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Series GSE81342 Query DataSets for GSE81342
Status Public on May 12, 2016
Title Dam(ID)-profiling in B cells
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by genome tiling array
Summary Both chromatin access, and binding of AID in B cells are of major scientific interest. Therefore DamID was setup in B cells. AID specific binding could not be identified.
In contrast to binding, DAM profiling provide a upmost useful tool in defining chromatin access in vivo.
Overall design Ramos B cells were transduced with Dam-only or with AID-Dam lentivirus. Within the cell, Dam methylates adenines near sites where the protein of interest would interacts (here AID) with the DNA. These methylated sequences are subsequently amplified by a methylation-specific PCR protocol as previsously described by Vogel et al (2007), and identified by hybridization to 2.1 Economy Whole Genome Nimblegen microarrays.
Contributor(s) Hogenbirk MA, Heideman MR, Brugman W, Jacobs H
Citation(s) 27303044
Submission date May 11, 2016
Last update date Jul 21, 2016
Contact name Marc Hogenbirk
Organization name Netherlands Cancer Institute
Street address Plesmanlaan
City Amsterdam
ZIP/Postal code 1066CX
Country Netherlands
Platforms (2)
GPL16052 NimbleGen Human ChIP-chip 2.1M Economy Whole-Genome Tiling - Array 1 of 4 [100718_HG18_Economy_01_HX1]
GPL16053 NimbleGen Human ChIP-chip 2.1M Economy Whole-Genome Tiling - Array 2 of 4 [100718_HG18_Economy_02_HX1]
Samples (4)
GSM2150820 DAM1_Cy3
GSM2150821 AIDDAM1_Cy5
GSM2150822 DAM2_CY5
BioProject PRJNA321322

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE81342_HG18_Economy_01_HX1_INT.txt.gz 29.6 Mb (ftp)(http) TXT
GSE81342_HG18_Economy_01_HX1_RAT.txt.gz 30.8 Mb (ftp)(http) TXT
GSE81342_HG18_Economy_02_HX1_INT.txt.gz 29.4 Mb (ftp)(http) TXT
GSE81342_HG18_Economy_02_HX1_RAT.txt.gz 30.6 Mb (ftp)(http) TXT
GSE81342_RAW.tar 2.4 Gb (http)(custom) TAR (of PAIR, TIFF)
Processed data are available on Series record

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