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Sample GSM336056 Query DataSets for GSM336056
Status Public on Dec 01, 2008
Title mid-L2 hermaphrodites
Sample type SRA
 
Source name mid-L2_hermaphrodites
Organism Caenorhabditis elegans
Characteristics strain: wild-type N2_hermaphrodites
developmental stage: mid-L2
growth condition: 20dC
Growth protocol Wild-type N2 strains were cultured under standard conditions at 20dC and used to prepare RNAs from each developmental stage (time after staged L1; mid-L2 (4hrs), mid-L2 (14hrs), mid-L3 (25hrs), mid-L4 (36hrs) and young adult (48hrs). For library preparation from males and spermatogenesis-hermaphrodites, dpy-28;him-8 double mutants and spe-9 mutants were cultured at 23dC, respectively, and RNAs were prepraed from these two strains at 40hrs after staged L1.
Extracted molecule total RNA
Extraction protocol RNAs enriched for small RNA species (less than 200nt) were prepared using the mirVana miRNA Isolation kit (Ambion) with small RNA enrichment procedure. cDNA libraries for small RNAs were made from 10 µg of RNA using the DGE-Small RNA Sample Prep Kit (Illumina) according to the manufacturer’s instructions.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model Illumina Genome Analyzer
 
Description RNA enriched for small RNA species (<200nt)
Data processing Sequences were read and raw counts reported.
 
Submission date Oct 23, 2008
Last update date May 15, 2019
Contact name Frank J Slack
E-mail(s) frank.slack@yale.edu
Organization name Yale University
Department MCDB
Street address 266 Whitney Ave
City New Haven
State/province CT
ZIP/Postal code 06520
Country USA
 
Platform ID GPL9309
Series (1)
GSE13339 Changes in expression of microRNAs during C. elegans development
Relations
SRA SRX003788
BioSample SAMN02195647

Data table header descriptions
SEQUENCE dots in sequences denote ambiguous base calls
COUNT number of times sequenced

Data table
SEQUENCE COUNT
................................... 3059
.......................T........... 1
...................A.G............. 1
...................A.TA............ 1
...................A.TAT........... 1
...................CA..T........... 1
...................G.TA............ 1
...................G.TAT........... 1
...................TG.............. 1
..................C.C.............. 1
..................CACG.TC.......... 1
..................G................ 1
..................G.T.............. 1
..................GC............... 1
..................GC.T............. 1
..................T................ 3
..................TG..G............ 1
..................TT.TGAA.......... 1
.........A.AAAAAA..........AAAAAAAA 1
.........A.CGTACA.............TACTT 1

Total number of rows: 3870829

Table truncated, full table size 143679 Kbytes.




Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data included within Sample table
Processed data are available on Series record

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