Data portals and software

Skin Omics Explorer

Multi-omics portal for photosensitive autoimmunity

An interactive portal for exploring multi-omics datasets across autoimmune skin diseases and UV perturbation models. Browse single-cell RNA-seq, spatial transcriptomics (seqFISH), bulk RNA-seq, and targeted proteomics (OLINK and NULISA) in dermatomyositis, cutaneous lupus erythematosus, psoriasis, and vitiligo, and visualize gene and protein expression across cell types, skin states, and treatments. Plots mirror those in the paper and export to PNG or PDF.

CodeSkinOmicsExplorer · scSpatial · AddOns

Vitiligo single-cell portal

scRNA-seq of lesional and non-lesional vitiligo skin

Single-cell RNA-seq profiles of affected and unaffected skin from vitiligo patients and healthy controls, generated on our in-house inDrop platform. The site hosts a Cellxgene browser over the processed data, plus raw and processed UMI tables, and documents the cell-cell communication analysis that identified disrupted signaling in non-lesional skin and a role for CCR5 in regulatory T cell function.

AlsoCellxgene browser

CodeSignallingSingleCell

DatadbGaP phs002455.v1.p1 (raw FASTQ) · Processed UMI tables

slncky

lncRNA discovery and evolutionary analysis

A tool that filters a high-confidence set of long noncoding RNAs from reconstructed RNA-seq data and finds conserved lncRNAs using a sensitive noncoding alignment method. The companion Evolution Browser hosts alignments and evolutionary metrics for our catalog of conserved lncRNAs, searchable by name or genomic location, with hg38 and mm10 annotations. Developed with the Regev Lab at the Broad Institute.

Alsoslncky Evolution Browser

Codeslncky