Jin005

machine-learning-for-healthcare

evolutionary-dynamics-to-treatment-of-mCRPC

18S191

Course 18.S191 at MIT, fall 2020 - Introduction to computational thinking with Julia:

3D-Eden-Model

Codes for simulating the Eden model in 3D

3Dtumorsimulator

simulated the spatiotemporal dynamics of a multicellular tumor using a three-dimensional (3D) agent-based model, in which the cells in the tumor are represented as interacting objects. In this model, the cells grow stochastically as a function of time and divide upon reaching a critical size. The cell-to-cell interaction is characterized by direct elastic and adhesive forces. We also consider cell-to-cell and cell-to-matrix damping as a way of accounting for the effects of friction experienced by a moving cell because of other cells and by the extracellular matrix (ECM) (or collagen matrix), respectively. Each cell is modeled as a deformable sphere with a time-dependent radius. Several physical properties, such as the radius, elastic modulus, membrane receptor and ligand concentration, and adhesive interaction, characterize each cell.

Agent-Based-Modeling

DynamicModeling

These are MATLAB code I wrote while having Coursera Course Dynamic Modeling Methods for System Biology

Learning-javascript-css-html5-via-Web-Development

Programming-by-MATLAB

I recreated code following the instruction in book '' Programming for Computations - MATLAB/Octave A Gentle Introduction to Numerical Simulations with MATLAB/Octave''.

aws-machine-learning-university-accelerated-cv

aws-machine-learning-university-accelerated-tab

breast_cancer_classifier

Deep Neural Networks Improve Radiologists' Performance in Breast Cancer Screening

bumpy

Quick tutorial of scientific computing with Python using a real physics application.

cancer_modeling

Modeling signaling networks in cancer

colon_cancer_parameter_estimation_sensitivity_analysis

Codes for parameter estimation and sensitivity analysis of QSP models for colon cancer. This is a part of the National Cancer Institute funded project titled "Data-driven QSP software for personalized colon cancer treatment" Achyuth Manoj, Susanth Kakarla, Suvra Pal and Souvik Roy.

covid19-immune-model

QSP model of immune response to COVID19

covid19-qsp-model

Open Source QSP model describing SARS-CoV-2 virus and host cell life cycles, immune response and therapeutic treatments

deep-learning

Repo for the Deep Learning Nanodegree Foundations program.

dnds-clonesize

Snakemake pipeline to produce figures for "Measuring the distribution of fitness effects in somatic evolution by combining clonal dynamics with dN/dS ratios"

HGSOC_TME_Heterogeneity

Analysis of treatment naive and neo-adjuvant chemotherapy treated high-grade serous ovarian cancer samples

jinwang.github.io

Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes

ModSimPy

Text and supporting code for Modeling and Simulation in Python

mrgsolve

Simulate from ODE-based population PK/PD and QSP models in R

Optimal-Control-to-Reach-Eco-Evolutionary-Stability-in-mCRPC

PhysicalModelingInMatlab

Text and code for Physical Modeling in MATLAB

QSP-Mod-SHR

qspio

MATLAB SimBiology-Based Platform for QSP Immune Oncology Models

scgenome

simulation-with-Python

Wang_et_al_2020

This repository provides the MATLAB scripts for our quantitative systems pharmacology model published in Front. Bioeng. Biotechnol., where we conduct an in silico clinical trial in breast cancer using anti-PD-1, anti-CTLA-4 antibody and an epigenetic modulator.