CATMAv7 Arabidopsis thaliana
The selected chip format is 180000 probes per plex on a 4 plex array coming from AGILENT Technology.
On the CATMAv7 Agilent array
There will be 38360 probes corresponding to annotated sequences (30834 probes corresponding to TAIRv8 annotation (including 476 probes of mitochondrial and chloroplast genes) + 1289 probes corresponding to EUGENE software predictions. Moreover, we included 5352 probes corresponding to repeat elements, 658 probes for miRNA/MIR, 342 probes for other RNAs (rRNA,tRNA, snRNA, soRNA) and finally 36 controls).
Each annotated probe is triplicated in each plex for robust analysis and in both forward and reverse orientation.
With this new CATMA array, we can perform more hybridizations at the same time, on a more stable support than the previous “in house spotted” array.
Material to be supplied by users
- We require a minimum amount of 2 µg of total RNA of perfect quality per array (RNA extraction using columns such as Qiagen RNeasy for example in DEPC treated water and conserved at -80 ° C.
- Titration by spectrophotometry with OD 260nm/280nm values between 1.9 and 2.1.
- The RNAs samples will be sent to us by fast transporters and in dry ice.
The total cost : CATMAv7 array + Agilent chip to check the RNA quality (from 1 to 12 samples) + amplification + labelled cDNA+Various consumables (Ribogreen).
Note : We always perform technical (dye-swap/dye-switch) and at least one biological repetition. Why do we perform two colour arrays instead of one colour arrays ?
Please read this document : twocolorvsonecolor.pdf
|Ludivine SOUBIGOU-TACONNAT :|
tel : +3188.8.131.52.19