nyuhuyang
Single-cell bioinformatics analyst at the Weill Cornell Medicine with the @ElementoLab
Weill Cornell Medicine1305 York Avenue, Room 1313Y, New York, NY 10021
Pinned Repositories
RNAseq_pipeline
Pipeline of somatic variant analysis using Waldenstrom macroglobulinemia patient’s RNA-seq data, including tools like STAR, HTseq, VarScan in parallel computing in SGE clusters, Deseq2 and GSEA in R
scRNAseq-BladderCancer
Collaboration with David Mulholland at Mount Sinai for invasive Bladder Cancer
scRNAseq-GBM
scRNAseq-Ibrutinib
scRNAseq-Immunosurveillance
This code developed for the study of "Immunosurveillance of HR+ breast cancer - Prophylactic and therapeutic effects of nicotinamide"
scRNAseq-LungCancer
single cell RNA-Seq analysis of human lung cancer. Data from Vivek Mittal <vim2010@med.cornell.edu> and postdoc Sharrell B. Lee <sbl2002@med.cornell.edu>
scRNAseq-MouseAgedEyes
single cell RNA sequencing for aged mouse choroid
scRNAseq-MouseEyes
single cell RNA sequencing for mouse choroid
scRNAseq-MouseSkinEpithelia
Developed scripts for single-cell RNA-seq study in Yejing Ge et al, The aging skin microenvironment dictates stem cell behavior. PNAS (2020). It focuses on comparing Young vs. Aged mouse skin epithelium with single-cell RNA-seq.
scRNAseq-SSCs
Identified novel mouse spermatogenesis biomarkers based on single-cell RNA sequencing data
nyuhuyang's Repositories
nyuhuyang/scRNAseq-MouseEyes
single cell RNA sequencing for mouse choroid
nyuhuyang/scRNAseq-MouseAgedEyes
single cell RNA sequencing for aged mouse choroid
nyuhuyang/scRNAseq-MouseSkinEpithelia
Developed scripts for single-cell RNA-seq study in Yejing Ge et al, The aging skin microenvironment dictates stem cell behavior. PNAS (2020). It focuses on comparing Young vs. Aged mouse skin epithelium with single-cell RNA-seq.
nyuhuyang/20180412_mouse_eyes
scRNAseq-MouseEyes practics
nyuhuyang/CS-7642-RL-HW1
nyuhuyang/Single_cell_RNA-seq
Script for Analysis of single cell RNA-seq data
nyuhuyang/scRNAseq-Immunosurveillance
This code developed for the study of "Immunosurveillance of HR+ breast cancer - Prophylactic and therapeutic effects of nicotinamide"
nyuhuyang/Bagnoli_2017
Code for analysis of single-cell RNA-seq data of Bagnoli et al., 2017
nyuhuyang/Comparison-of-the-Transcriptional-Profiles
Analyze microarray data for stem cells
nyuhuyang/GSEApy
Gene Set Enrichment Analysis in Python
nyuhuyang/ImmuneResistance
This resource provides the code developed in the study of Jerby-Arnon _et al. "Single-cell RNA-seq of melanoma ecosystems reveals sources of T cell exclusion linked to immunotherapy clinical outcomes".
nyuhuyang/jdf
Joyner Document Format official
nyuhuyang/lol
package for dimensionality reduction under supervised data scenarios
nyuhuyang/PythonDataScienceHandbook
Jupyter Notebooks for the Python Data Science Handbook
nyuhuyang/Reinforcement-learning-with-tensorflow
Simple Reinforcement learning tutorials
nyuhuyang/rnaseq_tutorial
Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines for RNA-seq analysis including an introduction to: cloud computing, critical file formats, reference genomes, gene annotation, expression, differential expression, alternative splicing, data visualization, and interpretation.
nyuhuyang/scRNAseq-adiposeTissue
Single-cell analysis of human adipose tissue
nyuhuyang/scRNAseq-ColorectalOrganoid
Collaborate with Lukas Edward Dow (lud2005@med.cornell.edu) for Coloractoral cancer Orgnoid research
nyuhuyang/scRNAseq-Glioblastoma-timecourse
single cell RNA-seq analysis of glioblastoma time course data from Howard Alan Fine (haf9016@med.cornell.edu) and Richa Singhania (ris2020@med.cornell.edu)
nyuhuyang/scRNAseq-Glioma
single cell RNA seq analysis for Glioma
nyuhuyang/scRNAseq-Lymphoma
nyuhuyang/scRNAseq-Lymphoma_EC
Collaboration with Giorgio Ga. Inghirami at Weill Cornell Medicine for Lymphoma EC co-culture
nyuhuyang/scRNAseq-LynchSyndrome
nyuhuyang/scRNAseq-Malaria
Codes associated with the Poran, Nötzel et al. paper titled "Single-cell RNA-seq reveals a signature of sexual commitment in malaria parasites".
nyuhuyang/scRNAseq-Pancreatic.Islets
Collaboration with Timothy E. McGraw at Weill Cornell Medicine for Pancreatic Islets
nyuhuyang/scRNAseq-Thymus
nyuhuyang/scRNAseq-TNBC
nyuhuyang/scRNAseq-zebrafishEC
single cell RNA-Seq analysis of zebrafish endothelial cells. Data from Todd R. Evans lab (tre2003@med.cornell.edu) and postdoc Yahui Lan (yal2011@med.cornell.edu)
nyuhuyang/seurat
R toolkit for single cell genomics
nyuhuyang/SingleR
SingleR: Single-cell RNA-seq cell types Recognition