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FaaPred specifications

Information


Unique identifier OMICS_20479
Name FaaPred
Interface Web user interface
Restrictions to use None
Input data Protein sequence
Input format FASTA
Output data Sequence ID, SVM score, Decision of the model regarding the sequence based on the threshold chosen.
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Dinesh Gupta <>

Additional information


http://bioinfo.icgeb.res.in/faap/tutorial.html

Publication for FaaPred

FaaPred citations

 (6)
library_books

In silico characterization of tandem repeats in Trichophyton rubrum and related dermatophytes provides new insights into their role in pathogenesis

2017
PMCID: 5502367
DOI: 10.1093/database/bax035

[…] generated for all transcripts of t. rubrum with variable tandem repeats using the blast2go tool () and stringent parameters (e-value of 1e−05). in addition, fungal adhesins were predicted using the faapred tool (), with a threshold ≥0.5., using a web browser, the dtrdb database provides interactive access not only to the stored data, but also to a pipeline that automates the identification […]

library_books

Genome Sequencing of the Pyruvate producing Strain Candida glabrata CCTCC M202019 and Genomic Comparison with Strain CBS138

2016
PMCID: 5054605
PMID: 27713500
DOI: 10.1038/srep34893

[…] were also identified in adhesion metabolism. in c. glabrata cbs 138, 62 adhesion proteins were predicted by fungalrv using a threshold of 0.511 including 20 adhesins identified in the proteome. faapred also successfully predicted adhesin-like proteins and supplement-related annotations such as cagl0i10246g, cagl0j02508g, and cagl0i11011g in c. glabrata cbs 138. the intersection of results […]

library_books

Transcription profile of Trichophyton rubrum conidia grown on keratin reveals the induction of an adhesin like protein gene with a tandem repeat pattern

2016
PMCID: 4797125
PMID: 26993619
DOI: 10.1186/s12864-016-2567-8

[…] grown on the same protein substrate (data not shown), suggesting that this gene might play a role in the early stages of infection. the function of an adhesin-like protein was predicted using faapred software, with the gene showing a high confidence score (0.997)., besides the in silico characterization of this gene indicated a sequence of 3,030 bp (genbank database under the accession […]

library_books

Alterations of protein expression in conditions of copper deprivation for Paracoccidioides lutzii in the presence of extracellular matrix components

2014
PMCID: 4302596
PMID: 25609357
DOI: 10.1186/s12866-014-0302-7

[…] inferences using in silico analysis. it is known that surface proteins are important for paracoccidioides pathogenesis, so we performed in silico analysis to identify adhesin-like proteins using faapred software, which predicts fungal adhesins and adhesin-like proteins. this analysis predicted 2 proteins as adhesin-like proteins (table ), revealing interesting candidates for further studies […]

library_books

Secretome weaponries of Cochliobolus lunatus interacting with potato leaf at different temperature regimes reveal a CL[xxxx]LHM motif

2014
PMCID: 4000054
PMID: 24650331
DOI: 10.1186/1471-2164-15-213

[…] and protein net charge was predicted at http://www.encorbio.com/protocols/prot-mw.htm. glycosylphosphatidylinositol (gpi) anchored was predicted in big-pi web server []. adhesin was predicted in faapred [] and fungalrv [] web servers. motif search was performed in meme v.4.9 suite []. here, we used sequences from c. lunatus model proteins only (elaborated in additional file : fasta) […]

library_books

Analysis of the Secretomes of Paracoccidioides Mycelia and Yeast Cells

2012
PMCID: 3525554
PMID: 23272246
DOI: 10.1371/journal.pone.0052470

[…] based on prediction programs for 158 fungal/oomycete genomes, including paracoccidioides pb01 . each protein sequence identified in this study was also analyzed for adhesin function using the faapred web server (http://bioinfo.icgeb.res.in/faap/query.html) and for gpi anchor properties using big-pi fungal predictor software (http://mendel.imp.univie.ac.at/gpi/fungi/gpi_fungi.htm). […]


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FaaPred institution(s)
Structural and Computational Biology Group, International Centre for Genetic Engineering and Biotechnology (ICGEB), Aruna Asaf Ali Marg, New Delhi, India
FaaPred funding source(s)
Supported by Department of Biotechnology (DBT, India) grant for Bioinformatics infrastructure Facility at ICGEB.

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