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Sample GSM2333581 Query DataSets for GSM2333581
Status Public on Mar 29, 2017
Title B1-FD-#3-1200cells
Sample type SRA
 
Source name food deprived_hypothalamus
Organism Mus musculus
Characteristics batch no.: Batch 1
strain background: B6D2F1 (C57BL6 female X DBA2 male)
mouse id: mouse 1
mouse status: food deprived
tissue: hypothalamus
Treatment protocol Mice were either fed normally or placed under food deprivation for 24 hours.
Growth protocol Mice were maintained following the guidelines of the Institutional Animal Care and Use Committee at Harvard Medical School.
Extracted molecule polyA RNA
Extraction protocol Hypothalamus was dissected and dissociated into single-cell suspension, followed by drop-seq library preparation.
Libraries were prepared following the protocol of drop-seq.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description Batch 1, mouse 1, food deprived
Data processing Reads were trimmed and aligned using the drop-seq data analysis package.
Raw count for each gene was converted to TPM (transcript per million).
Genome_build: mm9
Supplementary_files_format_and_content: The processed txt files are tab-delimited count data for each gene of each single cell.
1443737Cells.SVM.cluster.identity.renamed.csv: Comma-separated text file documents cluster identity for each single cell.
1443737Cells.Expresssion.Matrix.log_tpm+1_.renamed.RData: Single-cell gene expression matrix in Rdata format.
Merged_17samples_14437cells_count.txt: Drop-seq count for 14437 cells from 17 samples
 
Submission date Oct 02, 2016
Last update date May 15, 2019
Contact name Xiaoji Wu
E-mail(s) wuxiaoji1989@gmail.com
Organization name Boston Children's Hospital
Department PCMM
Lab Yi Zhang
Street address 149G Warren Alpert Building, 200 Longwood Avenue
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platform ID GPL17021
Series (1)
GSE87544 Single-cell RNA-seq reveals hypothalamic cell diversity
Relations
BioSample SAMN05858642
SRA SRX2207333

Supplementary file Size Download File type/resource
GSM2333581_B1-FD-_3-1200cells.dge.txt.gz 2.1 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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