 Jan 1;31(1):474-7.

13.

CDD: a curated Entrez database of conserved domain alignments.

Marchler-Bauer A, Anderson JB, DeWeese-Scott C, Fedorova ND, Geer LY, He S, Hurwitz DI, Jackson JD, Jacobs AR, Lanczycki CJ, Liebert CA, Liu C, Madej T, Marchler GH, Mazumder R, Nikolskaya AN, Panchenko AR, Rao BS, Shoemaker BA, Simonyan V, Song JS, Thiessen PA, Vasudevan S, Wang Y, Yamashita RA, Yin JJ, Bryant SH.

Nucleic Acids Res. 2003 Jan 1;31(1):383-7.

14.

CDD: a database of conserved domain alignments with links to domain three-dimensional structure.

Marchler-Bauer A, Panchenko AR, Shoemaker BA, Thiessen PA, Geer LY, Bryant SH.

Nucleic Acids Res. 2002 Jan 1;30(1):281-3.

15.

MMDB: Entrez's 3D-structure database.

Wang Y, Anderson JB, Chen J, Geer LY, He S, Hurwitz DI, Liebert CA, Madej T, Marchler GH, Marchler-Bauer A, Panchenko AR, Shoemaker BA, Song JS, Thiessen PA, Yamashita RA, Bryant SH.

Nucleic Acids Res. 2002 Jan 1;30(1):249-52.

16.

Complexation-induced unfolding of heterocyclic ureas. Simple foldamers equilibrate with multiply hydrogen-bonded sheetlike structures.

Corbin PS, Zimmerman SC, Thiessen PA, Hawryluk NA, Murray TJ.

J Am Chem Soc. 2001 Oct 31;123(43):10475-88.

PMID:
11673978
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