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DTA specifications

Information


Unique identifier OMICS_19573
Name DTA
Alternative name Dynamic Transcriptome Analysis
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data A matrix containing the normalized measurements of the total, labeled and unlabeled RNA fractions (datamat) and a description of the experimental design (phenomat).
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License Artistic License version 2.0
Computer skills Advanced
Version 2.26.0
Stability Stable
Requirements
R(>=2.10), LSD, scatterplot3d
Maintained Yes

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Documentation


Maintainer


  • person_outline Bjorn Schwalb

Publication for Dynamic Transcriptome Analysis

DTA citations

 (4)
library_books

Comparative Community Proteomics Demonstrates the Unexpected Importance of Actinobacterial Glycoside Hydrolase Family 12 Protein for Crystalline Cellulose Hydrolysis

2016
MBio
PMCID: 4999548
PMID: 27555310
DOI: 10.1128/mBio.01106-16

[…] S component consisted of a Thermo Scientific LTQ-Orbitrap Velos mass spectrometer (Thermo Scientific, San Jose, CA) operated with settings previously described ()LC-MS/MS raw data were converted into dta files using Bioworks Cluster 3.2 (Thermo, Fisher Scientific, Cambridge, MA), and the MSGF+ algorithm () was used to search MS/MS spectra against genes predicted from all binned metagenomic data se […]

library_books

The complex pattern of epigenomic variation between natural yeast strains at single nucleosome resolution

2015
PMCID: 4520285
PMID: 26229551
DOI: 10.1186/s13072-015-0019-3

[…] trol of H3K14ac levels was previously reported in BY × RM yeast strains []. Finally, we used transcriptomic data corresponding to steady-state mRNA levels, which, unlike RNA PolII ChIP, NET-seq [] or DTA [] do not reflect transcriptional activity itself. Turnover and post-transcriptional regulations of mRNAs probably also depend on various sources of variation, further attenuating the correlation […]

library_books

Sequential Induction of Effector Function, Tissue Migration and Cell Death during Polyclonal Activation of Mouse Regulatory T Cells

2012
PLoS One
PMCID: 3511437
PMID: 23226238
DOI: 10.1371/journal.pone.0050080

[…] Fluorochrome-labeled or biotinylated Abs to the following proteins were used: CD4 (RM4-5), CD25 (7D4), CD103 (M290), CD62L (MEL-14), CD44 (Ly-24), CD45RB (16A), CD90.1 (OX-7), GITR (DTA-1), ICOS (7E.17G9), CCR5 (C34-3448), CCR6 (140706), Bcl-2 (3FM) and IL-10 (JES5-16E3) from BD Biosciences and LAP (TW7-16B4), IL-10R (1B1.3a) from BioLegend. For intracellular IL-10 staining cells […]

library_books

Density and Viscosity of Binary Mixtures of Thiocyanate Ionic Liquids + Water as a Function of Temperature

2012
PMCID: 3434890
PMID: 23002317
DOI: 10.1007/s10953-012-9875-7

[…] Simultaneous TG/DTA experiments was performed using a Q600 TA Instruments. In general, runs were carried out using matched labyrinth platinic crucibles with Al2O3 in the reference pan. The crucible design hampered th […]

Citations

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DTA institution(s)
Gene Center Munich and Department of Biochemistry, Ludwig-Maximilians-Universitat Munchen, Munich, Germany
DTA funding source(s)
Supported by the LMUexcellent guest professorship ‘Computational Biochemistry’; by the Deutsche Forschungsgemeinschaft, SFB646, TR5, FOR1068, NIM, the European Molecular Biology Organization (EMBO), an Advanced Investigator Grant of the European Research Council, a LMUexcellent research professorship ‘Molecular systems biology of gene regulation’, the LMUinnovativ project Bioimaging Network (BIN), and the Jung-Stiftung.

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