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Protocols

CFGP specifications

Information


Unique identifier OMICS_03100
Name CFGP
Alternative name Comparative Fungal Genomics Platform
Restrictions to use None
Maintained Yes

Maintainer


  • person_outline Yong-Hwan Lee

Publications for Comparative Fungal Genomics Platform

CFGP citations

 (21)
library_books

Insights into the Molecular Events That Regulate Heat Induced Chilling Tolerance in Citrus Fruits

2017
Front Plant Sci
PMCID: 5483458
PMID: 28694818
DOI: 10.3389/fpls.2017.01113

[…] iological replicates from fruits harvested during three different seasons at the same maturity stage.Two microarrays were used, which were developed as part of the citrus functional genomics project (CFGP) (http://bioinfo.ibmcp.upv.es/genomics/cfgpDB/) (Forment et al., ), and contained about 7,000 (7 K) and 12,000 (12 K) unigenes. The samples from different citrus seasons were analyzed with the 12 […]

library_books

ER retention receptor, MoERR1 is required for fungal development and pathogenicity in the rice blast fungus, Magnaporthe oryzae

2017
Sci Rep
PMCID: 5430845
PMID: 28455525
DOI: 10.1038/s41598-017-01237-x

[…] oteins containing (K/R/H/Q/S/A)(D/E/N/Q)EL signature at C-terminus (0–5 mer) among all annotated proteins of M. oryzae. Then, TMHMM 2.0 analysis was performed to exclude trans-membrane proteins using CFGP website (www.cfgp.riceblast.snu.ac.kr). Finally, 43 putative ER retention proteins were listed in Supplementary Table . ER targeting proteins in S. cerevisiae and A. nudulans were predicted in th […]

call_split

MoJMJ1, Encoding a Histone Demethylase Containing JmjC Domain, Is Required for Pathogenic Development of the Rice Blast Fungus, Magnaporthe oryzae

2017
PMCID: 5378440
PMID: 28381966
DOI: 10.5423/PPJ.OA.11.2016.0244
call_split See protocol

[…] Nucleotide and protein sequences were procured and analyzed at Comparative Fungal Genetic Platform (CFGP; http://cfgp.snu.ac.kr) and National Center for Biotechnology Information (NCBI). Sequences of JmjC domain-containing protein were obtained from ChromDB database (www.chromdb.org). Analyses using […]

library_books

Systematic functional analysis of kinases in the fungal pathogen Cryptococcus neoformans

2016
Nat Commun
PMCID: 5052723
PMID: 27677328
DOI: 10.1038/ncomms12766

[…] ://www.broadinstitute.org/annotation/genome/cryptococcus_neoformans/MultiHome.html), and incorporated into the standardized genome data warehouse in the Comparative Fungal Genomics Platform database (CFGP 2.0; http://cfgp.snu.ac.kr/). Classification of kinases was performed by using the hidden Markov model-based sequence profiles of SUPERFAMILY (version 1.73; ref. ). A total of 64 family identifie […]

call_split

Kingdom Wide Analysis of Fungal Small Secreted Proteins (SSPs) Reveals their Potential Role in Host Association

2016
Front Plant Sci
PMCID: 4759460
PMID: 26925088
DOI: 10.3389/fpls.2016.00186
call_split See protocol

[…] caused by the limited phylogenetic coverage of certain taxa. Both species-specific SSPs (SSSPs) and conserved SSPs (CSSPs) were annotated using pre-computed InterPro terms, which were retrieved from Comparative Fungal Genomics Platform 2.0 (CFGP 2.0; Choi et al., ), and mapped to PHI-base effector proteins using BLASTP (Urban et al., ). […]

library_books

Systematic functional profiling of transcription factor networks in Cryptococcus neoformans

2015
Nat Commun
PMCID: 4391232
PMID: 25849373
DOI: 10.1038/ncomms7757

[…] The genome and transcriptome data collected for 178 TFs were processed using the protocol of the standardized genome data warehouse in Comparative Fungal Genomics Platform (CFGP 2.0; http://cfgp.snu.ac.kr/). The TF family name for each gene was described based on the prediction of Fungal Transcription Factor Database (http://ftfd.snu […]

Citations

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CFGP institution(s)
Fungal Bioinformatics Laboratory, Seoul, South Korea; Department of Agricultural Biotechnology, Seoul National University, Seoul, South Korea; Department of Bioinformatics and Life Science, Soongsil University, Seoul, South Korea; Department of Plant Pathology and Environmental Microbiology, The Pennsylvania State University, University Park, PA, USA; Center for Fungal Pathogenesis, Seoul, South Korea; Center for Fungal Genetic Resources, Seoul, South Korea; Research Institute for Agriculture and Life Sciences, Seoul National University, Seoul, South Korea
CFGP funding source(s)
Supported by National Research Foundation of Korea grant funded by the Korea government [2012-0001149 and 2012-0000141], TDPAF [309015-04-SB020], Next-Generation BioGreen 21 Program of Rural Development Administration in Korea [PJ00821201], and a graduate fellowship through the Brain Korea 21 Program.

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