|
| Status |
Public on Aug 20, 2010 |
| Title |
Yeast-Ecoli control, Mnase |
| Sample type |
SRA |
| |
|
| Source name |
Yeast-Ecoli mixture
|
| Organisms |
Escherichia coli; Saccharomyces cerevisiae |
| Characteristics |
strain (yeast): BY4730 (MAT a, leu2∆0, met15∆0, ura3∆0)
strain (e. coli): JS5
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA from S.cerevisiae and E.coli was purified using Qiagen genomic tip 500/G, and mixed in a 3:1 mass ratio. The mixture was treated with MNase (USB) to yield a small average fragment size (< 300 bp), and DNA fragments of approximately 150 bp were purified by excision from an agarose gel.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina Genome Analyzer |
| |
|
| Data processing |
Mononucleosome size DNA fragments were sequenced using Illumina Genome Analyzer, and mapped to the S.cerevisiae genome (SGD April 2008 build) and to the E.coli K12 genome (U00096), allowing up to 2 mismatches per read.
Raw sequence read data are unavailable
|
| |
|
| Submission date |
Aug 19, 2010 |
| Last update date |
Jun 11, 2013 |
| Contact name |
George Locke |
| E-mail(s) |
glocke@physics.rutgers.edu
|
| Phone |
(732) 445-3156
|
| Fax |
(732) 445-5958
|
| URL |
http://nucleosome.rutgers.edu/
|
| Organization name |
Rutgers University
|
| Department |
Physics
|
| Street address |
136 Frelinghuysen Rd
|
| City |
Piscataway |
| State/province |
NJ |
| ZIP/Postal code |
08854 |
| Country |
USA |
| |
|
| Platform ID |
GPL10839 |
| Series (1) |
| GSE23712 |
High-throughput sequencing reveals a simple model of nucleosome energetics |
|
| Relations |
| BioSample |
SAMN02195988 |
