|
| Status |
Public on Jun 06, 2018 |
| Title |
unfertilized eggs_PolyA plus |
| Sample type |
SRA |
| |
|
| Source name |
unfertilized eggs
|
| Organism |
Drosophila melanogaster |
| Characteristics |
developmental stage: unfertilized egg
genotype: y w
rna fraction: rRNA-depleted total RNA, polyA-plus fraction
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extraction in accordance to Trizol protocol.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Sequenced and aligned reads were passed through a Perl filtering algorithm to determine if they were internal to an intron or overlapped with the 5' or 3' junction of each intron in the Drosophila melanogaster (dm3) genome. Each intron was indexed and reads that aligned to the index were parsed and counted to determine molecule size. Sequence information was then extracted for each putative molecule, and pairwise aligned using Blast (43). Positive Blast hits were then aligned with Clustalw2 to determine actual sequence alignment for further downstream analysis (44).
Genome_build: dm3
Supplementary_files_format_and_content: readcounts.xlsx contains the read counts of the individual sisRNA candidates
|
| |
|
| Submission date |
Jan 27, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Jun Wei Pek |
| E-mail(s) |
junwei@tll.org.sg
|
| Phone |
+6568727818
|
| Organization name |
Temasek Life Sciences Laboratory
|
| Street address |
1 Research Link National University of Singapore
|
| City |
Singapore |
| ZIP/Postal code |
117604 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL13304 |
| Series (1) |
| GSE77294 |
RNA-seq of Drosophila unfertilized eggs |
|
| Relations |
| BioSample |
SAMN04443342 |
| SRA |
SRX1549316 |
