TMpred protocols

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TMpred computational protocol

TMpred specifications

Information


Unique identifier OMICS_03883
Name TMpred
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Kay Hofmann <>

Publication for TMpred

TMpred IN pipelines

 (27)
2018
PMCID: 5823469
PMID: 29425245
DOI: 10.1371/journal.pntd.0006267

[…] sequences was performed using the translate tool from the expasy proteomic tools (http://web.expasy.org/translate/). the localization and length of transmembrane domains was predicted using tmpred (http://embnet.vital-it.ch/software/tmpred_form.html). the multiple sequence alignment was performed using the program multalin [39] from prabi […]

2018
PMCID: 5823469
PMID: 29425245
DOI: 10.1371/journal.pntd.0006267

[…] translate tool from the expasy proteomic tools (http://web.expasy.org/translate/). the localization and length of transmembrane domains was predicted using tmpred (http://embnet.vital-it.ch/software/tmpred_form.html). the multiple sequence alignment was performed using the program multalin [39] from prabi […]

2018
PMCID: 5886685
PMID: 29621331
DOI: 10.1371/journal.pone.0195556

[…] institute, cambridge, uk) with default settings. the online software of conserved domains (cd) on the ncbi website (https://www.ncbi.nlm.nih.gov/structure/cdd/wrpsb.cgi), and signalp and tmpred on the expasy website (http://www.expasy.org/) were used for prediction analyses of conserved domains, signal peptides and transmembrane helixes, respectively., through searching the cotton […]

2018
PMCID: 5915565
PMID: 29720990
DOI: 10.3389/fpls.2018.00504

[…] also a research fellow of cnpq., we thank dr. ken cline for providing laboratory facilities and critically reading the manuscript., http://www.arabidopsis.org , http://www.ch.embnet.org/software/tmpred_form.html , https://www.arabidopsis.org/portals/expression/microarray/atgenexpress.jsp , http://www.ncbi.nlm.nih.gov/genbank , http://www.phytozome.net/ , http://translatorx.co.uk/ , […]

2017
PMCID: 5288566
PMID: 28168222
DOI: 10.1128/mSphere.00229-16

[…] across all orthologues is indicated in different shades of purple (residues are colored purple if they agree with at least 50% of the residues in the column). the tentative tm (as identified by tmpred and psipred) is indicated in light blue. while all orthologues share a highly significant (p ≥ 8 × 10−9) match to the preli domain (pf04707), only the coccidian parasites shown […]

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