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DAS-TMfilter specifications

Information


Unique identifier OMICS_07259
Name DAS-TMfilter
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for DAS-TMfilter

DAS-TMfilter in publications

 (18)
PMCID: 5900052
PMID: 29686663
DOI: 10.3389/fmicb.2018.00700

[…] classified in the genus saccharothrix (). according to the genome-wide sequencing results of strain hhs.015, we analyzed its secreted protein genes using several software of signalpv4.1, tmhmmv2.0, das-tmfilter, hmmtop, prosite scan, psort and big-pi predictor and selected some of the function-unknown putative protein genes to investigate their functions after heterologous expression. according […]

PMCID: 5172438
PMID: 15629037
DOI: 10.1016/S1672-0229(04)02001-7

[…] a solution to the problem that non-transmembrane query sequences may give false positive hits (20%-30%) in the prediction process. the upgraded and modified version of the das-prediction method, das-tmfilter algorithm, has been distributed . the new algorithm is designed to make distinction between protein sequences with and without tm helices at a reasonably low rate of false positive […]

PMCID: 5111396
PMID: 27868089
DOI: 10.1128/mSystems.00065-16

[…] periplasm, thylakoid membrane, thylakoid lumen, cytoplasm, or carboxysome. protein localization was based on amino acid sequences using the psortb algorithm for bacteria () and the expasy tool das-tmfilter for transmembrane domain prediction (). proteins associated with the thylakoid membranes and carboxysomes are not predicted by psortb and were instead inferred from homology […]

PMCID: 4822843
PMID: 27049771
DOI: 10.1371/journal.pcbi.1004862

[…] , ], cd-hit 4.5.7 [], cytoscape 2.8.3 [], blast2similaritygraph plugin for cytoscape [], graph-0.96_01 (unionfind) perl library, mafft v7.154b [], jalview v2.7 [], tmhmm 2.0c [], phobius v1.01 [], das-tmfilter (december 2012) [], hmmer 3.0 (march 2010) [], pfamscan (october 2013) [], mega 5.05 [], circos v0.64 [] and psipred v3.5. the multiple sequence alignments were built with mafft-linsi […]

PMCID: 4749231
PMID: 26863622
DOI: 10.1371/journal.ppat.1005443

[…] (tm) predicting tools to determine the sequence in tswv nsm that might enable insertion into or association with membranes. the predicted outcome () varied according to the methods used. mpex [] and das-tmfilter [] predicted two tm regions, whereas tmpred, and toppred identified only one ( and ). tmhmm and δg prediction algorithms failed to predict any membrane-spanning domain but identified two […]


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DAS-TMfilter institution(s)
Agricultural Biotechnology Center, Gödöllö, Hungary

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