TATFIND statistics

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Citations per year

Number of citations per year for the bioinformatics software tool TATFIND
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Protocols

TATFIND specifications

Information


Unique identifier OMICS_03898
Name TATFIND
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for TATFIND

TATFIND citations

 (44)
library_books

Signal peptides for recombinant protein secretion in bacterial expression systems

2018
Microb Cell Fact
PMCID: 5875014
PMID: 29598818
DOI: 10.1186/s12934-018-0901-3

[…] eby sequences possessing a D-score above 0.7 having a high probability that they in fact really do so [].For the identification of Tat signal peptides, TatP (http://www.cbs.dtu.dk/services/TatP/ []), TatFind (http://signalfind.org/tatfind.html []), and PRED-Tat (http://www.compgen.org/tools/PRED-TAT/ []) are commonly used prediction programs. However, since twin-arginine residues can also occur in […]

library_books

Tracking Proteins Secreted by Bacteria: What's in the Toolbox?

2017
PMCID: 5449463
PMID: 28620586
DOI: 10.3389/fcimb.2017.00221

[…] ://www.cbs.dtu.dk/services/SignalP) (Petersen et al., ), PSort (http://www.psort.org), which conveniently also provides a list of links toward other subcellular prediction programs, Pred-Tat, TatP or TatFind (see Berks, , for comparison). Lipoprotein signal peptides are a distinct class of Sec dependent signal peptides characterized by a C-terminal consensus sequence, the lipobox, which ends with […]

library_books

The EXIT Strategy: an Approach for Identifying Bacterial Proteins Exported during Host Infection

2017
MBio
PMCID: 5405230
PMID: 28442606
DOI: 10.1128/mBio.00333-17

[…] Sequences were analyzed for transmembrane domains and signal peptides using TMHMM () and Signal P (). Previous analyses of the M.┬átuberculosis genome performed with LipoP, TatP, TATFIND, and TigrFAM were used to identify proteins with lipoprotein or Tat signal peptides (, ). PE/PPE proteins were analyzed for YxxxD/E motifs (). […]

library_books

Secretome Prediction of Two M. tuberculosis Clinical Isolates Reveals Their High Antigenic Density and Potential Drug Targets

2017
Front Microbiol
PMCID: 5293778
PMID: 28223967
DOI: 10.3389/fmicb.2017.00128

[…] s that we used; however, they do not eliminate the transmembrane proteins in their secretome. While the secretome reported by Roy et al. (), only utilized the secreted proteins by SignalP followed by TATFIND1.4, PRED-LIPO, and the application of TMHMM analysis but only in a selected subgroup of proteins. Our bioinformatics pipeline could be useful to predict secretomes in other pathogen bacteria g […]

call_split

A unifying mechanism for the biogenesis of membrane proteins co operatively integrated by the Sec and Tat pathways

2017
eLife
PMCID: 5449189
PMID: 28513434
DOI: 10.7554/eLife.26577.032
call_split See protocol

[…] A Perl script was used to run all proteins from all completed prokaryotic genomes available in Genbank at the time of analysis through the TATFind program (version 1.4; []) and the TMHMM program (version 2.0c; []). Conditions were included in the script to state that there should be an even number of TMD before the twin arginines, the nu […]

call_split

Physical, Chemical and Proteomic Evidence of Potato Suberin Degradation by the Plant Pathogenic Bacterium Streptomyces scabiei

2016
PMCID: 5158115
PMID: 27853060
DOI: 10.1264/jsme2.ME16110
call_split See protocol

[…] The extracellular localization of the protein was assessed using SignalP (), Phobius (), SecrotomeP (), TatP (), and Tatfind () programs, while NCBI, Uniprot, KEGG, and COG resources were used to predict protein function.The normalized spectral count (NSpC) was defined as the spectral count of a protein divided by i […]


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TATFIND institution(s)
Department of Biology, Leidy Laboratories, University of Pennsylvania, Philadelphia, PA, USA

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