Project description:These datasets contain the RNA sequences of three kinds of sample replicate groups obtained from our experiment. They were taken from distal roots and the thickened proximal region, as well as the enhanced thickening of proximal roots in mechanically treated plants. With these RNA sequences, we are profiling the response in Bradypodium distachyon.
Project description:These datasets contain the RNA sequences of three kinds of sample replicate groups obtained from our experiment: the wild type (WT), SZOE, and szAR. They were taken in the time interval of 0, 10, 30 and 60 minutes. With these RNA sequences, we are profiling the touch response in Bradypodium distachyon taken at different times.
Project description:Optimization hydrophobic tagging reaction time (30 min to 2h) and evaluation of the HUNTER protocol performance with different amounts (25 ug to 400 ug) of purified rat brain proteome as starting material.
Project description:Optimization hydrophobic tagging reagent (hexadecanal or undecanal), reaction time (30 min to 16h) and evaluation of the HUNTER protocol performance with different amounts (25 ug to 400 ug) of purified Arabidopsis thaliana Col-8 wt leaf proteome as starting material.
Project description:To better resolve the pronounced transcriptional changes observed around temperature transitions, we increased sampling density at the boundaries of the thermocycle.
Project description:When telomeres become excessively short, the cell enters senescence. At this point, it produces a protein called p21 in a significant manner. Only a protein called telomerase is capable of lengthening telomeres, but it is not present in adult cells. The aim of this project is to assess and study the benefit provided by telomerase in the context of osteoarthritis (using the CiOA preclinical model). We will utilize heterozygous transgenic mice: p21/mTERT, which possess a preserved copy of p21, along with the transgene. Therefore, we will need to compare our mice with control mice: p21+/+ that do not express the transgene. For each genotype, we will induce osteoarthritis pathology (CiOA) and compare it with the Sham group. In addition, we investigated whether ectopic expression of telomerase could protect aged mice against age-related osteoarthritis. Each group is in triplicate.
Project description:Comparison of protein termini in Arabidopsis thaliana vpe0 quadruple mutant and wildtype seedlings shortly after germination to identify differential processed proteins.
Project description:MYB plays a critical role as a regulator of erythropoieisis. We have shown that MYB silences epsilon and gamma-globin expression in erythroid progenitors. We here examine erythroid cells at the basophilic erythroblast stage of differentiation with MYB shRNA or control lentiviral transduction prior to differentiation. We have cultured CD34 cells and transduced the cells with lentiviruses harboring shRNAs targeting MYB or controls and then allowed the cells to differentiate down the erythroid lineage. At the basophilic erythroblast stage of differentiation, the cells were harvested and total RNA was extracted. This was used to hybridize to Affymetrix expression arrays using the HG-U133 Plus 2.0 platform to ascertain expression differences that occur with the knockdown of MYB.
Project description:De novo centromeres originate occasionally from non-centromeric regions of chromosomes, providing an excellent model system to study centromeric chromatin. The maize mini-chromosome Derivative 3-3 contains a de novo centromere, which was derived from a euchromatic site on the short arm of chromosome 9 that lacks traditional centromeric repeat sequences. Our previous study found that the CENH3 binding domain of this de novo centromere is only 288 kb with a high-density gene distribution with low-density of transposons. Here we applied next generation sequencing technology to analyze gene transcription, DNA methylation for this region. Our RNA-seq data revealed that active chromatin is not a barrier for de novo centromere formation. Bisulfite-ChIP-seq results indicate a slightly increased DNA methylation level after de novo centromere formation, reaching the level of a native centromere. These results provide insight into the mechanism of de novo centromere formation and subsequent consequences. RNA-seq was carried out using material from seedling and young leaves between control and Derivative 3-3. Bisulfite-ChIP-seq was carried out with anti-CENH3 antibodies using material from young leaves in Derivative 3-3.