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Sample GSM2373901 Query DataSets for GSM2373901
Status Public on Mar 09, 2018
Title JNK_KO_0D_3
Sample type SRA
 
Source name JNK-/-_0 day_mammary gland
Organism Mus musculus
Characteristics strain: C57BL/6
time of involution: 0 days
genotype/variation: JNK-/-
tissue: mammary gland
Treatment protocol NA
Growth protocol NA
Extracted molecule total RNA
Extraction protocol Pieces of mammary glands were flash frozen in liquid nitrogen and RNA was extracted using the RNEasy kit from Qiagen (#74106).
Illumina Neoprep kit
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Data processing Bowtie2 (v 2-2.1.0) and Tophat2 (v 2.0.14) were used for alignment
Cufflinks(v2.2.1) was used to determine fpkms and cuffmerge and cuffdiff were used to identify differentially expressed genes
Genome_build: Ensembl GRCm38
Supplementary_files_format_and_content: tab-delimited txt file includes FPKM values for all samples
 
Submission date Nov 03, 2016
Last update date May 15, 2019
Contact name Dr Yvonne Edwards, PhD
Organization name University of Massachusetts Medical School
Department Program in Molecular Medicine
Lab Bioinformatics Core
Street address 373 Plantation Street
City Worcester
State/province MA
ZIP/Postal code 01605
Country USA
 
Platform ID GPL19057
Series (1)
GSE89495 Efficient Mammary Gland Involution Requires c-Jun N-terminal kinase
Relations
BioSample SAMN05977145
SRA SRX2323995

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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