• Chaste

  • Referenced in 54 articles [sw00122]
  • package that currently has heart and cancer modelling functionality. This software has been written using...
  • mvis

  • Referenced in 11 articles [sw37353]
  • with an example of prognostic modeling in breast cancer...
  • GEMS

  • Referenced in 6 articles [sw36893]
  • success of treatment of patients with cancer depends on establishing an accurate diagnosis. To this ... built a system called GEMS (gene expression model selector) for the automated ... development and evaluation of high-quality cancer diagnostic models and biomarker discovery from microarray gene ... comprehensive evaluation of classification algorithms using 11 cancer microarray datasets. In this paper we present...
  • PyClone

  • Referenced in 11 articles [sw26928]
  • clonal population structure in cancer. We introduce PyClone, a statistical model for inference of clonal...
  • prediction-prostate-surveillance

  • Referenced in 3 articles [sw23312]
  • prostate cancer. In this article, we present a Bayesian hierarchical model for predicting a latent ... irradiate a patient’s prostate cancer. Existing modeling approaches are extended to accommodate measurement error ... proposed model enables estimation of whether an individual’s underlying prostate cancer is aggressive, requiring ... whom true cancer state is observed. Simulation studies confirm model performance and explore the impact...
  • SSS

  • Referenced in 34 articles [sw07794]
  • algorithmic and modeling aspects, priors over the model space that induce sparsity and parsimony over ... discuss an example from gene expression cancer genomics, comparisons with MCMC and other methods ... performance characteristics in large-scale regression model searches. We also provide software implementing the methods...
  • PICNIC

  • Referenced in 6 articles [sw20386]
  • genomes usually associated with inherited disease. However, cancer genomes are aneuploid in nature leading ... preprocessing transformation and hidden Markov model algorithm bespoke to cancer. This produces genotype classification, specification...
  • PanelPRO

  • Referenced in 1 article [sw35767]
  • multi-gene risk modeling for individuals with a family history of cancer. Identifying individuals ... future risk of developing associated cancers. To flexibly model the complexity of many cancer-mutation ... lists of susceptibility genes and associated cancers. The model identifies individuals at an increased risk ... back-end for multi-gene, multi-cancer risk modeling with pedigree data. The software enables...
  • Joinpoint

  • Referenced in 17 articles [sw24594]
  • trends using joinpoint models, that is, models like the figure below where several different lines ... connected together at the ”joinpoints”. Cancer trends reported in NCI publications are calculated using...
  • PLASQ

  • Referenced in 6 articles [sw18746]
  • generalized linear model-based procedure to determine allelic dosage in cancer cells from SNP array ... from each of the parental chromosomes in cancer cells from single-nucleotide polymorphism (SNP) microarray ... approach is based upon a generalized linear model that takes advantage of a novel classification ... purpose. We demonstrate a strong model fit to data from a variety of cell types...
  • caGrid

  • Referenced in 10 articles [sw20965]
  • biomedical informatics grid. MOTIVATION: The complexity of cancer is prompting researchers to find new ways ... need for standard applications, common data models, and software infrastructure to enable more efficient access ... sharing of distributed computational resources in cancer research. To address this need the National Cancer ... initiated a national-scale effort, called the cancer Biomedical Informatics Grid (caBIGtrade mark), to develop...
  • GASTS

  • Referenced in 5 articles [sw29624]
  • Comparative genomics, evolutionary biology, and cancer research all require models and algorithms to elucidate...
  • TRONCO

  • Referenced in 1 article [sw19759]
  • package for the inference of cancer progression models from heterogeneous genomic data. Motivation: We introduce ... algorithms for the inference of cancer progression models from (epi)genomic mutational profiles. TRONCO ... individual-level models that reveal the clonal evolutionary history in single cancer patients, when multiple ... resulting models can provide key hints in uncovering the evolutionary trajectories of cancer, especially...
  • DevCan

  • Referenced in 2 articles [sw13356]
  • Probability of Developing or Dying of Cancer. Statistical models are used to compute the probability...
  • egtplot

  • Referenced in 2 articles [sw28948]
  • particular focus is on the mathematical modeling of cancer and cancer therapies through evolutionary game...
  • HYDRA

  • Referenced in 3 articles [sw10159]
  • simulate from a mixture model drawn from cancer genetics, first using a variable...
  • multistatepdscontrol

  • Referenced in 2 articles [sw31987]
  • happens in cancer. If the network is represented by a mathematical model for which mathematical ... recently developed multistate intracellular model of E2F-mediated bladder cancerous growth and to a model...
  • SVRc

  • Referenced in 5 articles [sw40646]
  • data. The Cox proportional hazards model is the standard tool for the analysis of continuous ... recurrence and disease progression of prostate cancer ... breast cancer and lung cancer. Compared with the traditional Cox model, SVRc achieves significant improvement...
  • BCDForest

  • Referenced in 1 article [sw34147]
  • boosting cascade deep forest model towards the classification of cancer subtypes based on gene expression ... propose a deep learning model, so-called BCDForest, to address cancer subtype classification on small ... cancer subtype classification. Conclusions: The multi-class-grained scanning and boosting strategy in our model ... data. Our model provides a useful approach to the classification of cancer subtypes by using...
  • PSPMCM

  • Referenced in 9 articles [sw27707]
  • proportional hazards mixture cure model. Indications and limitations of the proposed macro are discussed ... example in the field of cancer clinical trials is shown...