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Series GSE52523 Query DataSets for GSE52523
Status Public on Feb 17, 2015
Title Large-scale characterization of DNA binding landscape of eukaryotic C2H2 zinc fingers
Organism synthetic construct
Experiment type Other
Genome binding/occupancy profiling by high throughput sequencing
Summary This SuperSeries is composed of the SubSeries listed below.

Cys2-His2 zinc finger (C2H2-ZF) proteins represent the largest class of putative human transcription factors (TFs). However, it is unknown whether most C2H2-ZFs even bind DNA, or what sequences they bind. Using a combination of bacterial one-hybrid (B1H) assays, protein-binding microarrays (PBMs), and ChIP-seq, we have found that most natural C2H2-ZFs bind DNA both in vitro and in vivo. This SuperSeries contains the data for identification of C2H2-ZF binding preferences using these three approaches.
 
Overall design Refer to individual Series
Web link http://hugheslab.ccbr.utoronto.ca/supplementary-data/C2H2_B1H/
 
Contributor(s) Najafabadi HS, Mnaimneh S, Schmitges FW, Yang A, Radovani E, Albu M, Greenblatt J, Hughes TR
Citation(s) 25690854
Submission date Nov 19, 2013
Last update date May 15, 2019
Contact name Hamed S Najafabadi
Organization name McGill University
Department Human Genetics
Lab Computational and Statistical Genomics Lab
Street address 740 Dr. Penfield Avenue, Room 7202
City Montreal
State/province QC
ZIP/Postal code H3A 0G1
Country Canada
 
Platforms (2)
GPL11260 Agilent custom ME and HK design array [8mer]
GPL15228 Illumina HiSeq 2000 (synthetic construct)
Samples (734)
GSM1268432 Original B1H library, batch A
GSM1268433 Original B1H library, batch B
GSM1268434 Original B1H library, batch C
This SuperSeries is composed of the following SubSeries:
GSE52520 Evaluation of DNA-binding preferences of C2H2 zinc finger domains by PBM
GSE52521 Highly parallel identification of sequence preferences for eukaryotic C2H2 zinc finger domains using a bacterial 1-hybrid assay
GSE58341 Identification of in vivo binding sites of human C2H2-ZF proteins
Relations
BioProject PRJNA229155

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
GSE52523_RAW.tar 409.0 Mb (http)(custom) TAR (of BED, TXT)
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