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Series GSE140787 Query DataSets for GSE140787
Status Public on Mar 30, 2020
Title Identification of a novel fungal PRC2 accessory subunit
Organism Neurospora crassa
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Here we utilize a forward genetics approach in Neurospora crassa to identify novel effectors of Polycomb repression. We recovered two mutant alleles of a gene (NCU04278), which we determined encodes a PRC2 accessory subunit (PAS). PAS is not essential for all H3K27 methylation, but rather its absence leads to losses of H3K27 methylation concentrated near chromosome ends.
 
Overall design ChIP-seq: We perform H3K27me2/3 ChIP-seq on biological replicates of ∆pas and ∆npf strains. We compared H3K27 methylation levels to previously published wild type data (Bicocca et al. 2018, GSE118495)
RNA-seq: We performed polyA-RNAseq on biological replicates of ∆pas and wild type strains and compared gene expression levels to previously published data sets from wild type and ∆set-7 strains (Klocko et al. 2016, GSE82222).
 
Contributor(s) McNaught KJ, Wiles ET, Selker EU
Citation(s) 32179551
NIH grant(s)
Grant ID Grant title Affiliation Name
R01 GM093061 Control and Function of Histone H3 Lysine 27 Methylation in Neurospora UNIVERSITY OF OREGON Eric U. SELKER
R35 GM127142 Control and function of heterochromatin in Neurospora crassa UNIVERSITY OF OREGON Eric U. SELKER
T32 HD007348 Developmental Biology Training Grant UNIVERSITY OF OREGON Chris Q Doe
Submission date Nov 21, 2019
Last update date Apr 02, 2020
Contact name Eric Selker
E-mail(s) selker@uoregon.edu
Organization name University of Oregon
Department Biology
Street address 1370 Franklin Blvd.
City Eugene
State/province Oregon
ZIP/Postal code 97403
Country USA
 
Platforms (1)
GPL23150 Illumina HiSeq 4000 (Neurospora crassa)
Samples (8)
GSM4185068 ∆pas N7999 H3K27me2/3 ChIP-seq
GSM4185069 ∆pas N8002 H3K27me2/3 ChIP-seq
GSM4185070 ∆npf N8003 H3K27me2/3 ChIP-seq
Relations
BioProject PRJNA590966
SRA SRP231155

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Supplementary file Size Download File type/resource
GSE140787_RAW.tar 27.1 Mb (http)(custom) TAR (of BIGWIG)
GSE140787_WT_set7_NCU04278_normalized_counts.txt.gz 368.8 Kb (ftp)(http) TXT
GSE140787_WT_vs_NCU04278.txt.gz 305.6 Kb (ftp)(http) TXT
GSE140787_WT_vs_set7.txt.gz 312.3 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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