• PyNCT

  • Referenced in 3 articles [sw28728]
  • biology. There are no limitations on the size and shape of the cellular tissue...
  • GSAASeqSP

  • Referenced in 1 article [sw25397]
  • determine more robust profiles of significantly altered biological pathways. Using simulations, we demonstrate the ability ... data from diverse tissue samples provide meaningful insights into the biological mechanisms that differentiate these...
  • tyssue

  • Referenced in 1 article [sw38799]
  • implement bio-mechanical models of living tissues. Its main focus is on vertex based epithelium ... equations of motion for the mesh vertices. Biological processes are modeled through changes ... modular library. Starting with the same tissue geometry, the choice of constraints, energy potential terms ... parameters increases the possibility to answer different biological questions and easily explore mechanical hypotheses...
  • CellMix

  • Referenced in 1 article [sw40221]
  • from heterogeneous biological samples that are composed of multiple cell or tissue types, in varying ... more detailed analysis of the underlying biological processes at the cell-type level. To facilitate...
  • PlantGL

  • Referenced in 2 articles [sw23586]
  • interactive platform for plant modeling in various biological application domains. PlantGL makes it possible ... plants or plant parts, ranging from tissues and organs to plant populations. Based...
  • VCNet

  • Referenced in 1 article [sw40330]
  • tissue, and the results show that the GCNs constructed by VCNet contain more biologically meaningful...
  • SpinCouple

  • Referenced in 1 article [sw40764]
  • biological extracts, obtained from animal gut and waste treatment microbiota, fish, and plant tissues. This...
  • CodonO

  • Referenced in 2 articles [sw17252]
  • codon usage bias was associated with many biological processes, such as protein expression level, genetic ... tRNA richness, CpG suppression, DNA methylation, and tissue or organ specificity. We reviewed major methods...
  • Seeder

  • Referenced in 2 articles [sw35336]
  • eukaryotic promoters. The algorithm is tested on biological benchmark data and shown to perform equally ... applied to the analysis of plant tissue-specific promoter sequences and successfully identifies key regulatory...
  • SpaCEM3

  • Referenced in 1 article [sw20896]
  • applications range from image segmentation (e.g. tissue detection in MRI, retrieval of planet surface properties ... hyperspectral satellite images...) to gene clustering (e.g. biological module detection), remote sensing and mapping epidemics...
  • MSEA

  • Referenced in 2 articles [sw16938]
  • mammalian metabolite concentration changes in a biologically meaningful context. Key to the development of MSEA ... various metabolic pathways, disease states, biofluids, and tissue locations. MSEA also supports user-defined...
  • sigora

  • Referenced in 0 articles [sw15595]
  • level to biological processes or pathways on the systems (organism, organ, tissue, cell) level. Traditionally...
  • KEGGanim

  • Referenced in 2 articles [sw20146]
  • visualizing experimental data in the context of biological pathways. KEGGanim produces animations or static images ... changes over experimental conditions (time, treatment, dosage, tissue, disease) and allows the user to observe...
  • GOurmet

  • Referenced in 2 articles [sw30042]
  • expression profiles (EPs) from specified cells and tissues under a variety of experimental conditions ... genes in an EP to identify specific biological functions or processes that are over ... examine EPs of specified cell types (e.g., tissue-specific stem cells) that are obtained through...
  • DVHmetrics

  • Referenced in 0 articles [sw16149]
  • gEUD), biologically effective dose (BED), equivalent dose in 2 Gy fractions (EQD2), normal tissue complication...
  • Microscope

  • Referenced in 1 article [sw41414]
  • instrumental in the visual examination of both biological and physical samples at sub-millimeter scales ... histopathology, where the microscopic assessment of the tissue samples is used for the diagnosis...
  • ARSyN

  • Referenced in 2 articles [sw09280]
  • identification of responsive genes in specific biological conditions are commonly set up under defined experimental ... dosage and the other qualitative, as tissue, strain, or treatment. However, the method ... with appropriate statistical techniques to obtain the biological information required. To evaluate the performance...
  • Arrow plot

  • Referenced in 1 article [sw30012]
  • expressed across two (or more) kind of tissue samples or samples submitted under experimental conditions ... between classes. It is well known that biological samples are heterogeneous because of factors such...
  • Beatbox

  • Referenced in 1 article [sw15300]
  • Beatbox - a computer simulation environment for computational biology of the heart. Despite over a century ... development of fibrillation in samples of cardiac tissue, not to mention the heart in vivo ... timely running of computational models of cardiac tissue is increasingly dependant on the effective ... Beatbox, a computer simulation environment for computational biology of the heart—an adaptable and extensible...
  • Pomelo II

  • Referenced in 3 articles [sw35617]
  • analysis of gene (and protein) expression and tissue array data. Pomelo II implements: permutation-based ... Access to, and further analysis of, additional biological information and annotations (PubMed references, Gene Ontology...