Notes & Essays

Blog

Writing on genomics, data science, and the craft of building medicines.

Jan 23, 2020 Novel 2019 coronavirus genome in Wuhan, China and USA
Jan 20, 2020 Robust Region-Based Rare-Variant Test to UKBB-Seq Data
Nov 8, 2019 Genome-wide DNA methylation to human atrial fibrillation
Oct 30, 2019 Genome-wide bisulfite sequencing to human tissue samples
Oct 28, 2019 Epigenome Research to Human Cancers with WGBS
Oct 28, 2019 Genomics, Environment Interaction, Epigenetics and Aging
Oct 26, 2019 Population Genetics in East Asian and Allele Frequency
Oct 24, 2019 Genetic and Epigenetic based Intra-Tumor Heterogeneity
Oct 12, 2019 Electronic health/medical records (EHR/EMR) data analysis
Oct 8, 2019 US-FDA Artificial Intelligence and Machine Learning Discussion
Oct 7, 2019 Artificial intelligence in risk prediction and diseases diagnosis
Oct 1, 2019 How to design and conduct a biomedical research in MCRI
Aug 19, 2019 Genome-wide cell-free DNA fragmentation in patients with cancer
Aug 1, 2019 (5R)-5-Hydroxytriptolide and Epigenetics of Rheumatoid Arthritis
Jul 9, 2019 How to generate dbSNP153(hg19) from dbSNP153(hg38,GRCH38)
Feb 28, 2019 Recessive Diplotype Identify Novel Hemochromatosis Gene
Oct 1, 2018 Next generation protocol to bcftools in medical genetics research
Feb 27, 2018 How to prepare a computational biology work station in MCRI
Oct 11, 2017 How to apply deeptools for Medip-seq and MBD-seq analysis
Sep 30, 2017 Genome-wide multiple bedgraph data analysis with Intervene
Aug 1, 2017 How to update hapmap2 and hapmap3 from hg18 to hg19 or hg38
Jun 28, 2017 Characterizing population with principle componment analysis
Jun 13, 2017 Data Science in Population Genetics and Medical Genetics
Jun 10, 2017 Geneics and epigeneitcs of rheumatoid arthritis and osteoarthritis
Jun 9, 2017 Genetics and epigenetics of pancreatic and cholangiocarcinoma
May 28, 2017 Genetic and epigenetic of esophageal squamous cell carcinoma
May 2, 2017 Advances in Genetic and epigenetic of Hepatocellular Carcinoma
May 1, 2017 How to apply R to prepare fancy figures in the manuscript
Apr 23, 2017 Explaining complex machine learning models with LIME
Apr 9, 2017 How to apply R for Plotting 3D maps and location tracks
Apr 3, 2017 Science Writing: Guidelines And Guidance in Medical Research
Apr 2, 2017 Dealing with unbalanced data in machine learning
Mar 31, 2017 Building meaningful machine learning models for disease prediction
Mar 16, 2017 Plotting trees from Random Forest models with ggraph
Mar 7, 2017 Hyper-parameter Tuning with Grid Search for Deep Learning
Feb 27, 2017 Building deep neural nets with h2o and rsparkling that predict arrhythmia of the heart
Feb 19, 2017 Predicting food preferences with sparklyr (machine learning)
Feb 12, 2017 Conditional ggplot2 geoms in functions (QTL plots)
Feb 6, 2017 Scratching the Surface of Gender Biases
Jan 30, 2017 New features in World Gender Statistics app
Jan 29, 2017 Exploring World Gender Statistics with Shiny
Jan 22, 2017 R vs Python - a One-on-One Comparison
Jan 15, 2017 Feature Selection in Machine Learning (Breast Cancer Datasets)
Jan 5, 2017 Gene homology Part 3 - Visualizing Gene Ontology of Conserved Genes
Dec 30, 2016 How to map your Google location history with R
Dec 22, 2016 Animating Plots of Beer Ingredients and Sin Taxes over Time
Dec 18, 2016 How to build a Shiny app for disease- & trait-associated locations of the human genome
Dec 14, 2016 Gene homology Part 2 - creating directed networks with igraph
Dec 11, 2016 Creating a network of human gene homology with R and D3
Dec 4, 2016 How to set up your own R blog with Github pages and Jekyll Bootstrap
Dec 2, 2016 Extreme Gradient Boosting and Preprocessing in Machine Learning - Addendum to predicting flu outcome with R
Nov 27, 2016 Can we predict flu deaths with Machine Learning and R?
Nov 20, 2016 Analysing the Gilmore Girls' coffee addiction with R
Nov 13, 2016 Creating a Gilmore Girls character network with R
Nov 6, 2016 Is 'Yeah' Josh and Chuck's favorite word?
Nov 1, 2016 Exploring the human genome (Part 2) - Transcripts
Oct 23, 2016 Exploring the human genome - Gene Annotations
Oct 16, 2016 USA/ Canada Roadtrip 2016
Sep 29, 2016 DESeq2 Course Work
Sep 28, 2016 exprAnalysis package
Jan 8, 1945 Gene ID Transfer with R between Symbol, Gene ID and KEGG ID
Jan 8, 1944 Human Population Genetics and related data operation
Jan 8, 1943 How to set up github and use it to accelerate your research
Jan 8, 1942 Environment Setting in All My Previous Working Station
Jan 8, 1941 How to Install HTseq in Linux and STAR for RNA-seq
Jan 8, 1940 How to apply MACS2 to identify methylation peaks with MBD-seq
Jan 8, 1939 DNA methylation and Epigenetic research in Human Population
Feb 28, 1938 Multi-Omics of Characterization of the Cancer Cell Line Encyclopedia
Feb 28, 1937 Dac Demethylation
Feb 28, 1936 Riblast_ncrna_target
Feb 28, 1934 Most Important Database for Human Biomedical Research
Feb 28, 1933 How to get genomic coordinates for all protein domains
Feb 28, 1931 How to Understand Human Cancer
Feb 28, 1930 How to Submit NGS Seqeuencing data to SRA
Feb 28, 1929 Resources for flow cytometry bioinformatics analysis
Feb 28, 1928 How to use plink1.9/plink2 to do human genetics research
Feb 28, 1928 RNA-seq data to reveal novel response mechanism to bacterial
Feb 28, 1928 RNA-seq data with metaphlan2 to reveal novel response mechanism to bacterial
Feb 28, 1926 EAS and SAS data in GenomeAsia100K panel
Feb 28, 1925 Genomics, Genomics and Related Disciplines
Feb 28, 1924 How to reformat GeneSky GSA report to Plink
Feb 28, 1923 How to merge 7000 VCF files with bcftools merge?
Feb 28, 1922 Automatic GWAS and Post-GWAS Analysis Pipeline
Feb 28, 1921 How to install ANNOVAR in DeepThought@UW-Madison
Feb 28, 1920 How to Prepare Annotation DB Folder for Bioinformatics Analysis
Feb 28, 1919 How to Prepare China and USA Map with R
Feb 28, 1918 FDA and drug development pipeline
Feb 28, 1917 How to Install Ensembl Variant Effect Predictor
Feb 28, 1916 FDA approved drugs and the mechanism
Feb 28, 1915 Bioinformatics Skills Required