MeltDB protocols

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MeltDB statistics

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chevron_left Metabolic network analysis Data normalization Metabolite identification Data integration Peak detection Statistical analysis Metabolite quantification Clustering Spectral visualization Chromatogram alignment chevron_right
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MeltDB specifications

Information


Unique identifier OMICS_06731
Name MeltDB
Interface Web user interface, Application programming interface
Restrictions to use None
Input format netCDF,mzXML,mzDATA
Computer skills Basic
Version 2.0
Stability Stable
Registration required Yes
Maintained Yes

Documentation


Maintainers


  • person_outline Heiko Neuweger <>
  • person_outline MeltDB <>

Publications for MeltDB

MeltDB in pipelines

 (2)
2017
PMCID: 5499862
PMID: 28520864
DOI: 10.1093/gigascience/gix037

[…] of cross-platform microarray and pathway data (incromap) [], integrated interactome system (iis) [], kazusa plant pathway viewer (kappa-view4) [], mapman [], prometra (which is integrated with meltdb 2.0) [], paintomics [], visualization and analysis of networks containing experimental data (vanted) [], mbrole [], and integrated molecular pathway level analysis (impala) [] go 1 step […]

2013
PMCID: 3616245
PMID: 23577015
DOI: 10.3389/fpls.2013.00073

[…] review have multiple functions. furthermore, several web-based applications for metabolomic data are available (table ), such as metamapp (barupal et al., ), metap-server (kastenmuller et al., ), meltdb (neuweger et al., ), and metitree (rojas-cherto et al., ). they cover multiple steps from data pre-processing to biological interpretation., metabolite data, which contain information […]


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MeltDB in publications

 (12)
PMCID: 5811519
PMID: 29479360
DOI: 10.3389/fpls.2018.00112

[…] of identified metabolites (; , ). recently, a number of databases incorporating ms or nuclear magnetic resonance (nmr)-based metabolomics and statistical tools have been developed, i.e., mery-b, meltdb, and setupx (; ). also, a number of integrated databases (e.g., plantmetabolomics.org) are also emerging (). these include full annotation of metabolites, metabolic profiling and statistical […]

PMCID: 5499862
PMID: 28520864
DOI: 10.1093/gigascience/gix037

[…] of cross-platform microarray and pathway data (incromap) [], integrated interactome system (iis) [], kazusa plant pathway viewer (kappa-view4) [], mapman [], prometra (which is integrated with meltdb 2.0) [], paintomics [], visualization and analysis of networks containing experimental data (vanted) [], mbrole [], and integrated molecular pathway level analysis (impala) [] go 1 step […]

PMCID: 4656794
PMID: 26635840
DOI: 10.3389/fpls.2015.01014

[…] were performed in technical duplicates for each of the four biological replicates of control plants and p-deprived plants., principal component analysis (pca) was carried out by using the program meltdb (). for heatmaps and statistics, data were log10-transformed and centered (). for root metabolites, one-way-anova and tukey’s test (p ≤ 0.05) were performed with sigmaplot 11 (systat software, […]

PMCID: 4523879
PMID: 26300898
DOI: 10.3389/fpls.2015.00597

[…] at 220°c. mass spectra were recorded at two scans per s from m/z 50 to 750. electron energy was set to 70 ev. raw data were converted to cdf-files by xcalibur 2.0.7 software (thermo) and uploaded to meltdb (). ribitol was found to be absent in the samples and it was therefore possible to add it as an internal standard., samples were measured at least in biological triplicates due to the limited […]

PMCID: 4371749
PMID: 25853128
DOI: 10.3389/fbioe.2015.00035

[…] that have been cultivated in both farming systems, organic and conventional, throughout 3 years. more than 300 gc-ms measurements were recorded and subsequently processed and analyzed in the meltdb 2.0 metabolomics analysis platform, being briefly outlined in this paper. we further describe how unsupervised (t-sne, pca) and supervised (svm) methods can be applied for sample visualization […]


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MeltDB institution(s)
International NRW Graduate School in Bioinformatics and Genome Research, Bielefeld University, Bielefeld, Germany; Computational Genomics, Center for Biotechnology (CeBiTec), Bielefeld, Germany; Proteome and Metabolome Research, Bielefeld University, Bielefeld, Germany; Genome Informatics, Bielefeld University, Bielefeld, Germany; Institute for Genome Research and Systems Biology, CeBiTec, Bielefeld, Germany
MeltDB funding source(s)
Supported by the International Graduate School in Bioinformatics and Genome Research, and the BMBF (grant 0313805A ‘GenoMik-Plus’).

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