GNPS-Venezuelin tandem MS
Ontology highlight
ABSTRACT:
INSTRUMENT(S): Synapt HDMS
ORGANISM(S): Streptomyces Venezuelae (ncbitaxon:54571)
SUBMITTER: W. A. van der Donk
PROVIDER: MSV000079630 | GNPS | Tue Apr 05 16:20:00 BST 2016
REPOSITORIES: GNPS
Similar Datasets
Project description:Paper title: Sublancin is not a lantibiotic but an S-linked Glycopeptide. Author List: Oman TJ, Boettcher JM, Wang H, Okalibe XN, van der Donk WA. Citation: 60 citing articles. PubMedID: 21196935. Brief description of the data submitted: RAW Files used to generate Figure 1c and 1d in the main article.Fragmentation pattern of the chymotrypsin digest fragment comprising residues 12-32 of Sublancin
2016-04-06 | MSV000079638 | MassIVE
Project description:Paper Title: The sequence of the enterococcal cytolysin imarts unusual lanthionine stereochemistry.
Author list: Weixin Tang, W. A. van der Donk
citation: Nature Chemical Biology 9, 157-159 (2013) doi: 10.1038/nchembio.1162
PubmedID: 23314913
Brief description: MS-MS analysis of AspN-treated CylLL and CylLS core peptides
2016-04-06 | MSV000079632 | MassIVE
Project description:Paper title: Substrate control in stereoselective lanthionine biosynthesis
Author list: Weixin Tang, Jimenes Oses G, Houk KN, van der Donk WA.
citation: Nature Chemistry 7, 57-64 (2015) doi: 10.1038/nchem.2113
Pubmed ID: 25515891
Brief description: MSMS analysis for HalM2-modified HalA2-T2A
2016-04-06 | MSV000079631 | MassIVE
Project description:F. Boonekamp et al., (2019) describe an innocuous watermarking strategy for coding regions that enables the discrimination of DNA and mRNA by sequencing through a k-mer approach and facilitates selective editing of watermarked and non-watermarked sequences. Shot-gun proteomics (LFQ) was performed on the parent and the engineered yeast strain. *Corresponding author: Pascale Daran-Lapujade (p.a.s.daran-lapujade@tudelft.nl). Department of Biotechnology, Delft University of Technology, van der Maasweg 9, 2629HZ Delft, The Netherlands
2020-09-21 | PXD016914 | Pride
Project description:Paper title: Production of lantibiotics from the anaerobe Ruminococcus flavefaciens FD-1 in Escherichia coli
Author list: Zhao, X, van der Donk W. A.
Citation: Chemistry & Biology, accepted.
Brief description of data: Fragmentation data of heterologously expressed lanthipeptides from Ruminococcus flavefaciens FD-1. Full length, modified peptides were cleaved with Glu-C or chymotrypsin and purified by reverse phase HPLC prior to analysis.
2015-12-25 | MSV000079434 | MassIVE
Project description:Paper title: Structural Characterization and Bioactivity Analysis of the Two-Component Lantibiotic Flv System from a Ruminant Bacterium
Author list: Zhao X, van der Donk WA
Citation: Cell Cehm Biol. 2016 Jan 28; 23: 1-11. doi:10.1016/j.chembiol.2015.11.014
Brief description of the data submitted: RAW files of MSMS data for each of the lanthipeptides from R. flavefaciens FD-1.
2016-02-11 | MSV000079506 | GNPS
Project description:Paper title: Discovery and characterization of bicereucin, an unusual D-amino acid-containing mixed two component lantibiotic.
Author list: Liujie Huo and Wilfred A. van der Donk
2016-04-03 | MSV000079622 | GNPS
Project description:In 15 patients with rheumatoid arthritis the baseline expression (t=0) of type I IFN-regulated genes was determined in peripheral blood cells (PAXgene) using cDNA-microarrays and compared to levels one month after (t=1) anti-TNF treatment (infliximab). Therefore, we used 43K cDNA microarrays from the Stanford Functional Genomics Facility (http://microarray.org/sfgf/) printed on aminosilane-coated slides containing ~20.000 unique genes. Only one batch of arrays was used for all experiments. First DNA spots were UV-cross linked to the slide using 150-300 mJoules. Sample preparation and microarray hybridization were performed as described previously (1,2). Data storage and filtering was performed using the Stanford Microarray Database (http://genome-www5.stanford.edu//) as described previously. 1. van der Pouw Kraan TC, Wijbrandts CA, van Baarsen LG, Voskuyl AE, Rustenburg F, Baggen JM et al.: Rheumatoid arthritis subtypes identified by genomic profiling of peripheral blood cells: assignment of a type I interferon signature in a subpopulation of patients. Ann Rheum Dis 2007, 66: 1008-1014. 2. van der Pouw Kraan TC, van Baarsen LG, Rustenburg F, Baltus B, Fero M, Verweij CL: Gene expression profiling in rheumatology. Methods Mol Med 2007, 136: 305-327. Abbreviations: - Bnrs are the different patients analyzed - PAX or Paxgene indicates the total RNA was isolated from peripheral blood obtained in PAXgene tubes - CRS: common reference sample: We made a common reference that consisted of a mixture of mRNAs isolated from 11 different cell lines (Perou CM, Jeffrey SS, van de RM et al. Distinctive gene expression patterns in human mammary epithelial cells and breast cancers. Proc Natl Acad Sci U S A. 1999; 96:9212-9217) supplemented with RNA from rheumatoid synovial tissue, fibroblasts, and activated peripheral blood mononuclear cells (PBMCs). - PMT: photomultiplier tube: the sensitivity/intensity of the scanner can be adjusted to prevent spot saturation. Compound Based Treatment: anti-TNF (infliximab)
2010-01-28 | GSE19821 | GEO
Project description:In 15 patients with rheumatoid arthritis the baseline expression (t=0) of type I IFN-regulated genes was determined in peripheral blood cells (PAXgene) using cDNA-microarrays and compared to levels one month after (t=1) anti-TNF treatment (infliximab). Therefore, we used 43K cDNA microarrays from the Stanford Functional Genomics Facility (http://microarray.org/sfgf/) printed on aminosilane-coated slides containing ~20.000 unique genes. Only one batch of arrays was used for all experiments. First DNA spots were UV-cross linked to the slide using 150-300 mJoules. Sample preparation and microarray hybridization were performed as described previously (1,2). Data storage and filtering was performed using the Stanford Microarray Database (http://genome-www5.stanford.edu//) as described previously. 1. van der Pouw Kraan TC, Wijbrandts CA, van Baarsen LG, Voskuyl AE, Rustenburg F, Baggen JM et al.: Rheumatoid arthritis subtypes identified by genomic profiling of peripheral blood cells: assignment of a type I interferon signature in a subpopulation of patients. Ann Rheum Dis 2007, 66: 1008-1014. 2. van der Pouw Kraan TC, van Baarsen LG, Rustenburg F, Baltus B, Fero M, Verweij CL: Gene expression profiling in rheumatology. Methods Mol Med 2007, 136: 305-327. Abbreviations: - Bnrs are the different patients analyzed - PAX or Paxgene indicates the total RNA was isolated from peripheral blood obtained in PAXgene tubes - CRS: common reference sample: We made a common reference that consisted of a mixture of mRNAs isolated from 11 different cell lines (Perou CM, Jeffrey SS, van de RM et al. Distinctive gene expression patterns in human mammary epithelial cells and breast cancers. Proc Natl Acad Sci U S A. 1999; 96:9212-9217) supplemented with RNA from rheumatoid synovial tissue, fibroblasts, and activated peripheral blood mononuclear cells (PBMCs). - PMT: photomultiplier tube: the sensitivity/intensity of the scanner can be adjusted to prevent spot saturation. Compound Based Treatment: anti-TNF (infliximab) reference_design
2010-06-24 | E-GEOD-19821 | biostudies-arrayexpress