|
| Status |
Public on May 03, 2012 |
| Title |
crh6-1 mRNA EMS batch 1 |
| Sample type |
SRA |
| |
|
| Source name |
leaf tissue, SDC::GFP crh6-1, mRNA
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
genotype: SDC::GFP crh6-1 (eco. Columbia)
tissue: leaf
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Isolated mRNAs from total RNA Trizol preparation.
Illumina TruSeq RNA.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
Purified mRNAs.
|
| Data processing |
mRNA-Seq reads were mapped with Bowtie (Langmead, et al. 2009 Genome Biol. (PMID 19261174)) to TAIR8 chr1..5, allowing up to 2 mismatches and retaining only uniquely-mapping reads.
Supplementary_files_format_and_content: Each processed file gives 10- or 20-basepair resolution signal normalized as mapped reads per genomic kilobasepair per million mapped reads in the form of a UCSC Genome Browser wiggle file in plain text format with UNIX-style line endings (single `fixedStep start=1 step=10/20 span=10/20' header per chromosome in order chr1..5; non-negative decimal values).
Supplementary_files_format_and_content: Quality scores in _qseq files are Phred scale with +64 ASCII offset... non-multiplexed: 1 lane.
Genome_build: TAIR8
|
| |
|
| Submission date |
May 01, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
Shawn J. Cokus |
| Organization name |
UCLA
|
| Street address |
UCLA, 3000 Terasaki Life Sciences Building, 610 Charles Young Drive East
|
| City |
Los Angeles |
| State/province |
CA |
| ZIP/Postal code |
90095 |
| Country |
USA |
| |
|
| Platform ID |
GPL13222 |
| Series (1) |
| GSE37644 |
MORC family ATPases required for heterochromatin condensation and gene silencing |
|
| Relations |
| SRA |
SRX145419 |
| BioSample |
SAMN00990544 |
| Named Annotation |
GSM925650_crh6-1_mRNA_EMSbatch1_processed.linCvg10bpResolution.UCSCwigToAthTAIR8chr12345.wig.gz |
