|
| Status |
Public on Mar 01, 2007 |
| Title |
H3K4me3 GM06990 ENCODE NimbleGen hg17 tiling array replicate 1 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
Chromatin immunoprecipitated DNA from GM06990 cells using H3K4me3 antibody
|
| Organism |
Homo sapiens |
| Characteristics |
cells: GM06990 immunoprecipitated chromatin
|
| Biomaterial provider |
Coriell Cell Repositories http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM06990
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
immunoprecipitated chromatin
|
| Label |
Cy5
|
| Label protocol |
Cy5
|
| |
|
| Channel 2 |
| Source name |
Input Chromatin GM06990 cells.
|
| Organism |
Homo sapiens |
| Characteristics |
cells: GM06990 input chromatin
|
| Biomaterial provider |
Coriell Cell Repositories http://ccr.coriell.org/Sections/Search/Search.aspx?PgId=165&q=GM06990
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
input chromatin
|
| Label |
Cy3
|
| Label protocol |
Cy3
|
| |
|
| |
| Hybridization protocol |
NimbleGen hybridization protocol
|
| Scan protocol |
NimbleGen scan protocol
|
| Description |
Chromatin immunoprecipitation was performed using antibodies against H3K4me3 and formaldehyde crosslinked chromatin from GM06990 cells. The immunoprecipitated DNA was amplified, fluorescently labeled and hybridized to a 391K element tiling array based on NCBI35 build of the human genome (hg17) that contains overlapping 50-mer oligonucleotides, positioned at every 38 basepairs (bp) throughout the ENCODE regions.
|
| Data processing |
raw data
|
| |
|
| Submission date |
Feb 24, 2007 |
| Last update date |
Aug 28, 2007 |
| Contact name |
Bing Ren |
| E-mail(s) |
biren@ucsd.edu
|
| Organization name |
Ludwig Institute for Cancer Research
|
| Department |
Department of Cellular and Molecular Medicine
|
| Lab |
Laboratory of Gene Regulation
|
| Street address |
9500 Gilman Drive
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093-0653 |
| Country |
USA |
| |
|
| Platform ID |
GPL4559 |
| Series (1) |
| GSE7118 |
Ludwig Institute/UCSD ENCODE project March 2007 Release |
|
