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Assaying RNA Expression in C. elegans

experiment: Assaying RNA Expression in C. elegans project: Chromatin Function PI: Jason Lieb Labs: Jason Lieb
To complement our extensive ChIP-chip characterization of chromosomal regulators in C. elegans, in select experiments we also isolate total RNA from parallel cultures of staged animals. Labeled cDNA will be prepared and used to probe either gene-specific microarrays, or genomic tiling microarrays to assess the transcriptional state of genomic sequences flanking the protein-binding regions localized by ChIP-chip and ChIP-seq. To investigate possible correlations between putative regulatory proteins and transcription state, data from such experiments (i.e., protein binding sites and steady-state mRNA levels) will be integrated during downstream analysis.

All features generated by this experiment:
Feature Export
MRNA 18160 Expression Levels 18160
This represents 18023 unique MRNAs
TAB CSV GFF3 (for UCSC) SEQ
NcRNA 24 Expression Levels 24
This represents 22 unique NcRNAs
TAB CSV GFF3 (for UCSC) SEQ
Transcript 4993 Expression Levels 4993 TAB CSV GFF3 SEQ
All GBrowse tracks generated for this experiment:
GBrowse track by chromosome
LIEB_NIMBLEGEN_TRANSLATION I II III IV V X
There is 1 tiling array:RNA submission for this experiment:
DCC id Name developmental stage strain temperature Embargoed until Features, GBrowse and Data Files
modENCODE_3154

MXEMB N2 RNA EXPRESSION Mixed Stage Embryos [ALL]
N2 [ALL]
20 degree celsius [ALL]
embargo expired
MRNA: 18160   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
Expression Levels:  18160   export: TAB   CSV
NcRNA: 24   export: TAB   CSV  GFF3  (for UCSC)  SEQ    create LIST
Expression Levels:  24   export: TAB   CSV
Transcript: 4993   export: TAB   CSV GFF3 SEQ    create LIST
Expression Levels:  4993   export: TAB   CSV
  [find nearby features]
GBrowse tracks: LIEB_NIMBLEGEN_TRANSLATION


9 files Download data files