|
| Status |
Public on Apr 17, 2007 |
| Title |
Genome Input S phase Replicate 3 |
| Sample type |
genomic |
| |
|
| Source name |
Input chromatin from S-phase T98G cells
|
| Organism |
Homo sapiens |
| Characteristics |
human glioblastoma cell line T98G CRL-1690
|
| Treatment protocol |
Cells were incubated in serum-free medium for 3 days to induce G0 arrest, then serum was added for 24 h to induce S-phase.
|
| Growth protocol |
Human T98G cells grown till 70% confluency in DMEM supplemeted with 10 % fetal calf serum
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Chromatin was prepared from formalin-fixated cells exactly as described in Rayman, Takahashi et al. (2002) Genes Dev 16, 933-947
|
| Label |
biotin
|
| Label protocol |
The chromatin immunprecipitated DNA (ChIP) or 2 ng of whole genomic DNA (Input) were amplified by ligation-mediated PCR, digested with Dnase I to give fragments of ~50 bp.
The DNA fragments were end-labelled with biotin in a TdT-catalyzed reaction.
|
| |
|
| Hybridization protocol |
Affymetrix fluidics protocol EukGE-WS2v4_450
|
| Scan protocol |
Scanning was carried out on an Affymetrix scanner GCS3000. The scan protocol was contained in a .cif file for chip type Hs_PromPR_v02.
|
| Description |
Input chromatin from S-phase T98G cells, replicate 3 out of 3
|
| Data processing |
Affymetrix GCOS processed image files to generate .CEL files.
MAT (Model-based Analysis for Tiling Arrays) analysis algorithm used to detect regions enriched by chromatin immunoprecipitation (ChIP) on Affymetrix Human Promoter Array 1.0R (ChIP-chip).
|
| |
|
| Submission date |
Apr 13, 2007 |
| Last update date |
Mar 09, 2012 |
| Contact name |
Xiaopeng Zhu |
| E-mail(s) |
[email protected]
|
| Organization name |
Institute of Biophysics, Chinese Academy of Sciences
|
| Street address |
15 Datun Street
|
| City |
Beijing |
| ZIP/Postal code |
100101 |
| Country |
China |
| |
|
| Platform ID |
GPL5082 |
| Series (1) |
| GSE7516 |
ChIP-chip analysis of human DREAM complex subunits in G0-arrested and S-phase synchronized cells |
|
