Table 5 Topics found by GeneTopics for mouse cardiac tissue gene expression data.
From: GeneTopics - interpretation of gene sets via literature-driven topic models
Topic | topic words | Common Theme(s) |
|---|---|---|
Topic 8 | cancer, tumor, expressed, breast, carcinomas, prostate, cells, invasion, gastric, tissues, patients, tumour, metastasis, lung, p, malignant, normal, colorectal, lines, correlating | Carcinogenesis |
Topic 4 | rat, after, increase, p, effect, heart, groups, days, cardiac, h, receptor, mice, mrna, injury, injection, levels, 1, induced, treatment, lung | Treatment induced cardiac injury |
Topic 9 | insulin, muscle, glucose, diabetes, skeletal, metabolism, mice, adipocytes, obese, adipose, acid, increase, fatty, expressed, lipid, islets, fat, mitochondrial, glycogen, rat | Muscle glucose/lipid metabolism |
Topic 17 | kinases, activation, phosphorylation, signaling, receptor, pathway, tyrosine, inhibition, cells, regulated, induced, transcript, nfkappab, protein, factor, inhibitor, promotes, bind, growth, stimulated | Kinase/phosphorylation signaling |
Topic 14 | polymorphisms, associated, genotyping, allele, risk, genes, variants, p, genetic, patients, populations, snps, disease, 95, haplotypes, susceptibility, frequency, ci, schizophrenia, subjects | Genetic effects |
Topic 7 | oxidation, activation, liver, enzyme, glutathione, metabolism, cytochromes, copper, oxidase, antioxidant, microsomal, rat, ho1, p450, stress, oxygenation, heme, species, cysteine, ros | Oxidative stress |
Topic 12 | matrix, cells, collagen, bone, expressed, tgfbeta, cartilage, extracellular, growth, tissues, metalloproteinases, vascular, chondrocytes, fibroblasts, tgfbeta1, cultures, endothelial, mmp2, fibronectin, osteoblasts | Tissue remodelling |
Topic 5 | structural, bind, residue, domain, enzyme, peptide, activation, substrates, site, complex, form, interacts, purified, protein, affinity, crystal, acid, kda, amino, catalytic | Amino acid, peptide and protein metabolism |
Topic | topic words | Common Theme(s) |
Topic 7 | liver, increased, mice, rat, oxide, levels, insulin, metabolism, p, day, glucose, mrna, plasma, after, acid, mitochondrial, effects, transported, hepatitis, diet | Glucose/energy metabolism |
Topic 13 | cells, apoptosis, activity, kinase, phosphorylation, inhibition, cyclin, expression, growth, induced, signal, regulation, inhibitors, pathway, proliferation, p53, proteins, death, increased, genes | Cell cycle/growth and proliferation |
Topic 3 | transcripts, binding, genes, factors, proteins, splicing, promoter, rna, interaction, regulation, nuclear, element, repress, domain, translation, activity, complex, mrna, site, histones | Gene and protein regulation processes |
Topic 12 | muscle, expression, endothelial, cardiac, collagene, cells, heart, vascular, mice, matrix, skeletal, tissues, bone, smooth, vessels, vegf, rat, hypertrophied, decorin, increased | Muscular (skeletal or cardiac) and blood vessel changes |
Topic 6 | genes, sequence, expression, encoding, cloning, cdna, chromosome, human, region, proteins, transcripts, genomic, mouse, amino, homolog, acid, strains, conserved, exons, plants | Very generic gene, sequence, expression... |
Topic 4 | proteins, domain, membrane, interaction, binding, complex, actin, cells, golgi, signal, regulation, ubiquitin, transported, localization, mitochondrial, vesicle, function, gtpase, required, trafficking | Cytoskeleton and cellular organelles |