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Status |
Public on Apr 17, 2007 |
Title |
LIN54 S phase Replicate 1 |
Sample type |
genomic |
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Source name |
LIN54 ChIP from S-phase T98G cells
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Organism |
Homo sapiens |
Characteristics |
human glioblastoma cell line T98G CRL-1690
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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.
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Growth protocol |
Human T98G cells grown till 70% confluency in DMEM supplemeted with 10 % fetal calf serum
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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
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Label |
biotin
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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.
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Hybridization protocol |
Affymetrix fluidics protocol EukGE-WS2v4_450
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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.
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Description |
Chromatin from S-phase synchronized T98G cells immunoprecipitated with anti-LIN54 antibody, replicate 1 out of 3
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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).
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Submission date |
Apr 13, 2007 |
Last update date |
Mar 09, 2012 |
Contact name |
Xiaopeng Zhu |
E-mail(s) |
zhuxp@jimmy.harvard.edu
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Organization name |
Institute of Biophysics, Chinese Academy of Sciences
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Street address |
15 Datun Street
|
City |
Beijing |
ZIP/Postal code |
100101 |
Country |
China |
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Platform ID |
GPL5082 |
Series (1) |
GSE7516 |
ChIP-chip analysis of human DREAM complex subunits in G0-arrested and S-phase synchronized cells |
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