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Sample GSM2443926 Query DataSets for GSM2443926
Status Public on Feb 07, 2018
Title Mature lineage cells 9
Sample type SRA
 
Source name Myeloid cells
Organism Mus musculus
Characteristics strain: C57BL/6
tissue: Bone marrow
Treatment protocol Target cells were sorted from the bone marrow or the thymus of recipients.
Growth protocol All mice in this study were kept in C57BL/6J backgroud. Pro-/pre B cells were sorted from bone marrow, and then infected with Hoxb5 virus in vitro. After the infection, Hoxb5 transduced Pro-/pre-B cells were sorted and transplanted into sublethal irradiation recipients.
Extracted molecule polyA RNA
Extraction protocol The procedure of RNA extraction and reverse transcription into double-stranded DNA is based on published methods(PMID:20203668).
Libraries were prepared according to Illumina's instructions accompanying the illumina Nextera XT DNA Sample Preparation Kit (FC-131-1096).
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description Mature lineage cells 9
Data processing Bcl2fastq convert .bcl files into fastq files
Fastq files were aligned to NCBIM37 genome.*.bt2 files to generate accepted_hits.bam file by tophat, and the used cuffquant scripts (cufflinks-2.2.1) to calculated genes expression level.
Gene expression levels of different samples were normalized by cuffnorm scripts (cufflinks-2.2.1), and finally generated genes.fpkm_table
Genome_build: NCBIM37
Supplementary_files_format_and_content: fpkm_table was generated by cuffnorm
 
Submission date Jan 04, 2017
Last update date May 15, 2019
Contact name Yong Dong
E-mail(s) dongyong@cmc.edu.cn
Organization name Chengdu medical college
Department Immunology
Street address Xindu road 783, Xindu district
City chengdu
State/province sichuan
ZIP/Postal code 610500
Country China
 
Platform ID GPL19057
Series (2)
GSE93107 Transcription factor Hoxb5 reprograms B cells into functional T lymphocytes [RNA-Seq]
GSE105057 Transcription factor Hoxb5 reprograms B cells into functional T lymphocytes
Relations
BioSample SAMN06200107
SRA SRX2459924

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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