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FOLy specifications

Information


Unique identifier OMICS_22498
Name FOLy
Alternative name Fungal Oxidative Lignin enzymes database
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained No

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Publication for Fungal Oxidative Lignin enzymes database

FOLy citations

 (6)
library_books

Metadata Analysis of Phanerochaete chrysosporium Gene Expression Data Identified Common CAZymes Encoding Gene Expression Profiles Involved in Cellulose and Hemicellulose Degradation

2017
PMCID: 5264264
PMID: 28123349
DOI: 10.7150/ijbs.17390

[…] the genes and enzymes involved in cellulose, hemicellulose and lignin degradation mechanisms.Development of online based genome and enzyme databases like CAZy (Carbohydrate Active Enzyme database) , FOLy (Fungal Lignin Oxidizing Enzymes) , DOE-JGI (Joint Genome Institute) and FungiDB etc., has significantly influenced the present understanding of fungal genomic and proteomic studies. The CAZy d […]

library_books

Proteogenomic Analysis of a Thermophilic Bacterial Consortium Adapted to Deconstruct Switchgrass

2013
PLoS One
PMCID: 3716776
PMID: 23894306
DOI: 10.1371/journal.pone.0068465

[…] tegrated Microbial Genomes Expert Review (IMG-ER) System –.The protein sequences were also screened for carbohydrate-active enzymes using dbCAN and using blastp against a local copy of the CAZy and FOLy databases (E<1e−20), keeping track of both the best blastp hit overall, and the best hit against any protein in CAZy or FOLy with an experimentally validated EC number. To achieve better coverag […]

library_books

The Metagenome of an Anaerobic Microbial Community Decomposing Poplar Wood Chips

2012
PLoS One
PMCID: 3357426
PMID: 22629327
DOI: 10.1371/journal.pone.0036740

[…] divided into 300 nt fragments (tiles) overlapping by 150 nt. BlastX searches of each fragment were then conducted vs. the complete set of protein sequences from the CAZy (http://www.cazy.org/) and FOLy (http://foly.esil.univ-mrs.fr) websites. Contiguous runs of best hits with e-value below a 1e-10 threshold and having the same CAZy or FOLy gene family were collected from each fragment. These r […]

library_books

Metatranscriptomics Reveals the Diversity of Genes Expressed by Eukaryotes in Forest Soils

2012
PLoS One
PMCID: 3253082
PMID: 22238585
DOI: 10.1371/journal.pone.0028967

[…] BLASTX searches (default parameters) against various specialized databases. Searches were made against Carbohydrate Active Enzymes (CAZy, http://www.cazy.org/; ); and Fungal Oxidative Lignin Enzymes (FOLy; http://foly.esil.univ-mrs.fr/; ) databases to find plant cell wall degradation enzymes. cDNA similar to cytochrome P450 potentially involved in detoxication of plant secondary metabolites were s […]

call_split

Fungi Unearthed: Transcripts Encoding Lignocellulolytic and Chitinolytic Enzymes in Forest Soil

2010
PLoS One
PMCID: 2881045
PMID: 20532045
DOI: 10.1371/journal.pone.0010971
call_split See protocol

[…] ic, hemicellulolytic, and chitinolytic enzymes were developed on the basis of reference protein sequences from curated databases like CAZy (http://www.cazy.org , see also http://www.cazypedia.org) or FOLy (http://foly.esil.univ-mrs.fr/ ), or GenBank. The reference sequences were compared against the NCBI database standard protein-protein BLAST (blastp) (), and the distance tree option implemented […]

library_books

Targeted Discovery of Glycoside Hydrolases from a Switchgrass Adapted Compost Community

2010
PLoS One
PMCID: 2809096
PMID: 20098679
DOI: 10.1371/journal.pone.0008812

[…] oducing higher depth contigs will be weighted in the analysis).To extract potential full-length glycoside hydrolases from the metagenome data, we ran BLASTX on all contigs ≥1 kb against the CAZy and FOLy databases (E<1e−10), and filtered out hits matching the target enzyme over at least 90% of its length, and for which the target enzyme has a known enzymatic function (EC number listed in CAZy or […]

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FOLy institution(s)
MR 1163 INRA de Biotechnologie des Champignons Filamenteux, IFR86-BAIM, Université de Provence et de la Méditerranée, ESIL, Marseille, France; Laboratoire de Phylogénomique, EA 3781 Evolution Biologique Université de Provence, Marseille, France; Glycogenomics and Biomedical Structural Biology, AFMB Laboratory—UMR 6098—CNRS Université d’Aix-Marseille I et II, Marseille, France
FOLy funding source(s)
Supported by the sixth European Framework Program for Research and Technological Development (FP6) and BIORENEW (026456).

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