Availables applications

Equipment -//- Availables applications -//- Agreement -//- Tarification

 

The POPS platform offers expertise to develop transcriptome analysis through the use of high-throughput RNA sequencing. 

 

  • Project design in interaction with the collaborator (technology, planning, ...)
  • Technical realization and production of RNAseq data
  • Bioinformatics and statistical analyses adapted to provide usable results
  • Results interpretation
  • Submission in databases

 

Strong points

  • Versatility: Diversity of organisms.

                          Plurality of samples (type of culture, type of organs, tissues...).

                          Adaptability to the number of samples (test, medium and high throughput).

                          Dedicated contact person for your project.

                          Bioinformatics and statistical analysis pipelines developed

                          specifically for our applications.

  • Dedicated contact person for your project.
  • Bioinformatics and statistical analysis pipelines developed specifically for our applications.

 

Proposed applications

  • Stranded sequencing of polyAdenylated RNA (the coding strand).
  • Unstranded sequencing of polyAdenylated RNA.
  • Sequencing of small RNA: miRNA, siRNA...
  • Sequencing of long reads (collaborative projects)
  • Stranded sequencing of non-polyAdenylated RNA (depletion).
  • Microtranscriptomics or sequencing of very small amounts of RNA (from 75pg total RNA).
  • Metatranscriptomics or transcriptome sequencing of several species from the same sample.
  • Footprints.
  • Single cell: under development.

Protocols can be customized according to specific needs

 

Sequencing options:

  • NextSeq 500 Sequencer
  • Access to HiSeq sequencers (CEA-CNS, Evry)
  • Single Read or Pair-End
  • Sequencing lengths: 75, 100, 150 bases

 

Bioinformatics analysis and statistics:

  • Mapping
  • Differential gene analysis                                                                 
  • Assembling
  • Processing of smallRNAs

Other possible analyses in collaboration with the Genomic Networks team.