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Using Bayesian networks to analyze expression data

by Nir Friedman, Michal Linial, Iftach Nachman - Journal of Computational Biology , 2000
"... DNA hybridization arrays simultaneously measure the expression level for thousands of genes. These measurements provide a “snapshot ” of transcription levels within the cell. A major challenge in computational biology is to uncover, from such measurements, gene/protein interactions and key biologica ..."
Abstract - Cited by 1088 (17 self) - Add to MetaCart
by showing how Bayesian networks can describe interactions between genes. We then describe a method for recovering gene interactions from microarray data using tools for learning Bayesian networks. Finally, we demonstrate this method on the S. cerevisiae cell-cycle measurements of Spellman et al. (1998). Key

An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein database

by Jimmy K. Eng, Ashley L. Mccormack, John R. Yates - J. Am. Soc. Mass Spectrom , 1994
"... A method to correlate the uninterpreted tandem mass spectra of peptides produced under low energy (lo-50 eV) collision conditions with amino acid sequences in the Genpept database has been developed. In this method the protein database is searched to identify linear amino acid sequences within a mas ..."
Abstract - Cited by 944 (19 self) - Add to MetaCart
from peptides obtained from the enzymatically digested total proteins of E. coli and S. cerevisiae cells allowed matchmg of the spectra to amino acid sequences within proteins of these organisms. The approach described in this manuscript provides a convenient method to interpret tandem mass spectra

Communication Saccharomyces Cerevisiae Cell Wall

by Components As Tools For, Ochratoxin A Decontamination, Małgorzata Piotrowska, Anna Masek
"... www.mdpi.com/journal/toxins ..."
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www.mdpi.com/journal/toxins

Ferrofluid modified Saccharomyces cerevisiae cells for biocatalysis. Food Res

by Mirka Safarikova , Zdenka Maderova , Ivo Safarik - Int , 2009
"... a b s t r a c t An inexpensive and non-toxic magnetically responsive biocatalyst was prepared by ferrofluid modification of Saccharomyces cerevisiae cells. The prepared biocatalyst enabled efficient decomposition of hydrogen peroxide (HP) and sucrose conversion, due to the presence of active intrac ..."
Abstract - Cited by 1 (0 self) - Add to MetaCart
a b s t r a c t An inexpensive and non-toxic magnetically responsive biocatalyst was prepared by ferrofluid modification of Saccharomyces cerevisiae cells. The prepared biocatalyst enabled efficient decomposition of hydrogen peroxide (HP) and sucrose conversion, due to the presence of active

The function of chitin synthases 2 and 3 in the Saccharomyces cerevisiae cell cycle

by J. Andrew Shaw, Pieternellac Mol, Blair Bowers, T Sanford J Silverman, M. Henar Valdivieso, Angel Durdn, Enrico Cabib - J. Cell , 1991
"... Abstract. The morphology of three Saccharomyces cerevisiae strains, all lacking chitin synthase 1 (Chsl) and two of them deficient in either Chs3 (calRI mutation) or Chs2 was observed by light and electron microscopy. Cells deficient in Chs2 showed clumpy growth and aberrant shape and size. Their se ..."
Abstract - Cited by 66 (8 self) - Add to MetaCart
Abstract. The morphology of three Saccharomyces cerevisiae strains, all lacking chitin synthase 1 (Chsl) and two of them deficient in either Chs3 (calRI mutation) or Chs2 was observed by light and electron microscopy. Cells deficient in Chs2 showed clumpy growth and aberrant shape and size

Mitochondrial Inheritance Is Delayed in Saccharomyces cerevisiae Cells Lacking the

by Serine/threonine Phosphatase Ptc, Amy D. Roeder, Greg J. Hermann, Brian R. Keegan, Stephanie A. Thatcher, Janet M. Shaw, Thomas D. Fox , 1998
"... In wild-type yeast mitochondrial inheritance occurs early in the cell cycle concomitant with bud emergence. Cells lacking the PTC1 gene initially produce buds without a mitochondrial compartment; however, these buds later receive part of the mitochondrial network from the mother cell. Thus, the loss ..."
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In wild-type yeast mitochondrial inheritance occurs early in the cell cycle concomitant with bud emergence. Cells lacking the PTC1 gene initially produce buds without a mitochondrial compartment; however, these buds later receive part of the mitochondrial network from the mother cell. Thus

Saccharomyces cerevisiae cells lacking Grx6

by Judit Puigpinós, Celia Casas, Enrique Herrero
"... Altered intracellular calcium homeostasis and endoplasmic reticulum redox state in ..."
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Altered intracellular calcium homeostasis and endoplasmic reticulum redox state in

PMA1 and PMA2 Genes in Saccharomyces cerevisiae Cells Grown at Supraoptimal Temperatures

by C A Viegas, P B Sebastião, A G Nunes, I Sá-correia, Cristina A. Viegas, Pedro B. Sebastião, Anabela G. Nunes, Isabel Sá-correia , 1995
"... Activation of plasma membrane H(+)-ATPase and expression of PMA1 and PMA2 genes in Saccharomyces cerevisiae cells grown at supraoptimal temperatures. ..."
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Activation of plasma membrane H(+)-ATPase and expression of PMA1 and PMA2 genes in Saccharomyces cerevisiae cells grown at supraoptimal temperatures.

Regulatory networks revealed by transcriptional profiling of damaged Saccharomyces cerevisiae cells: Rpn4 links base excision repair with proteasomes

by Scott A. Jelinsky, Preston Estep, George M. Church, Leona D. Samson - Mol. Cell. Biol , 2000
"... Exposure to carcinogenic alkylating agents, oxidizing agents, and ionizing radiation modulates transcript levels for over one third of Saccharomyces cerevisiae’s 6,200 genes. Computational analysis delineates groups of coregulated genes whose upstream regions bear known and novel regulatory sequence ..."
Abstract - Cited by 87 (5 self) - Add to MetaCart
Exposure to carcinogenic alkylating agents, oxidizing agents, and ionizing radiation modulates transcript levels for over one third of Saccharomyces cerevisiae’s 6,200 genes. Computational analysis delineates groups of coregulated genes whose upstream regions bear known and novel regulatory

Multiplexed protein quantitation in Saccharomyces cerevisiae using aminereactive isobaric tagging reagents,”

by Philip L Ross , Yulin N Huang , Jason N Marchese , Brian Williamson , Kenneth Parker , Stephen Hattan , Nikita Khainovski , Sasi Pillai , Subhakar Dey , Scott Daniels , Subhasish Purkayastha , Peter Juhasz , Stephen Martin , Michael Bartlet-Jones , Feng He ¶ Allan Jacobson , Darryl J Pappin - Molecular and Cellular Proteomics, , 2004
"... We describe here a multiplexed protein quantitation strategy that provides relative and absolute measurements of proteins in complex mixtures. At the core of this methodology is a multiplexed set of isobaric reagents that yield amine-derivatized peptides. The derivatized peptides are indistinguisha ..."
Abstract - Cited by 248 (1 self) - Add to MetaCart
for relative protein quantitation using MS. Other elegant approaches use cell-culture enrichment with a stable isotope-labeled amino acid, including arginine (5), lysine (6), tyrosine (7), and leucine (8), for in vivo incorporation of a mass difference to support relative quantitation. This circumvents
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