MSIPep prioritizes tumor peptides in leukemia and solid-tumor datasets
MSIPep combines immunopeptidomics, transcriptomics and deep learning to identify and computationally prioritize candidate tumor peptides in leukemia and solid-tumor datasets.
Tag: Transcriptomics
Gene architecture predicts isoform diversity across four genomes
Longer introns, shorter exons and more complex gene organization were consistently associated with higher transcript-isoform diversity in humans, mice, flies ...
Network and cell study links carboplatin to four melanoma targets
Network analysis and B16F0 cell experiments linked carboplatin with CDKN1A, BRCA1, PTEN and AKT1 in melanoma, without establishing clinical benefit.
Genomic and transcriptomic study links A. oryzae to multiple A. flavus domestication events
A genomic and transcriptomic study found that A. oryzae overlaps with two A. flavus populations, suggesting multiple domestication events, alongside ...
Experimental multi-omics study links low-phosphorus tolerance in TY2 oat to coordinated metabolic responses
A two-cultivar experimental study associated low-phosphorus tolerance in TY2 oat with greater growth stability, broader detected phosphate-starvation gene responses and ...
SERPINB5 promotes pancreatic adenocarcinoma progression through FBXO32-mediated regulation of epithelial-mesenchymal transition
Transcriptomic and pancreatic adenocarcinoma cell-model analyses linked SERPINB5 to malignant cell phenotypes through FBXO32-associated regulation of epithelial–mesenchymal transition.
Polystyrene microplastics with molybdenum improved wheat seed germination in an experimental study
An experimental wheat study reported that combined polystyrene microplastics and molybdenum VI oxide improved measured seed-germination outcomes, while metabolomic and ...
StrokeTime maps cellular responses across the mouse brain’s stroke timeline
StrokeTime integrates 414,359 single-cell transcriptomes from mouse ischemic-stroke studies to trace immune, vascular, glial and neuronal changes from hyperacute injury ...
Rice PML3 knockout study links Golgi manganese disruption to changes in young tissues
A rice knockout study comparing wild-type plants with pml3 lines found associated changes in gene expression, leaf sugar composition and ...
Amomum tsao-ko study maps 183 alkaloids and candidate molecular targets
A multi-omics study identified 183 alkaloids in Amomum tsao-ko fruits and generated predictions about candidate genes, signaling pathways, and protein ...
Mechanical overload elicits weaker transcript isoform switching in aged mouse muscle
Mouse muscle subjected to mechanical overload showed extensive transcript isoform switching in adulthood, but the early response was attenuated in ...
RNA network maps fungal spore-to-hypha transition
A multi-RNA analysis of Trichophyton mentagrophytes identifies coordinated regulation of cell-wall remodeling, metabolism, cell division and morphogenesis during the transition ...
AI Maps Cell-State Gene Networks in Cancer, but Causation Still Requires Experiments
A mini-review finds that AI-assisted reconstruction of cell-state-specific gene regulatory networks can illuminate tumor plasticity and drug resistance, but experimental ...
sncRNA signatures underlying HIV-1 restriction in elite controllers
A comparative CD4+ T-cell study linked elite control of HIV-1 to reduced miR-99b-5p and miR-125a-5p, whose inhibition modestly reduced viral ...
Beneficial Bacterium Rewrites Sweet Orange Gene Expression to Fight Anthracnose
Researchers identified the transcription factor CsWRKY40 as a candidate regulator linked to Bacillus subtilis-mediated reduction of anthracnose symptoms in sweet ...
AI Reads Tumor Slides and Genes Together to Flag Hidden Risk in Early-Stage Endometrial Cancer
A new interpretable AI model called PRISM combines pathology slides with transcriptomic pathway data to sharpen progression-risk prediction in early-stage ...
CRISPR Editing Route, Not Just Target Genes, Reshapes CHO Cell Lines
A systematic comparison shows that sequential and multiplex CRISPR/Cas9 workflows produce CHO cell lines with the same nine hydrolase knockouts ...
Genes and Chemistry Together Reveal Why One Chinese Sage Variety Builds Superior Medicine
An integrated transcriptome and metabolome study of Salvia miltiorrhiza identifies Jidan No.4 as a standout germplasm and links tanshinone accumulation ...
Soil bacterium wields two-pronged attack to disarm devastating sunflower pathogen
A newly characterized Bacillus velezensis strain fights sunflower sclerotiniose by damaging the fungal pathogen with heat-stable lipopeptides while simultaneously priming ...
Dandelion Rubber Genes Uncovered in Dual Omics Map of Taraxacum kok-saghyz
A dual transcriptomic and proteomic survey of Taraxacum kok-saghyz identifies a latex-centered regulatory module of SRPP, REF, and transcription factor ...
