Project description:Mammals differ more than 100-fold in maximum lifespan. Here, we conducted comparative transcriptomics on 26 species with diverse lifespans. We identified thousands of genes with expression levels negatively or positively correlated with a species' maximum lifespan (Neg- or Pos-MLS genes). Neg-MLS genes are primarily involved in energy metabolism and inflammation. Pos-MLS genes show enrichment in DNA repair, microtubule organization, and RNA transport. Expression of Neg- and Pos-MLS genes is modulated by interventions, including mTOR and PI3K inhibition. Regulatory networks analysis showed that Neg-MLS genes are under circadian regulation possibly to avoid persistent high expression, whereas Pos-MLS genes are targets of master pluripotency regulators OCT4 and NANOG and are upregulated during somatic cell reprogramming. Pos-MLS genes are highly expressed during embryogenesis but significantly downregulated after birth. This work provides targets for anti-aging interventions by defining pathways correlating with longevity across mammals and uncovering circadian and pluripotency networks as central regulators of longevity.
Project description:Here we present MS1 spectra of nontoxigenic and toxigenic BF cells membrane extract, complemented by MS/MS spectra of separate parent ions in positive and negative mode
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MS1 total spectra BFplus and BFminus in negative and positive mode
2015-09-04-pos-bminus-baselinel-1.d - MS1 acquisition spectre of sample BFminus in pos mode, sample acquisition started from 7.5 min of chromatogramm
2015-09-04-pos-bminus-picture-tertac-dla lockmass.d - MS1 acquisition spectre of sample BFminus in pos mode, tetracycline as internal standard was used,m/z 445
NAT-neg-6-plus.d - MS1 acquisition spectre of sample BFplus in neg mode
nat-plus-pos.d- MS1 acquisition spectre of sample BFplus in pos mode
NAT-neg-2-minus-1-10.d - MS1 acquisition spectre of sample BFminus in neg mode
Project description:Using Gfi1b conditional mice, deletion of gfi1b in the hematopietic system was induced by injecting MxCre tg Gfi1bfl/fl mice with pIpC. 30 days after injection, Cd150 pos, Cd 48 neg, Lin neg Sca and c-kit pos stem cells were sortrted from Gfi1bfl/fl and Mxcre tg Gfi1bfl/fl mice and analysed. We used the mouse Affymetrix Gene ST Array.
Project description:We sorted Group 3 MB xenografts tumors by PRTG surface expression and performed single-cell RNA sequencing on the PRTG-pos and PRTG-neg fractions.
Project description:Using Gfi1b conditional mice, deletion of gfi1b in the hematopietic system was induced by injecting MxCre tg Gfi1bfl/fl mice with pIpC. 30 days after injection, Cd150 pos, Cd 48 neg, Lin neg Sca and c-kit pos stem cells were sortrted from Gfi1bfl/fl and Mxcre tg Gfi1bfl/fl mice and analysed. We used the mouse Affymetrix Gene ST Array. The study should determine whether loss of Gfi1 alters the gene expression pattern in the hematopietic stem cells.
Project description:DOM Interlab LCMS Samples from Lab 26.
Infused with a Thermo Dionex 3000 RSLC using the loading pump at 400 ul/min with gradient as prescribed onto a Hypersil Gold C18 column (2.1x100mm, 1.9um particle size).
Analysed with a Thermo Orbitrap Exploris 480 using HESI source in positive and negative mode with MS1 and MS2 methods.
Note: sample was used up prematurely so duplicate injection replicates only for Pos MS1 and MS2, and neg MS2. Negative MS1 had triplicate injections.
Internal calibration (IC) source enabled for improved mass accuracy.
Sample infusion order: Neg MS1 rep 1, Neg MS2 rep 2, Pos MS1 rep 1, Pos MS2 rep1, (and then repeated). Within each polarity/MS group, samples were randomised - and differently between each group. No-injection blanks were run between group, and QCs and solvent and PPL SPE blanks were analyzed before the first rep of each polarity/MS setting.
Project description:Comparison of metabolic profiling from algal cell extracts using UHPLC-HRMS (Orbitrap Q Exactive). Benthic diatom Ulnaria were healthy or infected with either chytrid or oomycete parasites, and subjected to temperature increase. Data from 20231125_xx was analyzed using C18 column, data from 20251125_xx_zh was analyzed using Zic-Hilic column; both dataset consists of cell profiling with polarity switch (MS1) and ddMS acquisition on the QC pool sample in positive and negative polarity (indicated by neg_ID or pos_ID in the title name). QC pool blank was also run with the polarity switch to acquire MS1 data. Data from 20241222_xx was analyzed using RP18 column, in negative polarity and using ddMS acquisition for all samples, including blank and QC pool sample.
In supplementary files are the study and result files from Compound Discoverer, the metadata table with normalization factor, sample code and condition, and the resulting peak lists after peak deconvolution that were used for annotation (.xls) and for statistical analysis in MetaboAnalyst (.csv)
Project description:Human engineered CRC organoids were equipped with the intestinal stem cell reporter STAR reflecting transcriptional activity of ASCL2. Successfully growing organoids display heterogeneous STAR expression and grow into big structures, while growth-compromised organoids stay small and are either entirely STAR-pos or STAR-neg.