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Series GSE181065 Query DataSets for GSE181065
Status Public on Dec 30, 2022
Title Genome wide mapping of Nr1d1 (Reverb α) binding sites in Th1 (T-helper type 1) cells
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary The goal of this study was to identify all the sites to which our nuclear receptor Nr1d1 binds to and how this interaction with these various genes is influencing the programming of Th1 cells. Naive T-cells were isolated from C57BL/6 mice and programmed into Th1 cells. The cells were harvested after 3-4 days and to characterize the regions bound by Nr1d1, genome wide ChIP-sequencing using an Nr1d1 antibody was carried out. Short reads from IgG were used as a control for peak detection.
 
Overall design Examination of Nr1d1 binding sites in genome of programmed Th1 cells.
 
Contributor(s) Gupta P, Tiwari D
Citation(s) 35596832
Submission date Jul 28, 2021
Last update date Dec 31, 2022
Contact name Pawan Gupta
E-mail(s) pawan@imtech.res.in
Organization name CSIR-Institute of Microbial Technology
Street address Department of Cell Biology and Molecular Immunology, CSIR-Institute of Microbial Technology, Sector-39A
City Chandigarh
State/province Chandigarh
ZIP/Postal code 160036
Country India
 
Platforms (1)
GPL21273 HiSeq X Ten (Mus musculus)
Samples (5)
GSM5484122 Reverb_a
GSM5484123 Reverb_b
GSM5484124 Reverb_c
Relations
BioProject PRJNA750494
SRA SRP330310

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
GSE181065_Chip_Pull_Down_Vs_Input_filtered.bed.gz 200.8 Kb (ftp)(http) BED
GSE181065_Chip_Pull_Down_Vs_Input_meme_output.zip 32.2 Mb (ftp)(http) ZIP
GSE181065_Chip_Pull_Down_Vs_Input_peak.cod.gz 840.2 Kb (ftp)(http) COD
GSE181065_Chip_Pull_Down_Vs_Input_peak.fa.gz 1.7 Mb (ftp)(http) FA
GSE181065_IgG_Mock_Vs_Input_filtered.bed.gz 166.9 Kb (ftp)(http) BED
GSE181065_IgG_Mock_Vs_Input_peak.cod.gz 751.7 Kb (ftp)(http) COD
GSE181065_IgG_Mock_Vs_Input_peak.fa.gz 1.5 Mb (ftp)(http) FA
GSE181065_IgG_Mock_Vs_Input_peak_meme_output.zip 18.3 Mb (ftp)(http) ZIP
GSE181065_No_overlap_peaks_meme_output.zip 21.8 Mb (ftp)(http) ZIP
GSE181065_filtered_no_overlap_peaks.fa.gz 1.2 Mb (ftp)(http) FA
GSE181065_homer_Chip_Pull_Down_Vs_Input_peak_annotation.tsv.gz 552.4 Kb (ftp)(http) TSV
GSE181065_homer_IgG_Mock_Vs_Input_peak_annotation.tsv.gz 480.9 Kb (ftp)(http) TSV
GSE181065_homer_filtered_peaks_annotation_1_.tsv.gz 407.7 Kb (ftp)(http) TSV
GSE181065_no_overlap.bed.gz 150.1 Kb (ftp)(http) BED
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Processed data are available on Series record

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