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Series GSE249772 Query DataSets for GSE249772
Status Public on Feb 27, 2024
Title TET1 catalytic activity is required for reprogrammign of imprinting control regions and the patterning of sperm-specific hypomethylated regions [RNA-Seq]
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary DNA methylation erasure is required for mammalian primordial germ cell reprogramming. TET enzymes iteratively oxidize 5-methylcytosine to generate 5-hyroxymethylcytosine (5hmC), 5-formylcytosine, and 5-carboxycytosine to facilitate active genome demethylation. Whether these bases are required to promote replication-coupled dilution or activate base excision repair during germline reprogramming remains unresolved due to the lack of genetic models that decouple TET1 activities. Here, we generated two mouse lines expressing catalytically inactive TET1 (Tet1-HxD) and TET1 that stalls at 5hmC (Tet1-V). This experiment was done to conduct genome wide DNA methylation profiling of catalytically inactive Tet1HxD/HxD sperm, 5hmC stalling Tet1V/V sperm, KO Tet1-/- sperm, and WT sperm. Sperm samples were collected from adult males (>10 week).
 
Overall design RNAseq from E14.5 Male PGCs that was sorted using Oct4-GFP reporter
 
Contributor(s) Prasasya RD, Caldwell BA, Liu Z, Wu S, Cincotta SA, Fowler J, Laird DJ, Kohli RM, Bartolomei MS
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Submission date Dec 08, 2023
Last update date Feb 27, 2024
Contact name Rexxi Diptya Prasasya
E-mail(s) rexxi.prasasya@pennmedicine.upenn.edu
Organization name University of Pennsylvania
Department Cell and Developmental Biology
Lab Bartolomei Lab
Street address 3400 Civic Center Blvd
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platforms (1)
GPL32159 NextSeq 1000 (Mus musculus)
Samples (13)
GSM7963966 E14.5 Male PGC RNAseq Tet1-HxD1
GSM7963967 E14.5 Male PGC RNAseq Tet1-HxD2
GSM7963968 E14.5 Male PGC RNAseq Tet1-HxD3
This SubSeries is part of SuperSeries:
GSE224459 TET1 catalytic activity is required for reprogrammign of imprinting control regions and the patterning of sperm-specific hypomethylated regions
Relations
BioProject PRJNA1050309

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Supplementary file Size Download File type/resource
GSE249772_count_table.txt.gz 534.8 Kb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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