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GEO accession:
Series GSE231406
Query DataSets for GSE231406
Status
Public on Jun 01, 2023
Title
IRF8 configures enhancer landscape in postnatal microglia and directs microglia specific transcriptional programs
Organism
Mus musculus
Experiment type
Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
Summary
This SuperSeries is composed of the SubSeries listed below.
Overall design
Refer to individual Series
Web link
https://www.biorxiv.org/content/10.1101/2023.06.25.546453v2
Citation(s)
37645844
Submission date
May 01, 2023
Last update date
Aug 31, 2023
Contact name
Keita Saeki
E-mail(s)
keita.saeki@nih.gov
Organization name
NIH/NICHD
Street address
6 Center Drive
City
Bethesda
State/province
Maryland
ZIP/Postal code
20892
Country
USA
Platforms (3)
GPL13112
Illumina HiSeq 2000 (Mus musculus)
GPL19057
Illumina NextSeq 500 (Mus musculus)
GPL21493
Illumina HiSeq 3000 (Mus musculus)
Samples (72)
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GSM7273479
WT microglia - ATAC_rep1
GSM7273480
WT microglia - ATAC_rep2
GSM7273481
IRF8KO microglia - ATAC_rep1
GSM7273482
IRF8KO microglia - ATAC_rep2
GSM7273486
P9 microglia - IRF8_rep1
GSM7273487
P9 microglia - IRF8_rep2
GSM7273488
P9 microglia - IRF8_rep3
GSM7273489
P9 microglia - IRF8_rep4
GSM7273490
P9 microglia - IgG control
GSM7273491
P14 microglia - IRF8_rep1
GSM7273492
P14 microglia - IRF8_rep2
GSM7273493
P14 microglia - IRF8_rep3
GSM7273494
P14 microglia - IgG control
GSM7273496
Adult microglia - IRF8_rep1_batch1
GSM7273497
Adult microglia - IRF8_rep2_batch1
GSM7273498
Adult microglia - IRF8_rep3_batch2
GSM7273499
peritoneal macrophages - IRF8_rep1_batch1
GSM7273500
peritoneal macrophages - IRF8_rep2_batch1
GSM7273501
peritoneal macrophages - IRF8_rep3_batch2
GSM7273502
peritoneal macrophages - IgG control
GSM7273503
Adult microglia - WT_H3K4me1_rep1
GSM7273504
Adult microglia - WT_H3K4me1_rep2
GSM7273506
Adult microglia - WT_H3K27ac_rep1
GSM7273507
Adult microglia - WT_H3K27ac_rep2
GSM7273508
Adult microglia - IRF8KO_H3K4me1_rep1
GSM7273509
Adult microglia - IRF8KO_H3K4me1_rep2
GSM7273510
Adult microglia - IRF8KO_H3K27ac_rep1
GSM7273511
Adult microglia - IRF8KO_H3K27ac_rep2
GSM7273512
Adult microglia - WT_PU1_rep1
GSM7273513
Adult microglia - WT_PU1_rep2
GSM7273514
Adult microglia - IRF8KO_PU1_rep1
GSM7273515
Adult microglia - IRF8KO_PU1_rep2
GSM7273517
Adult microglia - IgG control
GSM7273519
WT_3m_rep1_control_for_IRF8KO [RNA-seq]
GSM7273521
WT_3m_rep2_control_for_IRF8KO [RNA-seq]
GSM7273522
WT_3m_rep3_control_for_IRF8KO [RNA-seq]
GSM7273523
WT_3m_rep4_control_for_IRF8KO [RNA-seq]
GSM7273524
IRF8KO_3m_rep1 [RNA-seq]
GSM7273525
IRF8KO_3m_rep2 [RNA-seq]
GSM7273526
IRF8KO_3m_rep3 [RNA-seq]
GSM7273527
IRF8KO_3m_rep4 [RNA-seq]
GSM7273528
WT_9m_rep1 [RNA-seq]
GSM7273529
WT_9m_rep2 [RNA-seq]
GSM7273531
WT_9m_rep3 [RNA-seq]
GSM7273532
IRF8KO_9m_rep1 [RNA-seq]
GSM7273533
IRF8KO_9m_rep2 [RNA-seq]
GSM7273534
IRF8KO_9m_rep3 [RNA-seq]
GSM7273535
5xFAD_9m_rep1 [RNA-seq]
GSM7273536
5xFAD_9m_rep2 [RNA-seq]
GSM7273537
5xFAD_9m_rep3 [RNA-seq]
GSM7273538
5xFAD/IRF8KO_9m_rep1 [RNA-seq]
GSM7273539
5xFAD/IRF8KO_9m_rep2 [RNA-seq]
GSM7273541
5xFAD/IRF8KO_9m_rep3 [RNA-seq]
GSM7273542
WT_3m_rep1_control_for_Batf3KO [RNA-seq]
GSM7273543
WT_3m_rep2_control_for_Batf3KO [RNA-seq]
GSM7273544
WT_3m_rep3_control_for_Batf3KO [RNA-seq]
GSM7273545
Batf3KO_3m_rep1 [RNA-seq]
GSM7273546
Batf3KO_3m_rep2 [RNA-seq]
GSM7273547
Batf3KO_3m_rep3 [RNA-seq]
GSM7273548
IRF8cKO_WT_3m_rep1 [RNA-seq]
GSM7273549
IRF8cKO_WT_3m_rep2 [RNA-seq]
GSM7273550
IRF8cKO_WT_3m_rep3 [RNA-seq]
GSM7273552
IRF8cKO_Cre_3m_rep1 [RNA-seq]
GSM7273553
IRF8cKO_Cre_3m_rep2 [RNA-seq]
GSM7273554
IRF8cKO_Cre_3m_rep3 [RNA-seq]
GSM7273555
IRF8cKO_Cre_3m_rep4 [RNA-seq]
GSM7273559
WT microglia - mCpG_rep1
GSM7273560
WT microglia - mCpG_rep2
GSM7273561
IRF8KO microglia - mCpG_rep1
GSM7273562
IRF8KO microglia - mCpG_rep2
GSM7273565
WT_3m_female [scRNA-seq]
GSM7273566
IRF8KO_3m_female [scRNA-seq]
This SuperSeries is composed of the following SubSeries:
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GSE231401
Genome-wide open chromatin status in WT and IRF8KO microglia [ATAC-seq]
GSE231402
Genome-wide profiles of IRF8 and PU.1 bindings, and H3K4me1 and H3K27ac histone marks in wild-type and IRF8-knockout microglia [CHIP-seq]
GSE231403
Transcriptome profiles of wild-type, IRF8KO, IRF8cKO, Batf3KO, 5xFAD, and 5xFAD/IRF8KO microglia [RNA-seq]
GSE231404
Genome-wide methylated CpG status in WT and IRF8KO microglia [WGBS]
GSE231405
Single-cell transcriptome profiles of wild-type and IRF8KO microglia [scRNA-seq]
Relations
BioProject
PRJNA964768
Download family
Format
SOFT formatted family file(s)
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Series Matrix File(s)
TXT
Supplementary file
Size
Download
File type/resource
GSE231406_RAW.tar
985.6 Mb
(http)
(custom)
TAR (of COV, MTX, TAB, TSV, TXT)
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