mutation-rate

There are 0 repository under mutation-rate topic.

• CaiLiLab / MuRaL

  MuRaL is a deep learning framework for estimating single-nucleotide mutation rates across the genome.

  deep-learningmachine-learningcomputational-biologygenomicsmutation-rate
  Language:Python 15

• j3551ca / BEAST-FLOW

  Nextflow pipeline for estimation of evolutionary rate using Bayesian statistics.

  molecular-clockbeast2bayesianmicrobial-genomicsmutation-ratemolecular-evolutionnextflow
  Language:Nextflow 2

• 0-Ioniel-0 / guppy_MR

  Repository for scripts used to estimate guppy (Poecilia reticulata) mutation rate.

  bambcftoolsdenovogatk4gvcfmutation-ratepythonsamtoolsvcf
  Language:Python 0

• rcs333 / frequency-scanner

  Reports frequency of all single nucleotide changes for a group of fastq files

  fastq-anaysismetagenomicsmutation-analysismutation-ratenext-generation-sequencingtransitionstransversions
  Language:Python 0

• tairsha / taxa-specific-substitution-matrix

  Algorithms for the generation of substitution matrices from intra-taxa variation data. Implemented and published on human genetic variation data.

  biologysubstitution-modelsamino-acidsproteomicsgenomicsbioinformaticsbioinformatics-toolbioinformatics-pipelinebioinformatics-algorithmspost-translational-modificationphosphorylationmutation-ratemutational-signatures
  Language:Jupyter Notebook 0

• vmsatya / ConcurrentTherapySecondCancer

  A biologically motivated mathematical formalism is used to estimate the relative risks of breast, lung and thyroid cancers in childhood cancer survivors due to concurrent therapy regimen. This model specifically includes possible organ-specific interaction between radiotherapy and chemotherapy. The model predicts relative risks for developing secondary cancers after chemotherapy in breast, lung and thyroid tissues, and compared with the epidemiological data.

  chemo-radiationchemotherapychildhood-cancer-survivors-studyconcurrent-therapymutation-rateradiotherapyrelative-risksecond-cancertreatment-effectstreatment-interaction
  Language:Matlab 0

• vmsatya / SequentialTherapySecondCancer

  We employed a biologically motivated mathematical model to estimate the radiation and chemotherapy-induced relative risks of thyroid malignancies in four childhood cancer study survivors (CCSS) data sets. the predictions of radiation and chemotherapy-induced relative risks of secondary thyroid malignancies using the mathematical model are compared against four clinical datasets from the CCSS cohort. Moreover, the extracted average value of growth rate of premalignant cells is 0.8175 (per day) and the extracted chemo-induced mutation rate is of the order of 10(−10) (per unit of chemotherapeutic dose).

  chemotherapymutation-rateradiationradiation-therapyrelative-risksecond-cancerthyroid-malignancies
  Language:Matlab