PredAlgo protocols

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PredAlgo specifications

Information


Unique identifier OMICS_07472
Name PredAlgo
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Laurent Courc <>

Publication for PredAlgo

PredAlgo in pipeline

2016
PMCID: 5096022
PMID: 27133096
DOI: 10.1111/pbi.12572

[…] trees were inferred using mega6 and the maximum‐likelihood method with 1000 bootstrap replications (tamura et al., ). the subcellular localization of each lpaat candidate was predicted using the predalgo program (https://giavap-genomes.ibpc.fr/cgi-bin/predalgodb.perl?page=main) (tardif et al., )., as the c. reinhardtii genome has a relatively high gc content (merchant et al., ), the codon […]


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PredAlgo in publications

 (24)
PMCID: 5903653
PMID: 29664904
DOI: 10.1371/journal.pone.0195142

[…] of three isoforms of the heat shock protein hsp22 contribute to the dark-grown phenotype (). the hsp22c isoform is targeted to mitochondria while hsp22e and f are targeted to chloroplast when using predalgo for prediction [], suggesting proteins modifications inside the chloroplast and mitochondria. transcripts encoding transporters are also found important to describe the dark-grown samples. […]

PMCID: 5899452
PMID: 29581286
DOI: 10.1073/pnas.1719230115

[…] perl script to select those transcripts whose orfs included the n-terminal region and predicted the subcellular localization of the proteins encoded by these orfs using targetp (), localizer (), and predalgo (). we considered a protein to be plastid localized if two of these three programs predicted a plastid (chloroplast) localization. word clouds of any kind were generated using wordle.net […]

PMCID: 5826530
PMID: 29481573
DOI: 10.1371/journal.pone.0185039

[…] their subcellular localization (). the intracellular localization of each protein (except those encoded by the chloroplast genome and, therefore, known to be in this organelle) was predicted using predalgo, a program that predicts the intracellular localization of a query protein in green algae to one of three intracellular compartments: the chloroplast, mitochondria, or the secretory pathway […]

PMCID: 5779698
PMID: 29360855
DOI: 10.1371/journal.pone.0191621

[…] using the ncbi cd-search tool (https://www.ncbi.nlm.nih.gov/structure/cdd/wrpsb.cgi). sequence alignments were generated using clustalw []., subcellular localization prediction was carried out with predalgo program []., 3d structural models were obtained using the protein structure homology server swiss-model using osttadsp mature sequence as query. models were evaluated with the prosa-web […]

PMCID: 5736878
PMID: 29326747
DOI: 10.3389/fpls.2017.02154

[…] region in x32 revealed a dna rearrangement that resulted in the deletion of five genes, i.e., cre02.g084250, cre02.g084300, cre02.g084350, cre02.g084400, and cre02.g084450 (figure ). prediction by predalgo software shows that only the gene cre02.g084350 encoding cgld1 in the greencut2 () is localized in the chloroplast. we therefore introduced the gene into x32 for complementation. the x32 […]


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PredAlgo institution(s)
CEA, DSV, IRTSV, Grenoble, France

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