Public Data Sets

Cortecon: RNA-seq data collected during corticogenesis. Browse this data at http://cortecon.neuralsci.org , Citation: CORTECON: A Temporal Transcriptome Analysis of In Vitro Human Cerebral Cortex Development From Human Embryonic Stem Cells. van de Leemput et. al, Neuron (2014), view the paper online at Neuron.

RPE/EMT: Chip-seq Data collected to characterize the epithelial-mesenchymal transition in retinal pigment epithelium. There are four components to this data

• Explore Networks RPE up
  • View Here
  • Download for use in cytoscape [ RPE.up.direct.zip]
• Explore Networks EMT up
  • View Here
  • Download for use in cytoscape [ EMT.RPE.up.network.zip]
• View EMT motifs
  • Novel Motifs – view here
  • Known Motifs – view here
• View RPE motifs
  • Novel Motifs – view here
  • Known Motifs- view here

Glioblastoma Motifs:

• TP53 networks
  • View here
  • Download for use in cytoscape[TP53_Study_Network.zip]
• LFS networks
  • Novel Motifs – view here
  • Known Motifs – view here
• Wild-type
  • Novel Motifs – view here
  • Known Motifs – view here

RPE & Nicotinamide: RNA-seq analysis to examine the global impact of Nicotinamide (NAM) on hiPSC-derived RPE transcriptome in order to better understand the mechanism of action of NAM. NAM inhibited the expression of Age related Macular degeneration (AMD) associated protein transcripts in hiPSC-derived RPE.

• Read the paper: https://doi.org/10.1016/j.stem.2016.12.015
• Download from the Gene Expression Omnibus: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE90889

Aging in the the Subventricular Zone: Expression profiling by high throughput sequencing of RNA extracted from Mouse SVZ, in triplicate, from ages 2, 6, 18 and 22 months.

• Read the paper: https://doi.org/10.1016/j.stemcr.2017.10.005
• Download the data from the Gene Expression Omnibus: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE104651