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After RNA amplification and labelling, gene profiling was performed using oligonucleotide microarrays (26,068 probes) to compare 1 cGy irradiated to sham-irradiated cells at individual times.
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Currently, organic fluorophores are used to label gene delivery [11], but the photobleaching problem prevents long-term tracking.
Membranes were probed with [α-32P]-dATP labelled gene specific probes following the manufacturer's protocol (HexaLabel Plus kit, Fermentas).
The membrane was incubated with the P labeled gene specific probe at 65°C overnight in hybridization buffer (Sigma).
Next, we identified and labeled gene duplication events on the OG phylogenetic trees obtained from the amino acid sequence data.
We recorded 7,414 gene models which overlap known FlyBase (Release 5.27, www.flybase.org) genes and which are hereafter labeled "gene models".
This accounts for 81.4 % of the genome, each gene being a member on average of 9.2 sets, with the most labeled gene being represented in 45 sets.
The column labeled gene name contains the full gene name *** Zebrafish do not have separate MAO-A and MAO-B therefore MAO levels were analyzed.
Annotation of a set of genes is often accomplished through comparison to a library of labelled gene sets such as biological processes or canonical pathways.
We have work in progress to investigate these k-parametrized labeled gene networks by standard methods of graph theory and network analysis.
In reanalyzing our qRT-PCR dataset, we found that we had made an error in labeling gene names for neuronal Group VII, where "Spp1" was incorrectly labeled as "Kcnq4", which is the underlying reason for this discrepancy.
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