Norine, the knowledgebase dedicated to non-ribosomal peptides, is now open to crowdsourcing

被引:33
作者
Flissi, Areski [1 ,2 ]
Dufresne, Yoann [1 ,2 ]
Michalik, Juraj [1 ,3 ]
Tonon, Laurie [1 ,2 ]
Janot, Stephane [1 ,2 ]
Noe, Laurent [1 ,2 ]
Jacques, Philippe [4 ]
Leclere, Valerie [1 ,2 ,4 ]
Pupin, Maude [1 ,2 ,3 ]
机构
[1] Univ Lille, CRIStAL, CNRS, UMR 9189, Cite Sci Bat M3Ext, F-59650 Villeneuve Dascq, France
[2] Inria Lille Nord Europe, Bonsai Team, Parc Sci Haute Borne 40,Ave Halley Bt A, F-59650 Villeneuve Dascq, France
[3] Univ Lille, Cite Sci Bat M3Ext, F-59650 Villeneuve Dascq, France
[4] Univ Lille, ICV, EA 7394, ProBioGEM Team,Polytech Lille, Ave Langevin, F-59655 Villeneuve Dascq, France
关键词
DATABASE; PLATFORM;
D O I
10.1093/nar/gkv1143
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Since its creation in 2006, Norine remains the unique knowledgebase dedicated to non-ribosomal peptides (NRPs). These secondary metabolites, produced by bacteria and fungi, harbor diverse interesting biological activities (such as antibiotic, antitumor, siderophore or surfactant) directly related to the diversity of their structures. The Norine team goal is to collect the NRPs and provide tools to analyze them efficiently. We have developed a user-friendly interface and dedicated tools to provide a complete bioinformatics platform. The knowledgebase gathers abundant and valuable annotations on more than 1100 NRPs. To increase the quantity of described NRPs and improve the quality of associated annotations, we are now opening Norine to crowdsourcing. We believe that contributors from the scientific community are the best experts to annotate the NRPs they work on. We have developed MyNorine to facilitate the submission of new NRPs or modifications of stored ones. This article presents MyNorine and other novelties of Norine interface released since the first publication. Norine is freely accessible from the following URL: http://bioinfo.lifl.fr/NRP.
引用
收藏
页码:D1113 / D1118
页数:6
相关论文
共 19 条
[1]   A new fingerprint to predict nonribosomal peptides activity [J].
Abdo, Ammar ;
Caboche, Segolene ;
Leclere, Valerie ;
Jacques, Philippe ;
Pupin, Maude .
JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN, 2012, 26 (10) :1187-1194
[2]  
[Anonymous], 2002, ACM Transactions on Internet Technology, DOI [10.1145/514183.514185, DOI 10.1145/514183.514185]
[3]   Announcing the worldwide Protein Data Bank [J].
Berman, H ;
Henrick, K ;
Nakamura, H .
NATURE STRUCTURAL BIOLOGY, 2003, 10 (12) :980-980
[4]   antiSMASH 2.0-a versatile platform for genome mining of secondary metabolite producers [J].
Blin, Kai ;
Medema, Marnix H. ;
Kazempour, Daniyal ;
Fischbach, Michael A. ;
Breitling, Rainer ;
Takano, Eriko ;
Weber, Tilmann .
NUCLEIC ACIDS RESEARCH, 2013, 41 (W1) :W204-W212
[5]  
Bolton EE, 2010, ANN REP COMP CHEM, V4, P217, DOI 10.1016/S1574-1400(08)00012-1
[6]   NORINE:: a database of nonribosomal peptides [J].
Caboche, Segolene ;
Pupin, Maude ;
Leclere, Valerie ;
Fontaine, Arnaud ;
Jacques, Philippe ;
Kucherov, Gregory .
NUCLEIC ACIDS RESEARCH, 2008, 36 :D326-D331
[7]   Diversity of Monomers in Nonribosomal Peptides: towards the Prediction of Origin and Biological Activity [J].
Caboche, Segolene ;
Leclere, Valerie ;
Pupin, Maude ;
Kucherov, Gregory ;
Jacques, Philippe .
JOURNAL OF BACTERIOLOGY, 2010, 192 (19) :5143-5150
[8]   ClusterMine360: a database of microbial PKS/NRPS biosynthesis [J].
Conway, Kyle R. ;
Boddy, Christopher N. .
NUCLEIC ACIDS RESEARCH, 2013, 41 (D1) :D402-D407
[9]  
Doroghazi JR, 2014, NAT CHEM BIOL, V10, P963, DOI [10.1038/nchembio.1659, 10.1038/NCHEMBIO.1659]
[10]   Dereplicating nonribosomal peptides using an informatic search algorithm for natural products (iSNAP) discovery [J].
Ibrahim, Ashraf ;
Yang, Lian ;
Johnston, Chad ;
Liu, Xiaowen ;
Ma, Bin ;
Magarvey, Nathan A. .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2012, 109 (47) :19196-19201