RNA-seq of Oxytricha trifallax: cold-starved cells - SRA

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SRX2354036: RNA-seq of Oxytricha trifallax: cold-starved cells
1 ILLUMINA (Illumina HiSeq 2500) run: 17.4M spots, 1.2G bases, 560.3Mb downloads

Design: We collected vegetatively-growing Oxytricha trifallax JRB310 cells and incubated them, without food, for five days at 4ĄC. Cold-starved cells were lysed with a Nucleospin Tissue Kit according to standard protocol and incubated for 2 hours with proteinase K. One replicate was prepared using the Epicentre Stranded kit. cDNA samples were amplified for 12 PCR cycles and sequenced on an Illumina HiSeq 2500 instrument.

Submitted by: Princeton University

Study: Long-read sequencing of the Oxytricha trifallax macronuclear genome

PRJNA352762 • SRP092857 • All experiments • All runs

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Oxytricha trifallax's somatic genome is highly fragmented, with thousands of chromosomes averaging only 3.2 kbp. This makes it possible to capture many whole chromosomes in single PacBio sequencing reads. In this project we explore the benefits produce an updated version of the Oxytricha macronuclear genome including contigs that represent whole chromosome sequences derived from single reads.

Sample: Cold-Starved

SAMN06027664 • SRS1803740 • All experiments • All runs

Organism: Oxytricha trifallax

Library:

Name: oxy310_starve

Instrument: Illumina HiSeq 2500

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: SINGLE

Runs: 1 run, 17.4M spots, 1.2G bases, 560.3Mb

Run	# of Spots	# of Bases	Size	Published
SRR5027948	17,422,813	1.2G	560.3Mb	2016-11-21

ID:: 3435982

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