ChloroP protocols

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ChloroP specifications

Information


Unique identifier OMICS_07280
Name ChloroP
Interface Web user interface
Restrictions to use None
Computer skills Basic
Version 1.1
Stability Stable
Maintained Yes

Maintainer


  • person_outline Olof Emanuelsson <>

Publication for ChloroP

ChloroP in pipelines

 (15)
2017
PMCID: 5708808
PMID: 29190821
DOI: 10.1371/journal.pone.0188933

[…] 0.8 μm., the musafer1 sequence was analyzed using ncbi database (http://www.ncbi.nlm.nih.gov/) and banana genome hub (http://banana-genome-hub.southgreen.fr/) resources to determine the gene model. chlorop 1.1 (http://www.cbs.dtu.dk/services/chlorop/) and signalp (http://www.cbs.dtu.dk/services/signalp/) servers were used to determine the presence, length and cleavage site of the signal peptide […]

2016
PMCID: 4750918
PMID: 26867015
DOI: 10.1371/journal.pone.0148490

[…] frame (orf) translation of lsmt were carried out with vector nti suite 8.0. blast (basic local alignment search tool) was performed at the ncbi server (http://www.ncbi.nlm.nih.gov/blast/blast.cgi). chlorop1.1 analysis (http://www.cbs.dtu.dk/services/chlorop/) was done to predict the possible chloroplast transit peptide (ctp) of lsmt., the coding region of lsmt with a bamhⅰ and sacⅰ restriction […]

2016
PMCID: 4789781
PMID: 26971881
DOI: 10.1038/srep23057

[…] amino acid sequences were analyzed using the online tool orf finder (http://www.ncbi.nlm.nih.gov/gorf/gorf.html) and the expasy online tool (http://web.expasy.org/translate/), respectively. the chlorop 1.1 server (http://www.cbs.dtu.dk/services/chlorop/) was used to predict chloroplast transit peptides. the sequences of the smcpsent, smks and smko as well as other corresponding sequences […]

2016
PMCID: 4861830
PMID: 27242840
DOI: 10.3389/fpls.2016.00638

[…] of china (31300255), and the special fund for shanghai landscaping administration bureau program (g142425 and f132425)., http://www.genome.jp/tools/clustalw/ , http://www.cbs.dtu.dk/services/chlorop/ , http://www.cbs.dtu.dk/services/signalp/ , the supplementary material for this article can be found online at: […]

2016
PMCID: 4861830
PMID: 27242840
DOI: 10.3389/fpls.2016.00638

[…] levels of genes were determined as described previously (). nucleotide and amino acid sequence alignments were performed using clustalw. chloroplast signal peptide prediction was performed at chlorop and signalp websites. primers used in this investigation are listed in supplementary table ., to facilitate prokaryotic expression, the n-terminal signal peptide of aatps2, aatps5, and aatps6 […]

ChloroP in publications

 (248)
PMCID: 5940233
PMID: 29738547
DOI: 10.1371/journal.pone.0196995

[…] the following analysis., protein domains were searched by the ncbi conserved domain searching tool [] to predict their functions and conserved motifs. to predict gene localization, targetp [] and chlorop [] were used based on transit peptide sequences. transmembrane domain regions were identified using tmhmm program []. the molecular function of heme oxygenase and its molecular interaction […]

PMCID: 5908963
PMID: 29706971
DOI: 10.3389/fpls.2018.00286

[…] petersen et al., ). predictions of subcellular localization of effectors were made using wolf psort (https://www.genscript.com/wolf-psort.html; horton et al., ), chlorop (http://www.cbs.dtu.dk/services/chlorop/; emanuelsson et al., ) and localizer (http://localizer.csiro.au/; sperschneider et al., ). protein parameters were calculated using protparam […]

PMCID: 5892909
PMID: 29634783
DOI: 10.1371/journal.pone.0195656

[…] and griffithsia pacifica []. secondary structure features were calculated with psipred []. subcellular localization and the presence of chloroplast transit peptides were checked with targetp [] and chlorop [], respectively. internal sequence repeats were identified with the de novo prediction server hhrepid []., r-pe from g. ch was purified as described previously [] and the separation […]

PMCID: 5877776
PMID: 29558397
DOI: 10.3390/ijms19030915

[…] of the subcellular localization of identified ap genes from rice and barley was carried out using publicly available subcellular localization prediction programs; targetp [], predotar [], chlorop 1.1 [] and plant-mploc []. proteins targeting to the peroxisomes were predicted using predplantpts1 []., microarray probe-set ids with high homology were retrieved for all arabidopsis, rice […]

PMCID: 5859077
PMID: 29555947
DOI: 10.1038/s41598-018-23124-9

[…] pm plasma membrane.alocalization prediction by cello v.2.5 (http://cello.life.nctu.edu.tw/).blocalization prediction by psort (http://wolfpsort.org/).cchloroplast localization signal confirmed by chlorop (http://www.cbs.dtu.dk/services/chlorop/).figure 1table 2, abbreviations: ch chloroplast, cy cytosol, mt mitochondria, pm plasma membrane., alocalization prediction by cello v.2.5 […]

ChloroP institution(s)
Department of Biochemistry, Stockholm University, Sweden

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