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TranscriptomicsTranscriptome conservation of the D. discoideum and D. purpureum developmental programs revealed through RNA-sequencing
Cross species comparison of genomes and transcriptomes is a powerful tool for understanding underlying biological processes, accurate functional classification of genes, and discovery of novel elements. The shift to next-generation sequencing platforms has tremendously accelerated the analysis of ge...
ORGANISM(S): Dictyostelium purpureum 
2010-03-12 | E-GEOD-17637 | biostudies-arrayexpress
TranscriptomicsTranscripts regulated by elevated DKF-2 (WT background)
Transcriptional profiling was used to determine why DKF-2 (protein kinase D) deficiency and surfeit caused hypersensitivity and resistance, respectively, to a bacterial pathogen (P. aeruginosa 14). The studies show that DKF-2 contributes to C. elegans innate immunity by inducing expression of >75 ge...
ORGANISM(S): Caenorhabditis elegans 
2009-01-12 | E-GEOD-12456 | biostudies-arrayexpress
UnknownThe Association between Serum Vitamin D Levels and Urinary Tract Infection Risk in Children: A Systematic Review and Meta-Analysis.
Not available
S-EPMC10305600 | biostudies-literature
ProteomicsSynthetically primed adaptation of Pseudomonas putida to a non-native substrate D-xylose
To broaden microbial cell factories´ substrate scope towards renewable substrates, rational genetic interventions are often combined with adaptive laboratory evolution (ALE). However, comprehensive studies enabling a holistic understanding of adaptation processes primed by detailed knowledge of meta...
ORGANISM(S): Pseudomonas putida KT2440 
2024-03-06 | PXD047537 | Pride
Pseudomonas putida Lc-ms/ms 
OtherQuantitative phosphoproteomics of cytotoxic T cells to reveal Protein Kinase D 2 regulated networks.
Data from ProteomeXchange, PXD ID: PXD001076. Experiment: JG-N2, file: JG-N2-12.mzml. Published as part of Mol Cell Proteomics. 2014 Sep 29 . From the Abstract: {{i}} ... We used Stable Isotope of Amino acids in Culture (SILAC) combined with phosphopeptide enrichment and quantitative mass-spectrome...
ORGANISM(S): Mus_musculus_viruses, Mouse 
GPM32320004050 | GPMDB
Resource Reanalysis 
TranscriptomicsCharacterization of Drosophila mitochondrial transcripts through high throughput EST data
We used high throughput EST sequences to characterize and generate expression profiles for all transcripts encoded in the mitochondrial genome of D. melanogaster and D. pseudoobscura. Mapping of ESTs confirmed previously predicted transcripts and revealed non-canonical transcript structures. Express...
ORGANISM(S): Drosophila pseudoobscura 
2009-12-09 | E-GEOD-16651 | biostudies-arrayexpress
TranscriptomicsBinding in wild type, D and SoxN mutant embryos: SoxN vs D.
Genome-wide binding of transcription factors SoxN and D in stage 12-17 wild type embryos (SoxNDam and DDam), of SoxN in D mutants (D-SoxNDam) and of D in SoxN mutants (SoxN-DDam). Four DamID experiments. Three biological replicates per experiment. Two conditions: Dam (control) vs SoxNDam or DDam or ...
ORGANISM(S): Drosophila melanogaster 
2014-04-23 | E-GEOD-47228 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of yeast using samples prepared with actinomycin D to exclude antisense artifacts
Recent transcription profiling studies have revealed an unanticipatedly large proportion of antisense transcription across eukaryotic and bacterial genomes. However, the extent and significance of antisense transcripts is controversial partly because experimental artifacts are suspected. Here, we pr...
ORGANISM(S): Saccharomyces cerevisiae 
2007-10-30 | E-TABM-361 | biostudies-arrayexpress
TranscriptomicsRNA-seq analysis in Cornea epithelial cells (CECs), skin epithelial cells (SECs), LSCs after knocking down PAX6 (3-D shPAX6 LSCs) and SESCs transduced with PAX6(3-D PAX6+ SESCs) upon 3-D differentiation
Purpose: We find that Wnt7a-PAX6 axis determine corneal epithelial cell fate. To obtain global evidence for successful cell fate conversion, we performed gene expression profiling by RNA-seq on CECs, SECs, and LSCs after knocking down PAX6 and on SESCs transduced with PAX6 upon 3-D differentiation. ...
ORGANISM(S): Homo sapiens 
2014-07-11 | E-GEOD-54322 | biostudies-arrayexpress
TranscriptomicsHigh throughput sequencing of immunoglobulin (Ig) heavy (IgH) and light (IgL) chain repertoires
We used 454 sequencing to assess the repertoire of B cell subsets from bone marrow, spleen, and small intestinal lamina propria from two mouse strains. We used a RAG2-GFP reporter mouse strain (129Sve background) to isolate CD19+ RAG2+ B lineage cells from bone marrow and small intestinal lamina pro...
ORGANISM(S): Mus musculus 
2013-07-16 | E-GEOD-48870 | biostudies-arrayexpress
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