E. A. Melamud

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Structural genomics has the goal of obtaining useful, three-dimensional models of all proteins by a combination of experimental structure determination and comparative model building. We evaluate different strategies for optimizing information return on effort. The strategy that maximizes structural coverage requires about seven times fewer structure(More)
We present a liquid chromatography-mass spectrometry (LC-MS) method that capitalizes on the mass-resolving power of the orbitrap to enable sensitive and specific measurement of known and unanticipated metabolites in parallel, with a focus on water-soluble species involved in core metabolism. The reversed phase LC method, with a cycle time 25 min, involves a(More)
MAVEN is an open-source software program for interactive processing of LC-MS-based metabolomics data. MAVEN enables rapid and reliable metabolite quantitation from multiple reaction monitoring data or high-resolution full-scan mass spectrometry data. It automatically detects and reports peak intensities for isotope-labeled metabolites. Menu-driven,(More)
Metabolomic analysis by liquid chromatography-high-resolution mass spectrometry results in data sets with thousands of features arising from metabolites, fragments, isotopes, and adducts. Here we describe a software package, Metabolomic Analysis and Visualization ENgine (MAVEN), designed for efficient interactive analysis of LC-MS data, including in the(More)
Mass spectrometry technologies for measurement of cellular metabolism are opening new avenues to explore drug activity. Trimethoprim is an antibiotic that inhibits bacterial dihydrofolate reductase (DHFR). Kinetic flux profiling with (15)N-labeled ammonia in Escherichia coli reveals that trimethoprim leads to blockade not only of DHFR but also of another(More)
Driven by the advent of metabolomics, recent years have seen renewed interest in the investigation of yeast metabolism. Here we provide a practical guide to metabolomic analysis of yeast using liquid chromatography-mass spectrometry (LC-MS). We begin with background on LC-MS and its utility in studying yeast metabolism. We then describe key issues involved(More)
A number of recent advances have been made in deriving function information from protein structure. A fold relationship to an already characterized protein will often allow general information about function to be deduced. More detailed information can be obtained using sequence relationships to already studied proteins. Methods of deducing function(More)
Glucose is catabolized in yeast via two fundamental routes, glycolysis and the oxidative pentose phosphate pathway, which produces NADPH and the essential nucleotide component ribose-5-phosphate. Here, we describe riboneogenesis, a thermodynamically driven pathway that converts glycolytic intermediates into ribose-5-phosphate without production of NADPH.(More)
  • E. A. Melamud
  • IEEE Journal on Selected Areas in Communications
  • 1994
The structure of the rural network as a special component of the Russian network is described. The numbering plan, signaling system, release system as well as transmission and switching equipment used are considered in the paper. Rural network peculiarities are the focal point of this paper, and they are separated specifically for switching systems.
We present here a LC-MS and GC-MS based analytical platform for the comprehensive analysis of cellular metabolites, including water-soluble metabolites, and waterinsoluble fatty acids, and phospholipids. The entire workflow consists of metabolic extraction, LC-MS and GC-MS runs, data analysis and interpretation. Standard operation procedures have been(More)
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