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Series GSE63340 Query DataSets for GSE63340
Status Public on Dec 05, 2014
Title Tissue-resident macrophage enhancer landscapes are shaped by the local microenvironment [RNA-seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Macrophages are hematopoietic cells critical for innate immune defense, but also control organ homeostasis in a tissue-specific manner. Tissue-resident macrophages, therefore, provide a well-defined model to study the impact of ontogeny and microenvironment on chromatin state. Here, we profile the dynamics of four histone modifications across seven tissue-resident macrophage populations, as well as monocytes and neutrophils. We identify 12,743 macrophage-specific enhancers and establish that tissue-resident macrophages have distinct enhancer landscapes. Our work suggests that a combination of tissue and lineage-specific transcription factors form the regulatory networks controlling chromatin specification in tissue-resident macrophages. The environment has the capacity to alter the chromatin landscape of macrophages derived from transplanted adult bone marrow in vivo and even differentiated macrophages are reprogramed when transferred into a new tissue. Altogether, these data provide a comprehensive view of macrophage regulation and highlight the importance of microenvironment along with pioneer factors in orchestrating macrophage identity and plasticity.
Overall design 7 tissue-resident macrophage populations were isolated, as well as monocytes and neutrophils, and transcriptome analysis was performed. Experiment was done in duplicates.
Citation(s) 25480296
Submission date Nov 17, 2014
Last update date May 15, 2019
Contact name Ido Amit
Phone 972-8-9343338
Organization name Weizmann Institute of Science
Department Immunology
Street address 234 Herzl st.
City Rehovot
ZIP/Postal code 760001
Country Israel
Platforms (1)
GPL18480 Illumina HiSeq 1500 (Mus musculus)
Samples (18)
GSM1546031 b05_Neutrophil1_Exp2
GSM1546032 b07_Neutrophil3_Exp2
GSM1546033 b10_Monocyte1_Exp2
This SubSeries is part of SuperSeries:
GSE63341 Tissue-resident macrophage enhancer landscapes are shaped by the local microenvironment
BioProject PRJNA267539
SRA SRP049942

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE63340_OUT_merged4.norm.xlsx 4.3 Mb (ftp)(http) XLSX
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Processed data are available on Series record

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