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TargetP specifications

Information


Unique identifier OMICS_03897
Name TargetP
Interface Web user interface
Restrictions to use None
Input data A single sequence or several sequences.
Input format FASTA
Output data A prediction score for each possible outcome and a predicted localization.
Output format TXT
Computer skills Basic
Version 1.1
Stability Stable
Maintained Yes

Maintainers


  • person_outline Henrik Nielsen <>
  • person_outline TargetP Team <>
  • person_outline Olof Emanuelsson <>

Additional information


http://www.cbs.dtu.dk/services/doc/targetp-1.1.readme

Information


Unique identifier OMICS_03897
Name TargetP
Software type Application/Script
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Computer skills Advanced
Version 1.1b
Stability Stable
Registration required Yes
Maintained Yes

Versioning


Add your version

Maintainers


  • person_outline Henrik Nielsen <>
  • person_outline TargetP Team <>
  • person_outline Olof Emanuelsson <>

Additional information


http://www.cbs.dtu.dk/services/doc/targetp-1.1.readme

Publications for TargetP

TargetP in pipelines

 (119)
2018
PMCID: 5767910
PMID: 29349107
DOI: 10.1016/j.dib.2017.12.060

[…] blast search results were analyzed with blast2go version 4.1 . cazymes were identified with dbcan version 5.0 . proteins predicted to contain a signal peptide by both signalp version 4.1 and targetp version 1.1 were categorized as secreted proteins. proteases were identified by homology (blast) searches against the merops database version 11.0 with a maximum e-value of 1e-5., this work […]

2018
PMCID: 5800017
PMID: 29402222
DOI: 10.1186/s12864-018-4498-z

[…] of a protein (http://genetics.bwh.harvard.edu/pph2/) [] to predict the impact of the validated snps on protein structure and function. in addition, we used tartgetp (http://www.cbs.dtu.dk/services/targetp/) [] to predict the subcellular location of the proteins encoded by the validated genes, and tmhmm (http://www.cbs.dtu.dk/services/tmhmm/) [] to predict transmembrane helices […]

2018
PMCID: 5801409
PMID: 29456553
DOI: 10.3389/fgene.2018.00019

[…] regions were predicted using tmhmm version 2.0 (). signal peptide cleavage sites were predicted using signalp software version 4.1. mitochondria targeting sequences were predicted using targetp version 1.1 (; ) and mitoprot (), while gpi-modification anchors were searched using predgpi version 3.0 ()., iron responsive elements stem-loop structures were screened in the upstream […]

2018
PMCID: 5809090
PMID: 29385124
DOI: 10.1371/journal.pgen.1007164

[…] genes per cell with an average of 2,565 reads per gene. geo accession id gse103692. https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=gse103692, zebrafish genes from grcz10 version 80 were run on targetp 1.1 server (center for biological sequence analysis, technical university of denmark http://www.cbs.dtu.dk/services/targetp/) []. genes with reliability class (rc) score = 1 were selected […]

2018
PMCID: 5821702
PMID: 29467406
DOI: 10.1038/s41467-017-02781-w

[…] was determined by the ratio of total grain yield to applied fertilizer nitrogen, respectively, as described., prediction of the subcellular localization and cleavage site of are1 protein were used targetp 1.1 server (http://www.cbs.dtu.dk/services/targetp/) with cutoff value 0.500 according to the online instructions. prediction of transmembrane helices in are1 protein was performed via tmhmm […]


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TargetP in publications

 (967)
PMCID: 5940233
PMID: 29738547
DOI: 10.1371/journal.pone.0196995

[…] were removed from 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 […]

PMCID: 5935958
PMID: 29728059
DOI: 10.1186/s12870-018-1297-2

[…] and protscale were employed to determine the amino acids compositions, physical and chemical properties and the hydrophobicity or hydrophilicity. psort prediction (http://psort.hgc.jp/form.html)and targetp (http://www.cbs.dtu.dk/services/targetp/) were used to analyze the subcellular localization. prediction of signal peptide was performed using signalp […]

PMCID: 5935387
PMID: 29727440
DOI: 10.1371/journal.pone.0193831

[…] by blastkoala in kegg database (http://www.kegg.jp/). signal peptide was determined by signalp 4.1 server (http://www.cbs.dtu.dk/services/signalp/). subcelluar localization was predicted by targetp 1.1 server (http://www.cbs.dtu.dk/services/targetp/). thmhh server v. 2.0 (http://www.cbs.dtu.dk/services/ tmhmm/) was used to predict transmembrane helices in proteins. protein domains […]

PMCID: 5940120
PMID: 29706613
DOI: 10.18632/aging.101435

[…] the mature sequences of many mitochondrial proteins []. given their similarity to presequences, they were named internal matrix targeting signal-like sequences (imts-ls). prediction programs such as targetp, normally designed to identify mtss, can easily be utilized to recognize imts-ls []. the imts-ls bind to the mitochondrial surface receptor tom70. tom70 belongs to the tricopeptide repeat […]

PMCID: 5934526
PMID: 29755492
DOI: 10.3389/fpls.2018.00549

[…] and ncbi (https://blast.ncbi.nlm.nih.gov) websites. proteins with high identity were selected for the identification of uncharacterized proteins. the subcellular localization was predicted by targetp (http://www.cbs.dtu.dk/services/targetp/) (emanuelsson et al., ) and the top hit domains present in the identified proteins was evaluated by pfam batch sequence search […]


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TargetP institution(s)
Stockholm Bioinformatics Center, Albanova, Stockholm University, Stockholm, Sweden; Center for Biological Sequence Analysis, Technical University of Denmark, Lyngby, Denmark; Department of Biochemistry and Biophysics, Center for Biomembrane Research, Stockholm University, Stockholm, Sweden.

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