W303

Sequence read coverage ratios for wild type sample
(T7107 strain). The cells were stained with DNA dye and sorted
based on DNA content into S or G2/M phase fractions. Extracted
DNA was sequenced and mapped to sacCer3 genome. Unique reads
for replicating (S) and non-replicating (G2/M) samples were
 calculated in 1 kb genomic bins. The ratio was created by
dividing 'score' values from replicating sample by non-
replicating sample 'score' values, adjusted by total number
of reads.

datasets

coverage

sortSeq

Create, Plot and Compare Replication Timing Profiles. The method is described in Muller et al., (2014) <doi: 10.1093/nar/gkt878>.

Dzmitry Batrakou

Repliscope

Replication Timing Profiling using DNA Copy Number

W303 function

data frame with 11350 rows and 7 variables:<dl>
	<dt>chrom</dt>
<dd>short chromosome name</dd>	<dt>chromStart</dt>
<dd>left chromosome coordinate</dd>	<dt>chromEnd</dt>
<dd>right chromosome coordinate</dd>	<dt>name.rep</dt>
<dd>replicating sample name</dd>	<dt>name.nonRep</dt>
<dd>non-replicating sample name</dd>	<dt>ratio</dt>
<dd>ratio value in the current bin</dd>	<dt>ratioFactor</dt>
<dd>adjustment factor used for the current ratio</dd>
</dl>

Format

Sequence read coverage ratios for wild type S.cerevisiae W303 — W303

data frame with 11350 rows and 7 variables:<dl>
	<dt>chrom</dt>
<dd>short chromosome name</dd>

	<dt>chromStart</dt>
<dd>left chromosome coordinate</dd>

	<dt>chromEnd</dt>
<dd>right chromosome coordinate</dd>

	<dt>name.rep</dt>
<dd>replicating sample name</dd>

	<dt>name.nonRep</dt>
<dd>non-replicating sample name</dd>

	<dt>ratio</dt>
<dd>ratio value in the current bin</dd>

	<dt>ratioFactor</dt>
<dd>adjustment factor used for the current ratio</dd>


</dl>

W303: Sequence read coverage ratios for wild type S.cerevisiae W303

Description

Usage

Arguments

Format

References

Examples