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Series GSE154270 Query DataSets for GSE154270
Status Public on Dec 31, 2020
Title Methylation and gene expression data obtained from Dnmt3b+/- peripheral T-cell lymphomas.
Organism Mus musculus
Experiment type Methylation profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Summary Dnmt3b is a tumor suppressor in oncogene-driven lymphoid and myeloid malignancies in mice. However, it is poorly understood whether reduced Dnmt3b activities can initiate malignant hematopoiesis. We modulated Dnmt3b activity in vivo by generating Dnmt3b+/− mice expressing one wild-type allele. Here, we analyzed methylation and gene expression in Dnmt3b+/- peripheral T-cell lymphomas (PTCLs).
 
Overall design We performed WGBS and RNA-seq analysis on Dnmt3b+/- peripheral T-cell lymphoma samples isolated from lymph nodes of terminally sick mice. WGBS experiments were performed in biological duplicates, RNA-seq experiments in triplicates. In addition we performed WGBS of Dnmt3a -/- PTCL.
 
Contributor(s) Lopusna K, Nowialis P, Opavska J, Abraham A, Riva A, Haney SL, Opavsky R
Citation(s) 33450231
Submission date Jul 12, 2020
Last update date Mar 31, 2021
Contact name Rene Opavsky
E-mail(s) ropavsky@ufl.edu
Phone 3522948599
Organization name University of FLORIDA
Department Anatomy and cell biology
Street address 2033 Mowry rd, CGRC r..265
City Gainesville
State/province FL
ZIP/Postal code 32610
Country USA
 
Platforms (2)
GPL17021 Illumina HiSeq 2500 (Mus musculus)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (6)
GSM4668122 WGBS Dnmt3b+/- 1
GSM4668123 WGBS Dnmt3b+/- 2
GSM4668124 RNAseq Dnmt3b+/- 1
Relations
BioProject PRJNA645699
SRA SRP271469

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Supplementary file Size Download File type/resource
GSE154270_RAW.tar 267.2 Mb (http)(custom) TAR (of BIGWIG)
GSE154270_RNAseq_FPKM.txt.gz 1.8 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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