DTASelect statistics

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Citations per year

Number of citations per year for the bioinformatics software tool DTASelect
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Tool usage distribution map

This map represents all the scientific publications referring to DTASelect per scientific context
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Protocols

DTASelect specifications

Information


Unique identifier OMICS_09160
Name DTASelect
Software type Package/Module
Interface Command line interface, Graphical user interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained No

Versioning


No version available

Publication for DTASelect

DTASelect citations

 (226)
library_books

Systemic surfaceome profiling identifies target antigens for immune based therapy in subtypes of advanced prostate cancer

2018
Proc Natl Acad Sci U S A
PMCID: 5949005
PMID: 29686080
DOI: 10.1073/pnas.1802354115

[…] ate peptides in the search with no consideration for missed cleavages; and (iv) static modification of +57.02156 on cysteine residues. Peptide identifications were organized and filtered by using the DTASelect algorithm, which uses a linear discriminant analysis to identify peptide-scoring thresholds that yield a peptide-level FDR of <5% as estimated by using a decoy database approach. Proteins we […]

library_books

The influence of transcript assembly on the proteogenomics discovery of microproteins

2018
PLoS One
PMCID: 5870951
PMID: 29584760
DOI: 10.1371/journal.pone.0194518

[…] then filtered to 10-ppm, and 50-ppm fragment ion tolerance with a maximum of two internal missed cleavages using the custom databases. Identified spectra were filtered and grouped into proteins using DTASelect. Proteins and microproteins required, at least, one peptide to be identified with a setting of less than 1% FDR.To identify microproteins, data files from technical duplicates were combined […]

library_books

A proteomic insight into vitellogenesis during tick ovary maturation

2018
Sci Rep
PMCID: 5856802
PMID: 29549327
DOI: 10.1038/s41598-018-23090-2

[…] y and light labels (+8.0444), were considered as metabolic labelling. Data was searched with 50 ppm precursor ion tolerance and 600 ppm fragment ion tolerance. Identified proteins were filtered using DTASelect. Filtering required a minimum of 2 peptides per protein, at least one tryptic terminus for each peptide, and less than 1% FDR. Normalised spectral abundance factor (NSAF) was calculated acco […]

call_split

Interactome analysis of the lymphocytic choriomeningitis virus nucleoprotein in infected cells reveals ATPase Na+/K+ transporting subunit Alpha 1 and prohibitin as host cell factors involved in the life cycle of mammarenaviruses

2018
PLoS Pathog
PMCID: 5834214
PMID: 29462184
DOI: 10.1371/journal.ppat.1006892
call_split See protocol

[…] Protein and peptide identification were performed with Integrated Proteomics Pipeline—IP2 (Integrated Proteomics Applications, San Diego, CA. http://www.integratedproteomics.com/) using ProLuCID and DTASelect2 algorithms. DTASelect parameters were—p 2 -y 1—trypstat—pfp .01 –extra-pI-DB-dm-in. Spectrum raw files were extracted into ms2 files from raw files using open source RawExtract 1.9.9 (Scrip […]

library_books

Increased proteomic complexity in Drosophila hybrids during development

2018
Sci Adv
PMCID: 5810618
PMID: 29441361
DOI: 10.1126/sciadv.aao3424

[…] . melanogaster and D. simulans UniProtKB protein database (04_2014), which included the reverse sequences of both species-specific databases to allow determination of an FDR at the peptide level with DTASelect2 (). Search results were uploaded to IP2 (Integrated Proteomics Solutions), and high-resolution MS/MS mass spectra were used to quantify relative protein expression based on isobaric isotopo […]

call_split

Integrated omics dissection of proteome dynamics during cardiac remodeling

2018
Nat Commun
PMCID: 5760723
PMID: 29317621
DOI: 10.1038/s41467-017-02467-3
call_split See protocol

[…] gine deamidation (0.9840 Da). Tryptic, semi-tryptic, and non-tryptic peptides within a 20-ppm mass window surrounding the candidate precursor mass were searched. Protein inference was performed using DTASelect (v.2.0), requiring ≤1% global peptide false discovery rate and 2 unique peptides per protein. Modified or non-tryptic peptides were subjected to separate statistical filters to limit false d […]


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DTASelect institution(s)
Department of Molecular Biotechnology, University of Washington, Seattle, WA, USA; Scripps Research Institute, Department of Cell Biology, La Jolla, CA, USA

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