NPB_Cell2 - SRA

SRX1665520: NPB_Cell2
1 ILLUMINA (Illumina HiSeq 2000) run: 27M spots, 2.7G bases, 1.8Gb downloads

Design: Single cells and pool-and-split cDNA libraries were constructed as published previously(Tang et al., 2010). In brief, individual cells are seeded into lysate buffer by mouth pipette, and reverse transcription reacted directly on the whole cell lysate. We then applied exonuclease I (New England Biolabs) to remove free primers. Next, a poly (A) tail was added to the 3’ end of the first-strand cDNAs using terminal deoxynucleotidyl transferase (Invitrogen). Single-cell cDNAs were then amplified by 33 cycles of PCR. The resulting 100–200 ng of amplified cDNAs were used to construct a sequencing library. Final cDNA libraries (200–2,000 ng depending on the amount of input material) were checked for known marker gene OsRBC (Os12g17600) using qPCR, and after passing quality control, libraries were fragmented with a Covaris S2 system. After fragmentation, we constructed cDNA library using the NEBNext Ultra DNA library Prep Kit for Illumina according to the manufacturer’s instructions. Samples were sequenced using Illumina HiSeq 2000 to obtain > 20 million single-end 100-bp reads per sample.

Submitted by: Institute of Genetics and Developmental Biology

Study: Oryza sativa Raw sequence reads

PRJNA316571 • SRP072415 • All experiments • All runs

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Recent studies have shown that stochastic gene expression is widely seen in genetically identical cell populations grown in the same environmental condition. However, it remains to unclear how the genome-wide stochastic gene expression is established. Here, we used single-cell RNA-seq to investigate expression stochasticity in rice mesophyll cells from two homogenous genetic background, as well as their F1 hybrid

Sample: Nipponbare cultivar cell 2

SAMN04585877 • SRS1364315 • All experiments • All runs

Organism: Oryza sativa Japonica Group

Library:

Instrument: Illumina HiSeq 2000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: PolyA

Layout: SINGLE

Spot descriptor:

1 forward

Runs: 1 run, 27M spots, 2.7G bases, 1.8Gb

Run	# of Spots	# of Bases	Size	Published
SRR3304475	27,003,293	2.7G	1.8Gb	2017-03-24

ID:: 2391155

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