fangman-brewer-gbrowse.gs.washington.edu

Brewer/Raghuraman Lab Home Page

Smash-&-grab yeast DNA prep. NIB-n-grab yeast DNA prep for 2-D gels. Genomic yeast DNA for 2-D gels. Yeast DNA in agarose plugs. YACs for yeast transformation. L waltii genome browser. Welcome to the lab page of the Brewer/Raghuraman lab. We use genomic tools and the budding yeast. To investigate the regulation of eukaryotic chromosomal DNA replication- how cells choose which origins of replication to use, how they decide when in S phase to fire those origins, and how cells respond to replication stress.

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Brewer/Raghuraman Lab Home Page | fangman-brewer-gbrowse.gs.washington.edu Reviews

<META> DESCRIPTION

Smash-&-grab yeast DNA prep. NIB-n-grab yeast DNA prep for 2-D gels. Genomic yeast DNA for 2-D gels. Yeast DNA in agarose plugs. YACs for yeast transformation. L waltii genome browser. Welcome to the lab page of the Brewer/Raghuraman lab. We use genomic tools and the budding yeast. To investigate the regulation of eukaryotic chromosomal DNA replication- how cells choose which origins of replication to use, how they decide when in S phase to fire those origins, and how cells respond to replication stress.

<META> KEYWORDS

1 protocols

2 dna preps

3 2 d gels

4 standard 2 d gels

5 fork direction gels

6 replication timing

7 density transfer

8 comparative hybridization

9 transient hemimethylation

10 transformation

CONTENT

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protocols,dna preps,2 d gels,standard 2 d gels,fork direction gels,replication timing,density transfer,comparative hybridization,transient hemimethylation,transformation,frozen competent yeast,yacs for transformation,fluctuation analysis,resources,people

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Brewer/Raghuraman Lab Home Page | fangman-brewer-gbrowse.gs.washington.edu Reviews

https://fangman-brewer-gbrowse.gs.washington.edu

Smash-&-grab yeast DNA prep. NIB-n-grab yeast DNA prep for 2-D gels. Genomic yeast DNA for 2-D gels. Yeast DNA in agarose plugs. YACs for yeast transformation. L waltii genome browser. Welcome to the lab page of the Brewer/Raghuraman lab. We use genomic tools and the budding yeast. To investigate the regulation of eukaryotic chromosomal DNA replication- how cells choose which origins of replication to use, how they decide when in S phase to fire those origins, and how cells respond to replication stress.

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fangman-brewer-gbrowse.gs.washington.edu

1

2-D gels

http://fangman-brewer-gbrowse.gs.washington.edu/2Dgel.html

Smash-&-grab yeast DNA prep. NIB-n-grab yeast DNA prep for 2-D gels. Genomic yeast DNA for 2-D gels. Yeast DNA in agarose plugs. YACs for yeast transformation. L waltii genome browser. 2-D Agarose Gel Electrophoresis of DNA Replication Intermediates. Bonny Brewer's protocol; for an in-depth review of the method, see Friedman, K. and Brewer, B. 1995) Analysis of replication intermediates by two-dimensional agarose gel electrophoresis. Meth. Enzymol. 2001, Science 294; 115-121). Avoid using spermidine in r...

2

b-r lab template

http://fangman-brewer-gbrowse.gs.washington.edu/hemimethylation.html

Smash-&-grab yeast DNA prep. NIB-n-grab yeast DNA prep for 2-D gels. Genomic yeast DNA for 2-D gels. Yeast DNA in agarose plugs. YACs for yeast transformation. L waltii genome browser. Replication timing using transient hemimethylation. Kathy Friedman's protocol; see Friedman, K. L., M. K. Raghuraman, W. L. Fangman, and B. J. Brewer (1995). Analysis of the temporal program of replication initiation in yeast chromosomes. J. Cell Sci. Suppl. Rationale of methylation timing approach. Hold at 37 C for 120 mi...

3

Replication timing by density transfer

http://fangman-brewer-gbrowse.gs.washington.edu/density_transfer.html

Smash-&-grab yeast DNA prep. NIB-n-grab yeast DNA prep for 2-D gels. Genomic yeast DNA for 2-D gels. Yeast DNA in agarose plugs. YACs for yeast transformation. L waltii genome browser. Replication timing by density transfer. Raghu's protocol; also see van Brabant, A. V. and Raghuraman, M. K. 2002) Assaying replication fork direction and migration rates. 539-68. Based on the Meselson-Stahl experiment. Meselson, M., and Stahl, F.W. (1958) The replication of DNA in Escherichia coli. Transfer to 37 C, wait f...

4

Yeast genomic DNA prep for 2-D gels

http://fangman-brewer-gbrowse.gs.washington.edu/DNA_prep.html

Smash-&-grab yeast DNA prep. NIB-n-grab yeast DNA prep for 2-D gels. Genomic yeast DNA for 2-D gels. Yeast DNA in agarose plugs. YACs for yeast transformation. L waltii genome browser. Joel Huberman's DNA isolation procedure with modifications by Bonny Brewer. Wash cells in ice-cold water. Transfer cells to a conical-bottom 50 ml Falcon 2098 tube. (At this point you may freeze the cells as a "dry pellet at -20 C.). Resuspend the cells at 1.5 to 2 x 10. Cell equivalents/ml in 50 mM Tris, 50 mM EDTA, 100 m...

5

Untitled Document

http://fangman-brewer-gbrowse.gs.washington.edu/cgi-bin/gbrowse/Lwaltii

Recenter on this region. Dump selection as FASTA. Submit selection to UCSC BLAT. Submit selection to NCBI BLAST. The source named Lwaltii is invalid. S cerevisiae chromosomes I and II. For the source code for this browser, see the Generic Model Organism Database Project. For other questions, send mail to lstein@cshl.org. Id: yeast.conf,v 1.4.2.9 2009/05/12 02:21:50 scottcain Exp $. Note: This page uses cookies to save and restore preference information. No information is shared.

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fangman-brewer-gbrowse.gs.washington.edu

Brewer/Raghuraman Lab Home Page

Smash-&-grab yeast DNA prep. NIB-n-grab yeast DNA prep for 2-D gels. Genomic yeast DNA for 2-D gels. Yeast DNA in agarose plugs. YACs for yeast transformation. L waltii genome browser. Welcome to the lab page of the Brewer/Raghuraman lab. We use genomic tools and the budding yeast. To investigate the regulation of eukaryotic chromosomal DNA replication- how cells choose which origins of replication to use, how they decide when in S phase to fire those origins, and how cells respond to replication stress.

fangman-brewer.genetics.washington.edu

Brewer/Raghuraman Lab Home Page

Smash-&-grab yeast DNA prep. NIB-n-grab yeast DNA prep for 2-D gels. Genomic yeast DNA for 2-D gels. Yeast DNA in agarose plugs. YACs for yeast transformation. L waltii genome browser. Welcome to the lab page of the Brewer/Raghuraman lab. We use genomic tools and the budding yeast. To investigate the regulation of eukaryotic chromosomal DNA replication- how cells choose which origins of replication to use, how they decide when in S phase to fire those origins, and how cells respond to replication stress.

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