|
| Status |
Public on May 24, 2012 |
| Title |
ChIP-chip of K562 cells; array 2 of 4 |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
ChIP DNA from K562 cells
|
| Organism |
Homo sapiens |
| Characteristics |
antibody: HP1 gamma
antibody vendor: Millipore
antibody catalog number: 05-690
antibody lot numbers: 1501782 and 17908001
cell line: K562
|
| Treatment protocol |
None
|
| Growth protocol |
K562 cells were grown in Iscove’s Modified Dulbecco’s media, supplemented with 10% FBS and 1% pen-strep.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Chromatin were isolated from cells crosslinked with 1% formaldehyde and chromatin immunoprecipitation was performed using specific antibodies. Resulting ChIP DNA and input DNA were isolated and amplified following NimbleGen protocol.
|
| Label |
Cy5
|
| Label protocol |
NimbleGen protocol
|
| |
|
| Channel 2 |
| Source name |
Input DNA from K562 cells
|
| Organism |
Homo sapiens |
| Characteristics |
fraction: input
cell line: K562
|
| Treatment protocol |
None
|
| Growth protocol |
K562 cells were grown in Iscove’s Modified Dulbecco’s media, supplemented with 10% FBS and 1% pen-strep.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Chromatin were isolated from cells crosslinked with 1% formaldehyde and chromatin immunoprecipitation was performed using specific antibodies. Resulting ChIP DNA and input DNA were isolated and amplified following NimbleGen protocol.
|
| Label |
Cy3
|
| Label protocol |
NimbleGen protocol
|
| |
|
| |
| Hybridization protocol |
NimbleGen protocol
|
| Scan protocol |
NimbleGen protocol
|
| Description |
ChIP-chip mapping of HP1g locations in K562 cells
|
| Data processing |
Normalization was performed using Model-based Analysis of 2-Color Arrays (MA2C) software package using default parameters (Robust C=2)
|
| |
|
| Submission date |
Apr 05, 2011 |
| Last update date |
May 24, 2012 |
| Contact name |
Bing Ren |
| E-mail(s) |
biren@ucsd.edu
|
| Organization name |
University of California, San Diego
|
| Street address |
9500 Gilman Drive
|
| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
|
| Platform ID |
GPL7879 |
| Series (1) |
| GSE28115 |
CBX3 Regulates Efficient RNA Processing Genome Wide |
|
