Project description:Accurate and reproducible quantitation of target genes depends on correct normalization. Historically, genes with variable tissue transcription e.g. GAPDH, have been used as normalization factors which is problematic, particularly in clinical samples which often are derived from different tissue sources. Using a large-scale gene database (GeneChip (Affymetrix U133A) dataset of 36 gastrointestinal tumors and normal tissues), we identified 8 candidate reference genes that were highly expressed with low variability and established expression levels by real-time RT-PCR in an independent set of GI tissue samples (n=42). Keywords: house-keeping, intestine, carcinoid
Project description:PP2C genes responding to 13 stresses were screened using qPCR. All sampes were repeated with 3 times and ACTIN were regarded as house keeping gene.The stresses including heavy metal treatments, environmental factors,phytohormones and biotic treatments.
Project description:MAPK cascades genes responding to 14 stresses were screened using qPCR. All samples were repeated with 3 times and ACTIN was regarded as house keeping gene. The stresses included heavy metal treatments, environmental factors, phytohormones and biotic treatments.
Project description:To investigate the relationship between RNA polymerase binding and transcription ChIP-seq on the common house-keeping SigmaD and RNA polymerase beta subunit were coupled with RNA-seq at various growth phases of Escherichia coli in rich media.
Project description:We report on a genome-wide scan for introgression in the house mouse (Mus musculus domesticus) involving the Algerian mouse (Mus spretus), using 20 samples from the ranges of sympatry and allopatry. Our analysis reveals significant variability in introgression signatures along the genomes, as well as across the samples. We find that fewer than half of the chromosomes in each genome harbor all detectable introgression. Further, a surprising result is that European mice carry more M. spretus alleles than the sympatric African ones. Using the length distribution and sharing patterns of introgressed genomic tracts across the samples, we propose three hypotheses. First, at least three distinct hybridization events involving M. spretus have occurred, one of which is ancient, and the other two are recent. Second, several of the inferred introgressed tracts contain genes that are likely to confer adaptive advantage. Third, introgressed tracts might contain driver genes that determine the evolutionary fate of those tracts. Further, our analysis revealed introgressed genes of functional importance, including the Vkorc1 gene, which is implicated in rodenticide resistance, and olfactory receptor genes. Our findings highlight the extent and role of introgression in nature, and call for careful analysis and interpretation of house mouse data in evolutionary and genetic studies.
Project description:96 BdbZIPs responding to 14 stresses were screened using qPCR. All samples were repeated with 3 times and GAPDH was regarded as house keeping gene. The stresses included heavy metal treatments, environmental factors and phytohormones
