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Series GSE134706 Query DataSets for GSE134706
Status Public on Dec 12, 2019
Title Cross-species analysis across 450 million years of evolution reveals conservation and divergence of the microglia program (bulk RNA-seq)
Organisms Danio rerio; Gallus gallus; Callithrix jacchus; Macaca fascicularis; Homo sapiens; Ovis aries; Mesocricetus auratus; Mus musculus; Rattus norvegicus
Experiment type Expression profiling by high throughput sequencing
Summary Here we characterize microglia transcriptional program across ten species spanning more than 450 million years of evolution. We find that microglia express a conserved core gene program of orthologous genes from rodents to human, including ligands and receptors associated with interactions between glia and neurons. In most species, microglia show a single dominant transcriptional state, while humans express significant microglia heterogeneity. In addition, we observed notable differences in complement, phagocytic and several critical signaling pathways that are enriched with susceptibility genes to brain disorders, including Alzheimer’s and Parkinson’s disease in microglia of common animal models as compared to human. Our study provides an essential resource of conserved and divergent microglia pathways across evolution with important implications for future development of microglia-based therapies in humans.
Overall design Single cell and bulk RNA-seq of microglia from 10 different species and comparison of transcriptional landcape over species. Biological replicates of different species were n=3-6.
The raw data for human subjects will be submitted through EGA for controlled access.
Contributor(s) Geirsdottir L, Amit I, David E, Weiner A, Keren-Shaul H, Ulitsky I
Citation(s) 31835035
Submission date Jul 23, 2019
Last update date Mar 12, 2020
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 (9)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
GPL19057 Illumina NextSeq 500 (Mus musculus)
GPL19787 Illumina NextSeq 500 (Gallus gallus)
Samples (44)
GSM3963906 MP_10_hamster_2A.M
GSM3963907 MP_11_hamster_3A.M
GSM3963908 MP_12_hamster_5A.M
This SubSeries is part of SuperSeries:
GSE134707 Cross-species analysis across 450 million years of evolution reveals conservation and divergence of the microglia program
BioProject PRJNA556201
SRA SRP216247

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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
GSE134706_chicken_gal5_raw_.txt.gz 159.6 Kb (ftp)(http) TXT
GSE134706_hamster_ma1_raw_.txt.gz 150.8 Kb (ftp)(http) TXT
GSE134706_human_hg38_raw_.txt.gz 380.2 Kb (ftp)(http) TXT
GSE134706_macaca_rm8_raw_.txt.gz 178.9 Kb (ftp)(http) TXT
GSE134706_marmoset_cj3_raw_.txt.gz 173.0 Kb (ftp)(http) TXT
GSE134706_mouse_mm10_raw_.txt.gz 579.6 Kb (ftp)(http) TXT
GSE134706_rat_Rnor6_raw_.txt.gz 185.6 Kb (ftp)(http) TXT
GSE134706_sheep_oa3_raw_.txt.gz 160.4 Kb (ftp)(http) TXT
GSE134706_zebrafish_dr10_raw_.txt.gz 214.2 Kb (ftp)(http) TXT
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Processed data are available on Series record

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