WoLF PSORT protocols

View WoLF PSORT computational protocol

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WoLF PSORT specifications

Information


Unique identifier OMICS_01637
Name WoLF PSORT
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Kenta kai <>

Publication for WoLF PSORT

WoLF PSORT in pipelines

 (21)
2018
PMCID: 5844311
PMID: 29326229
DOI: 10.1534/g3.117.300421

[…] parameters–model protein2genome–percentage 90. pathway and kog prediction were assessed using kaas (bidirectional best hit) (). putative secreted proteins were identified using signalp 4.1 () and wolf psort 0.2 (). secreted proteins were assessed for the presence of transmembrane helices by phobius () and thmmh 2.0 (). cyps were predicted as described elsewhere (). cyp proteins that could […]

2017
PMCID: 5256205
PMID: 28082505
DOI: 10.1128/genomeA.01479-16

[…] gene models. secretome predictions were done by the identification of proteins with a signal peptide, but lacking a transmembrane domain. loci coding for extracellular proteins were predicted using wolf psort (), followed by big-pi to predict gpi-anchors (). the subset of fungal effector proteins was further characterized using effectorp ()., raw data and the assembled sequences […]

2017
PMCID: 5500496
PMID: 28684768
DOI: 10.1038/s41598-017-05093-7

[…] peptide and trans-membrane domains were predicted using signalp 4.0 (http://www.cbs.dtu.dk/services/signalp-4.0/) and tmhmm server v. 2.0 (http://www.cbs.dtu.dk/services/tmhmm/), respectively. wolf psort and psort ii were used to predict protein subcellular localization. a phylogenetic tree containing scps from 11 species was constructed using the maximum-likelihood method., the primers […]

2017
PMCID: 5534450
PMID: 28824907
DOI: 10.3389/fbioe.2017.00045

[…] the blastp program against all non-redundant protein sequences deposited in the ncbi database to attribute putative functions. the cellular location of the extracellular proteins was predicted using wolf-psort (horton et al., )., similar to our previous study (frija et al., ), herein we observed that p. janczewskii mediates a stereo-selective hydroxylation of la yielding predominantly […]

2017
PMCID: 5567314
PMID: 28831173
DOI: 10.1038/s41598-017-09644-w

[…] analysis was chosen based on aic and bic criteria in prottest. maximum likelihood phylogenetic inference was carried in phyml., domain architecture (pfam_scan.pl), protein localization ((wolf psort, targetp) and transmembrane regions (tmhmm) were assessed for all members of all identified fungal families of sps. codon usage analysis was performed based on gff files, significance […]


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WoLF PSORT in publications

 (504)
PMCID: 5951830
PMID: 29760464
DOI: 10.1038/s41467-018-04250-4

[…] cells and detected the tagged protein by immunostaining. as shown in fig. , yrdc was widely diffused throughout the cell, but tended to be more strongly localized to the cytoplasm. as determined by wolf psort, a tool for predicting protein localization, yrdc has an n-terminal mitochondrial targeting sequence (mts) (supplementary fig.  and fig. ), implying mitochondrial localization. to confirm […]

PMCID: 5946511
PMID: 29747590
DOI: 10.1186/s12864-018-4745-3

[…] were also enriched as performed in go enrichment and further classified into hierarchical categories according to the kegg website. subcellular localizations of the protein were predicted by wolf psort (http://wolfpsort.seq.cbrc.jp/) []., due to absence of protein information of a. longirostris in the string database, all identified acetylated protein sequences in a. longirostris […]

PMCID: 5942036
PMID: 29770142
DOI: 10.3389/fpls.2018.00562

[…] from c. higginsianum using two independent approaches. based on the fungal genome annotation, we identified 365 candidate secreted effector proteins (cseps) defined as extracellular proteins (wolf psort prediction) without homology to proteins from organisms outside the genus colletotrichum (). based on mining est data from deep-sequencing in planta cdna libraries, we found 102 checs […]

PMCID: 5919931
PMID: 29700415
DOI: 10.1038/s41598-018-25016-4

[…] tm domains. the presence of er retention signal was predicted using ps scan with prosite (https://prosite.expasy.org/) pattern ps00014. the subcellular localization of proteins was predicted using wolf psort 0.2 (https://psort.hgc.jp/), targetp 1.1 (http://www.cbs.dtu.dk/services/targetp/) and protcomp 9 (http://www.softberry.com/berry.phtml?topic=protcomp&group=help&subgroup=proloc). […]

PMCID: 5915685
PMID: 29689067
DOI: 10.1371/journal.pone.0196303

[…] sequences (cut-off e-value, 1e-05)., secretomes were identified using a procedure similar to that previously reported [], in which signalp version 4.1 [], tmhmm server version 2.0 [], gpi-som [] and wolf psort [] were run sequentially. putative proteases were identified and classified by blastp querying against the merops database (http://merops.sanger.ac.uk/) with a cut-off e-value of 1e-04, […]


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WoLF PSORT institution(s)
Computational Biology Research Center, AIST, Tokyo, Japan; Center for Genome Science, National Institute of Health, Korea Center for Disease Control & Prevention, Nokbeon-Dong, Eunpyung-Gu, Seoul, Korea; Human Genome Center, Institute of Medical Science, University of Tokyo, Tokyo, Japan; Collier Technologies, Everett, WA, USA

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