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Series GSE132363 Query DataSets for GSE132363
Status Public on Jun 04, 2020
Title Gene expression profiling of human DLD-1 cells after instant depletion of basket nucleoporins
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary We used RNA-seq approach to distinguish roles of basket nucleoporins Nup153, Nup50, and Tpr in transcription and nucleocytoplasmic trafficking. AID-mediated depletion of BSK-NUPs caused rapid and drastic changes in transcriptomic profiles within two hours of auxin addition. Changes upon Tpr nucleoporin loss were distinct from Nup153 and Nup50, but similar to changes upon loss of export factor NXF1 and GANP subunit of the TREX-2 mRNA export complex. Altogether, we demonstrated a unique role of Tpr nucleoporin in regulating genes expression through mRNA export.
 
Overall design We performed RNA-Seq analyses on human DLD-1 cells that we specifically depleted of the basket nucleoporins using Auxin-Inducible Degron system.
 
Contributor(s) Lee H, Aksenova V, Iben J, Chen S, Echeverria C, Arnaoutov A, Dasso M
Citation(s) 32917881
Submission date Jun 07, 2019
Last update date Sep 16, 2020
Contact name Alexei Arnaoutov
E-mail(s) arnaouta@mail.nih.gov
Organization name NICHD
Department PCRM
Street address 49 Convent Dr, Bldg 49 Room 5A10
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platforms (1)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
Samples (66)
GSM3860861 DLD-1 cells transfected with AID-FLAG-NXF1 and treated with Auxin for 2hr replicate1
GSM3860862 DLD-1 cells transfected with AID-FLAG-NXF1 and treated with Auxin for 2hr replicate2
GSM3860863 DLD-1 cells transfected with AID-FLAG-NXF1 and treated with Auxin for 2hr replicate3
Relations
BioProject PRJNA547746
SRA SRP200762

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Supplementary file Size Download File type/resource
GSE132363_RAW.tar 13.1 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
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