Project description:Molecular networking has become a key method to visualize and annotate the chemical space in non-targeted mass spectrometry data. We present feature-based molecular networking (FBMN) as an analysis method in the Global Natural Products Social Molecular Networking (GNPS) infrastructure that builds on chromatographic feature detection and alignment tools. FBMN enables quantitative analysis and resolution of isomers, including from ion mobility spectrometry.
Project description:Molecular networking connects mass spectra of molecules based on the similarity of their fragmentation patterns. However, during ionization, molecules commonly form multiple ion species with different fragmentation behavior. As a result, the fragmentation spectra of these ion species often remain unconnected in tandem mass spectrometry-based molecular networks, leading to redundant and disconnected sub-networks of the same compound classes. To overcome this bottleneck, we develop Ion Identity Molecular Networking (IIMN) that integrates chromatographic peak shape correlation analysis into molecular networks to connect and collapse different ion species of the same molecule. The new feature relationships improve network connectivity for structurally related molecules, can be used to reveal unknown ion-ligand complexes, enhance annotation within molecular networks, and facilitate the expansion of spectral reference libraries. IIMN is integrated into various open source feature finding tools and the GNPS environment. Moreover, IIMN-based spectral libraries with a broad coverage of ion species are publicly available.
Project description:We performed RNA-seq analysis of control, NHR-23-depleted, SPE-44-depleted and NHR-23+SPE-44 depleted adult male animals, to identify genes regulated by NHR-23 and SPE-44.
Project description:Filling this out so it doesn't get rejected. Filling this out so it doesn't get rejected.Filling this out so it doesn't get rejected.Filling this out so it doesn't get rejected.Filling this out so it doesn't get rejected.
Project description:Metabolome of Streptomyces sp. MBT84
Growth conditions: 5 days confluent on Minimal Medium agar supplemented with 1% glycerol, 0.5% mannitol and 25 mM TES
160- 165 = medium blank
166 - 171 = medium + catechol blank
172 - 177 = MBT84
178 - 183 = MBT84 + catechol
Project description:This is the molecular network done using ddMS files of QC pool sample analyzed with C18 (positive, negative polarities) and Zic-Hilic (Positive, negative polarities). DMSP was identified in cold-adapted Antarctic Ulva and its holobiont, and several other polar compounds were up-regulated during heat stress.
The full dataset can be found under the MassIVE Accession MSV000097253