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Sample GSM395598

Query DataSets for GSM395598

Status

Public on May 23, 2013

Title

HB1.F3

Sample type

SRA

Source name

neural stem cell

Organism

Homo sapiens

Characteristics

cell line: HB1.F3
cell type: neural stem cell

Growth protocol

HB1.F3 and F3.Olig2 cells were maintained in Dulbecco’s modified Eagles medium supplemented with 10% fetal bovine serum and 50 mg/ml gentamicin at 37°C and 5% CO2.

Extracted molecule

total RNA

Extraction protocol

RNA isolation with Qiazol (Qiagen) was performed according to the manufacturer’s instructions. Then, a small RNA library was prepared with a small RNA preparation kit according to the manufacturer's instructions (Illumina). Finally, a small RNA library was sequenced using an Illumina 1G Genome Analyzer.

Library strategy

RNA-Seq

Library source

transcriptomic

Library selection

size fractionation

Instrument model

Illumina Genome Analyzer

Description

able to self-renew and differentiate into cells of neuronal and glial lineages both in vivo and in vitro

Data processing

Human genome assembly (hg18) and annotation tracks were downloaded from the UCSC Genome Browser, as of June 2008. Using BLAT, all the sequence reads from the Illumina 1G Genome Analyzer were mapped onto hg18.

Submission date

Apr 21, 2009

Last update date

Jun 11, 2013

Contact name

Sungsoo Kang

Organization name

KRIBB

Department

KOBIC

Street address

111 Gwahangno, Yuseong-gu

City

Daejeon

ZIP/Postal code

305-806

Country

South Korea

Platform ID

GPL9052

Series (1)

GSE15756

MicroRNA profiling of human neural stem cells

Relations

BioSample

SAMN02197747

Data table header descriptions
SEQUENCE	Unique sequences identified
COUNT	Abundance count
GENOMIC_MATCHES	Number of genomic matches

Data table
SEQUENCE	COUNT	GENOMIC_MATCHES
TCGTATGCCGTCTTCTGCTTGAAAAA	52883	0
AAAAAAAAAAAAAAAAAAAAAAAAAA	41090	0
TGAGGTAGTAGATTGTATAGTTTCGT	8128	1
AATGGTAGAACAACGGGTCGTATGCC	7621	1
TGAGGTAGTAGGTTGTATAGTTTCGT	6411	0
TGAGGTAGTAGTTTGTACAGTTTCGT	4217	1
TAGCTTATCAGACTGATGTTGACTCG	4010	1
AGCAGGTAGAGCAAATGTCGTATGCC	4010	1
TGAGGTAGTAGGTTGTGTGGTTTCGT	3333	1
AAAAAAAAAAAAAAAAAAAAAAAACA	3124	0
CGGCGGGTGTTGACGCGATGTCGTAT	3110	2
AAAAAAAAAAAAAAAAAAAAAAAAAC	3076	0
TGAGGTAGTAGTTTGTGCTGTTTCGT	3068	1
GTATGCCGTCTTCTGCTTGAAAAAAA	3056	0
AGCGGTCTAAGGCTGTCGTATGCCGT	3054	0
CAATGGTAGAACAACGGGTCGTATGC	2873	1
CGTAGCGGTCCTGACGTGCATCGTAT	2493	0
ATCAGATACCGTCGTAGTTCCGTCGT	2393	1
AAAAAAAAAAAAAAAAAAAAAAACAA	2375	0
TCGTACGTAGCAGAGCAGTCGTATGC	2196	1

Total number of rows: 951884

Table truncated, full table size 33336 Kbytes.

Supplementary data files not provided

Raw data not provided for this record

Processed data included within Sample table