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Series GSE60011 Query DataSets for GSE60011
Status Public on Nov 02, 2015
Title Genome-wide sequences bound by the transcription factors BLUEJAY and JACKDAW in Arabidopsis thaliana roots
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary We report the genomic sequences bound by the C2H2 transcription factors BLUEJAY and JACKDAW as profiled by chromating immunoprecipitation experiments followed by Illumina high sequencing. Plants were carrying constructs of proteins (translational) fusions of these transcription factors to the yellow fluorescent protein. Gene fusions were expressed under all their genomic regulatory regions using recombineering. The recombineering technique was used to recombine the fluorecent protein at the 3' end of their genomic regions in a JATY clone carrying these genes. Subsequently the JATY clones carrying these translational fusions were introgressed into plants. We performed ChIP on roots grown under standard conditions and fixed with formaldehyde in PBS-EDTA. Sequences bound by BLUEJAY and JACKDAW were immunoprecipitated with a-GFP AbCam290 at 4 °C overnight. Biological replicate samples were make into libraries of ~100 bp insert size and 50 bp of single ends sequenced through Illumina High Sequencing.
Overall design Two biological replicates of samples of plants expressing the C2H2 transcription factors fused to the yellow fluorescent protein; and of control wild type plants processed through the same protocol.
Contributor(s) Moreno-Risueno M, Benfey P
Citation(s) 26494755
Submission date Aug 01, 2014
Last update date May 15, 2019
Contact name Miguel Angel Moreno-Risueno
Organization name Center for Plant Biotechnology and Genomics
Department Biotechnology
Lab Specification of new stem cells
Street address C/M-40 s/n
City Pozuelo de Alarcon
State/province Madrid
ZIP/Postal code 28223
Country Spain
Platforms (1)
GPL13222 Illumina HiSeq 2000 (Arabidopsis thaliana)
Samples (5)
GSM1463808 At_BLJ_YFP_1
GSM1463810 At_BLJ_YFP_2
GSM1463812 At_JKD_YFP_1
BioProject PRJNA257274
SRA SRP045178

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Supplementary file Size Download File type/resource
GSE60011_At_BLJ_YFP_NormalizedData.bed.gz 623.4 Kb (ftp)(http) BED
GSE60011_At_JKD_YFP_NormalizedData.bed.gz 606.6 Kb (ftp)(http) BED
GSE60011_RAW.tar 10.0 Kb (http)(custom) TAR (of CSV)
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Raw data are available in SRA
Processed data are available on Series record

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