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Series GSE130383 Query DataSets for GSE130383
Status Public on Jan 26, 2021
Title The corepressors GPS2 and SMRT control enhancer and silencer function linked to eRNA transcription during inflammatory activation of macrophages
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Other
Expression profiling by high throughput sequencing
Summary Study the inflammation-associated Ccl2 functional enhancer and its related enhancer RNA in mice macrophages
 
Overall design Transcriptome, DNA structure, cristome changes of GPS2 marked enhancer to the target gene expression. Gro-seq is designed to mark the transcribed enhancer regions; ChIP-seq is designed to mark the TF bindings; RNA-seq is designed to evaluate gene expression and 4C-seq is designed to visualize the DNA structure dynamic changes.
 
Contributor(s) Huang Z, Fan R, Treuter E
Citation(s) 33503407, 35496794, 36610795
Submission date Apr 26, 2019
Last update date Mar 09, 2023
Contact name Zhiqiang Huang
E-mail(s) zhiqiang.huang@ki.se, zhiqiang.huang@nju.edu.cn
Organization name Nanjing University
Department Medical School
Street address Hankou 22
City Nanjing
State/province Jiangsu
ZIP/Postal code 210093
Country China
 
Platforms (2)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
GPL21626 NextSeq 550 (Mus musculus)
Samples (247)
GSM4848480 RUNX1_CRISPR_WT_LPS_2_hour
GSM4848481 RUNX1_CRISPR_S_KO_LPS_2_hour
GSM4848482 RUNX1_CRISPR_E_KO_LPS_2_hour
Relations
BioProject PRJNA539984
SRA SRP194004

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
GSE130383_4C_seq_PCR.xlsx 13.3 Kb (ftp)(http) XLSX
GSE130383_GPS2_KO_LPS_GROseq_Diff_expression.xlsx 4.3 Mb (ftp)(http) XLSX
GSE130383_GPS2_KO_LPS_GROseq_Diff_expression_1.xlsx 7.3 Mb (ftp)(http) XLSX
GSE130383_RAW.tar 17.3 Gb (http)(custom) TAR (of BEDGRAPH)
GSE130383_RAW_GPS2KO_LPS_diffExp.output.txt.gz 2.3 Mb (ftp)(http) TXT
GSE130383_diffOutput_merged_GPS2_KO_MACS2_peak.txt.gz 12.2 Mb (ftp)(http) TXT
GSE130383_diffanno_merged_RAW_GPS2_KO_LPS_MED1_ChIPseq_raw_counts.txt.gz 3.2 Mb (ftp)(http) TXT
GSE130383_diffanno_merged_RAW_GPS2_KO_LPS_PU1_ChIPseq_raw_counts.txt.gz 6.9 Mb (ftp)(http) TXT
GSE130383_diffanno_merged_RAW_GPS2_KO_LPS_Pol2_ChIPseq_raw_counts.txt.gz 3.5 Mb (ftp)(http) TXT
GSE130383_diffanno_merged_RAW_LPS_JUNB_GPS2KO_ChIPseq_raw_counts.txt.gz 10.0 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record
Processed data provided as supplementary file

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