custom glass slide oligonucleotide microarrays  (Agilent technologies)

Journal: Nature Communications

Article Title: The box C/D snoRNP assembly factor Bcd1 interacts with the histone chaperone Rtt106 and controls its transcription dependent activity

doi: 10.1038/s41467-021-22077-4

Figure Lengend Snippet: Two independent screens were performed, one with a mutant strain in which the RSA1 gene was deleted ( rsa1 Δ ::Nat R ) and the other with a mutant used as reference strain. Two independent experiments were performed for each of these screens. The query strain and the reference strain were mated with a pool of strains containing all the viable strains from the haploid gene deletion collection. After selection of heterozygous diploids, sporulation and selection of the haploid, double mutants were grown for ~18 generations in rich liquid medium (YPD). Microarrays were used to measure the relative abundance of double mutants with query versus the reference populations. Normalized results are expressed as log2(Q/R) (see Methods section). Negative values indicate a synthetic growth defect. Positive values reveal either epistatic (buffering) or suppressive (alleviating) interactions between RSA1 and the selected genes. The genetic interactions with RSA1 are indicated by green arrows for the positive log2(Q/R) values and by red arrows for the negative values. The exact values are given in parentheses. HC heterochromatin.

Article Snippet: The relative measured fitness of the double mutants log2(Q/R) was estimated from the values of the intensity of hybridization signal on custom glass slide oligonucleotide microarrays (custom Agilent, GEO GPL18088) for the query double mutant population (Q) compared with a reference double mutant population obtained in parallel (R).

Techniques: Mutagenesis, Selection

Journal: BMC Genomics

Article Title: Transcription profile of Trichophyton rubrum conidia grown on keratin reveals the induction of an adhesin-like protein gene with a tandem repeat pattern

doi: 10.1186/s12864-016-2567-8

Figure Lengend Snippet: Real-time RT-PCR of selected genes from the microarray hybridization of T. rubrum genes during growth on keratin and elastin compared to control ( a ). Modulation of the adhesin-like protein gene of T. rubrum co-cultured with keratinocytes compared to fungal conidia ( b )

Article Snippet: Agilent 4 × 44 K High-Density Oligonucleotide custom microarray slides were designed with the e-array tool (Agilent Technology Genomics).

Techniques: Quantitative RT-PCR, Microarray, Hybridization, Cell Culture