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Series GSE59598 Query DataSets for GSE59598
Status Public on Dec 30, 2016
Title mRNA expression in human DAOY cells
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary We generate ZNF423 knockdown and control DAOY cells with lentivirus that co-expressed the fluorescent protein mCherry. We performed whole genome RNA sequencing (RNA-seq) of three batched of cultured ZNF423 KD or control KD cells. The sequence reads were analyzed by Homer followed by edgeR. The analyzed RNA-seq results showed differential expression profile including 12 known cilia genes, and 3 of these were validated with qRT-PCR on mouse granule cell precursors. This study proved data how ZNF423 linked to cilia complexes.
Overall design RNA-seq in three batched of control and ZNF423 KD cells(generated by lentivirus delivered shRNA targeting ZNF423 sequence).
Contributor(s) Hamilton BA, Hong C
Citation(s) 27727273
Submission date Jul 18, 2014
Last update date May 15, 2019
Contact name Bruce Hamilton
Phone 8588222298
Organization name UC San Diego
Department Medicine
Street address 9500 Gilman Dr.
City La Jolla
State/province CA
ZIP/Postal code 92093
Country USA
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (6)
GSM1440296 control_exp1
GSM1440297 control_exp2
GSM1440298 control_exp3
BioProject PRJNA255674
SRA SRP044651

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Supplementary file Size Download File type/resource
GSE59598_RAW.tar 120.0 Mb (http)(custom) TAR (of BEDGRAPH)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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