Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1121203 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:In order to identify the molecular mechanisms controlling preadipocyte commitment we derived new sublines of Swiss 3T3 fibroblasts with varying potential for adipogenesis. Swiss 2, Swiss 8, Swiss 9, and Swiss 19 differentiate into fat cells while Swiss 3, Swiss 5, and Swiss 22 have a lower propensity to differentiate into fat cells. The overall goal was to identify genes whose expression in the fibroblast state correlates with the ultimate potential of the cells to undergo adipogenesis
2010-02-01 | GSE19732 | GEO
Project description:In order to identify the molecular mechanisms controlling preadipocyte commitment we derived new sublines of Swiss 3T3 fibroblasts with varying potential for adipogenesis. Swiss 2, Swiss 8, Swiss 9, and Swiss 19 differentiate into fat cells while Swiss 3, Swiss 5, and Swiss 22 have a lower propensity to differentiate into fat cells. The overall goal was to identify genes whose expression in the fibroblast state correlates with the ultimate potential of the cells to undergo adipogenesis 4 preadipose fibroblast cell lines (Swiss 2, Swiss 8, Swiss 9, and Swiss 19 in triplicate or duplicate) were compared to 3 non-adipogenic fibroblast cell lines (Swiss 3, Swiss 5, Swiss 22 in triplicate)
2010-02-21 | E-GEOD-19732 | biostudies-arrayexpress
Project description:In order to evaluate whether chemoablative busulphan treatment alters the expression profile of Sertoli cells in testis, adult male Swiss mice were treated intraperitoneally with 25mg/Kg body weight of busulphan. 1 month post busulphan treatment, the isolated Sertoli cells were evaluated for gene expression profile and compared to expression profile of Sertoli cells from age matched normal adult Swiss mice.
2017-09-06 | GSE86228 | GEO
Project description:Bark beetles (Coleoptera: Scolytinae) are pests of many forests around the world. The mountain pine beetle (MPB), Dendroctonus ponderosae Hopkins, is a significant pest of western North American pine forests. The MPB is able to overcome the defences of pine trees through pheromone-assisted aggregation that results in a mass attack of host trees. These pheromones, both male and female produced, are believed to be biosynthesized in the midgut and/or fat body of these insects. We have used transcriptomics (RNA-seq) to identify transcripts differentially expressed between sexes and between tissues, with juvenile hormone III treatment, which is known to induce pheromone biosynthesis.
2016-02-04 | GSE69061 | GEO
Project description:Contemporary high dimensional biological assays, such as mRNA expression microarrays, regularly involve multiple data processing steps, such as experimental processing, computational processing, sample selection, or feature selection (i.e. gene selection), prior to deriving any biological conclusions. These steps can dramatically change the interpretation of an experiment. Evaluation of processing steps has received limited attention in the literature. It is not straightforward to evaluate different processing methods and investigators are often unsure of the best method. We present a simple statistical tool, Standardized WithIn class Sum of Squares (SWISS), that allows investigators to compare alternate data processing methods, such as different experimental methods, normalizations, or technologies, on a dataset in terms of how well they cluster a priori biological classes. SWISS uses Euclidean distance to determine which method does a better job of clustering the data elements based on a priori classifications. We apply SWISS to three different gene expression applications. The first application uses four different datasets to compare different experimental methods, normalizations, and gene sets. The second application, using data from the MicroArray Quality Control (MAQC) project, compares different microarray platforms. The third application compares different technologies: a single Agilent two-color microarray versus one lane of RNA-Seq. These applications give an indication of the variety of problems that SWISS can be helpful in solving. The SWISS analysis of one-color versus two-color microarrays provides investigators who use two-color arrays the opportunity to review their results in light of a single-channel analysis, with all of the associated benefits offered by this design. Analysis of the MACQ data shows differential intersite reproducibility by array platform. SWISS also shows that one lane of RNA-Seq clusters data by biological phenotypes as well as a single Agilent two-color microarray.
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Project description:We present RNAseq data obtained from tissues harvested directly from rat segmental osteotomies managed using the Masquelet induced membrane technique or left empty.
2020-04-03 | GSE138624 | GEO
Project description:S.cerevisiae proteomes were prepared for LC-MS/MS analysis using an Ultimate 3000 HPLC system (Dionex, Amsterdam, The Netherlands) in-line connected to a LTQ Orbitrap XL mass spectrometer (Thermo Electron, Bremen, Germany). Mascot server version 2.2 from Matrix Science was then used to identify the MS/MS spectra in the S. cerevisiae content of UniProtKB/Swiss-Prot (version 15.10) concatenated with the 5-UTR peptide centric database derived from SGD. A shuffled version of this concatenated database was created to estimate the false discovery rate in the results at 0.64%. The precursor ion tolerance was set to 10 ppm and the fragment ion tolerance was set to 0.5 Da. Semi-specific Arg-C/P was used as enzyme specificity and no missed cleavages were allowed. The fixed modifications were 13C2D3-acetylation (+47 Da) on Lys, carbamidomethylation (+57 Da) on Cys and oxidation (+16 Da) on Met, and the variable modifications were acetylation (+42 Da) and 13C2D3-acetylation (+47 Da) on the N-terminus. N-terminal propionylation (+56 Da) was set as an additional variable modification in a parallel search for N-terminal propionylation. The charge state was set to allow single, double and triple charged peptides. All peptide identifications were subsequently processed, stored and managed by ms-lims.
2012-05-17 | PRD000384 | Pride