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| Status |
Public on Mar 28, 2014 |
| Title |
naïve lung basophils #1 |
| Sample type |
SRA |
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| Source name |
Lung basophils
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| Organism |
Mus musculus |
| Characteristics |
strain: C57BL6/J
tissue: Lung
treatment: none
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| Treatment protocol |
Mice were intranasally administrated with papain (50ug/mouse) for consective three days.
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| Growth protocol |
We sorted FceR1+,CD49b+,c-kit- cells as basophils,Lineage-,Thy1.2+,IL7Ra+,CD25+ cells as natural helper cells and SiglecF+,CD11c(+/-),Gr1lo,autofluorescence- cells as eosinophils from the lung by BD FACS AriaⅡ
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| Extracted molecule |
polyA RNA |
| Extraction protocol |
mRNA was isolated with TRIzol and NEBNext Poly(A) mRNA Magnetic Isolation Module (NEB Biolabs, Inc. Ipswich, MA,USA) .
10ng of isolated RNA were used for production of the RNA-Seq cDNA library with NEBNext Ultra RNA Library Prep Kit for Illumina (NEB Biolabs, Inc.) according to the manufacturer's protocol that included cDNA synthesis and fragmentation, the addition of adaptors, size selection, amplification and quality control.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
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| Data processing |
Read mapping,Bowtie0.12.7,Tophat v1.4.0
Estimate the transcript abundances,Cufflinks v1.3.0
Genome_build: NCBI Build 37(UCSC mm9)
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| Submission date |
Mar 27, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Yasutaka Motomura |
| E-mail(s) |
m.yasutaka@rcai.riken.jp
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| Organization name |
RIKEN
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| Department |
IMS
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| Lab |
Immune Cell System
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| Street address |
1-7-22 Suehiro, Tsurumi
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| City |
Yokohama |
| State/province |
Kanagawa |
| ZIP/Postal code |
230-0045 |
| Country |
Japan |
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| Platform ID |
GPL18480 |
| Series (1) |
| GSE56292 |
Expression profiling by high throughput sequencing |
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| Relations |
| Reanalyzed by |
GSE80797 |
| BioSample |
SAMN02709619 |
| SRA |
SRX502137 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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