Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR8108698_1.fastq.gz | Fastqsanger.gz | |||
| SRR8108698_2.fastq.gz | Fastqsanger.gz |
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Similar Datasets
Project description:Studies have shown that Respiratory Burst Oxidase Homolog B (RBOHB) are involved in stress response in rice plants. Primers were developed for amplification via Polymerase Chain Reaction (PCR) of a region that contained a simple sequence repeat (SSR) in RBOHB. PCR was performed on 6 different varieties of Oryza sativa. PCR product was sequenced on an ABI 3730 capillary sequence machine. Sequence data was aligned to observe differences in SSR length between each rice variety.
2017-12-31 | E-MTAB-5560 | biostudies-arrayexpress
Project description:Studies have shown that Rice Salt Sensitive 1 (RSS1) is involved in stress response in rice plants. Primers were developed for amplification via Polymerase Chain Reaction (PCR) of a region that contained a simple sequence repeat (SSR) in RSS1. PCR was performed on 6 different varieties of Oryza sativa. PCR product was sequenced on an ABI 3730 capillary sequence machine. Sequence data was aligned to observe differences in SSR length between each rice variety.
2017-12-31 | E-MTAB-5583 | biostudies-arrayexpress
Project description:Despite widespread use of sunscreens that minimize erythema by blocking ultraviolet B (UVB) radiation, incidence rates of melanoma continue to rise. In considering this disparity between intervention and disease prevalence, we investigated the in vivo transcriptome of human skin treated with sunscreen and solar-simulated radiation (ssR). A focal skin area of healthy participants was exposed to ssR at 1 minimal erythema dose (MED), 0.1 MED or 100 J/m2 with or without prior application of sunscreen, or to non-UVB-spectrum of ssR (solar-simulated UVA/visible/infrared radiation: ssA). Skin biopsies were analyzed using expression microarrays.
2011-10-19 | GSE22083 | GEO
Project description:Despite widespread use of sunscreens that minimize erythema by blocking ultraviolet B (UVB) radiation, incidence rates of melanoma continue to rise. In considering this disparity between intervention and disease prevalence, we investigated the in vivo transcriptome of human skin treated with sunscreen and solar-simulated radiation (ssR). A focal skin area of healthy participants was exposed to ssR at 1 minimal erythema dose (MED), 0.1 MED or 100 J/m2 with or without prior application of sunscreen, or to non-UVB-spectrum of ssR (solar-simulated UVA/visible/infrared radiation: ssA). Skin biopsies were analyzed using expression microarrays. Ninety-eight microarrays from 14 healthy human volunteers were analyzed. Focal skin areas of all 14 volunteers were exposed to 0 J/m2, 100 J/m2, 1 minimal erythema dose (MED), and 0.1 MED of solar-simulated radiation (ssR). Eight of the 14 volunteers (Group 1) were also exposed to ssA (ssR minus UVB) that were generated by removing UVB from 0 J/m2, 100 J/m2, 1 minimal erythema dose (MED), and 0.1 MED of ssR. Additionally, 6 of the 14 volunteers (Group 2) were treated with sunscreen of sun protection factor (SPF) 15, and exposed to 0 J/m2, 100 J/m2, 1 minimal erythema dose (MED), and 0.1 MED of ssR. Biopsy was taken 24 hours after exposure from each focal skin area for RNA extraction.
2011-10-18 | E-GEOD-22083 | biostudies-arrayexpress
Project description:Posttranslational modification by the small ubiquitin-like modifier Sumo regulates many cellular processes including the adaptive response to various types of stress, which has been referred to as Sumo Stress Response (SSR). However, it remains unclear whether the SSR involves a common set of core proteins regardless of the type of stress, or whether each particular type of stress induces a stress-specific SSR that targets a unique, largely non-overlapping set of Sumo substrates. In this study we used mass spectrometry to identify differentially sumoylated proteins during heat shock, hyperosmotic stress, oxidative stress, nitrogen starvation and DNA alkylation in Saccharomyces cerevisiae. Our results show that each stress triggers a specific SSR signature centered on proteins involved in transcription, translation, and chromatin regulation. Strikingly, while the various stress-specific SSRs were largely non-overlapping, all types of stresses tested here resulted in desumoylation of subunits of RNA polymerase III, which correlated with a decrease in tRNA synthesis. We conclude that desumoylation and subsequent inhibition of RNA polymerase III constitutes the core of all stress-specific SSRs.
2019-11-01 | PXD013884 | Pride
Project description:Sclerotinia sclerotiorum, a necrotrophic fungal pathogen with a broad host range, causes a devastating disease on soybean called Sclerotinia stem rot (SSR), can lead to losses as high as 50-60%. Resistance mechanisms against SSR are poorly understood. We used high throughput RNAseq approach to decipher the molecular mechanisms governing resistance to S. sclerotiorum in soybean. Transcripts of recombinant inbred lines (RILs) of soybean; susceptible (S) and resistant (R) were analyzed in a time course experiment. This study might provide an important step towards understanding resistance responses of soybean to S. sclerotiorum and identified novel mechanisms and targets.
2018-11-19 | GSE114448 | GEO
Project description:Paired-end deep-sequencing was used to determine in parallel the status and position of sister-chromatid contact (SC2) reporters and/or site-specific recombinase (SSR) activity reporters inserted at random positions in a library of cells. The SC2 reporters are short recombination cassettes for a topology-independent site-specific recombinase (Cre or Xer). The SSR-activity reporters are long recombination cassettes. The SC2 reporter cassettes are composed of two directly-repeated recombination sites separated by a DNA segment too short to permit their excision by intramolecular recombination. The SSR-activity cassettes are composed of two directly-repeated recombination sites separated by a DNA segment long enough to permit their excision by intramolecular recombination. The assays start with the engineering of a cell line with a conditional expression allele for Cre or Xer and the creation of a library of cells harbouring a cognate SC2 or SSR-activity reporter at different genomic positions. Production of the recombinase was induced for different lengths of time during cell growth and/or at specific stages of the cell cycle. The position of the SC2 reporter harboured by each cell and the recombination status of the recombination cassette it contains are then determined by high-throughput paired-end sequencing.
2020-07-07 | E-MTAB-8946 | biostudies-arrayexpress
Project description:The aim of this study was to investigate cutaneous cellular and molecular events in the photodermatoses (including solar urticaria and photoaggravated atopic dermatitis) following solar simulated ultraviolet radiation (SSR) exposure, and this dataset comprised the healthy controls (HC). Cutaneous biopsies were taken from unexposed skin and from skin exposed to a single low (physiological) dose of SSR, at 30 minutes, 3 hours, 24 hours and 72 hours post-exposure, in n=6 HC. Biopsies were assessed by immunohistochemistry (n=6 HC) and RNA-sequencing analysis (n=4 HC).
2024-03-18 | E-MTAB-12218 | biostudies-arrayexpress
Project description:Genome-wide functional perturbation of human microsatellite repeats using engineered zinc finger transcription factors
2022-06-30 | GSE163886 | GEO