Single cell tools

Data Sets

Broad SCPortal: gen. repository

Azimuth: Hubmap reference

Dropviz: Mccarroll Mouse Brain

Tabula Muris: Whole Mouse

celltypes.org: curated data sets

Drop-seq

Software

Seurat: Satija SC workhorse

Cellbender: Remov. ambientRNA

CELLECT: etiologic cell-types underlying complex traits

wgcna toolkit: WGCNA for SC
 

Genome tools

 

WashU EpiGenome Browser

UCSC Genome Browser

Roadmap Epigenomics

GTEX Portal: Gene-Tissue Expr..

Type 2 Diabetes Portal

Morpheus: Manipulate matrix data without coding

GoProfiler: Pathway Analysis

Lisa: Cistrome Analysis (X Liu)

Open Targets Genetics: SNP-gene-phenotype assoc.

Collaborators

 

Evan Rosen, BIDMC Endocrine

Brad Lowell, BIDMC Endocrine

John Campbell, UVA Biology

Steve McCarroll, HMS Genetics

Tune Pers, Univ. of Copenhagen

Mark Zeidel, BIDMC Renal