URSAHD – Unveiling RNA Sample Annotation for Human Diseases

URSAHD

:: DESCRIPTION

URSA (Unveiling RNA Sample Annotation), originally released in 2013, simultaneously estimated the probabilities that a given sample is associated with a particular tissue or cell-type. Individual cell-type models were constructed from more than ten thousand manually curated samples from GEO and then aggregated using Bayesian Correction. This method has been shown effective for both array-based and sequence-based genome-scale experiments.

::DEVELOPER

Troyanskaya Laboratory

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Lee YS, Krishnan A, Oughtred R, Rust J, Chang CS, Ryu J, Kristensen VN, Dolinski K, Theesfeld CL, Troyanskaya OG.
A Computational Framework for Genome-wide Characterization of the Human Disease Landscape.
Cell Syst. 2019 Feb 27;8(2):152-162.e6. doi: 10.1016/j.cels.2018.12.010. Epub 2019 Jan 23. PMID: 30685436; PMCID: PMC7374759.

EgoNet – Identification of human Disease Ego-network Modules

EgoNet

:: DESCRIPTION

EgoNet is implemented by Python and it is designed to detecting disease related subnetwork from a large biological network (PPI, metabolic network) combined with gene expression data.

::DEVELOPER

Tianwei Yu

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows / MacOsX
  • Python
  • BioPython

:: DOWNLOAD

EgoNet

:: MORE INFORMATION

Citation

BMC Genomics. 2014 Apr 28;15:314. doi: 10.1186/1471-2164-15-314.
EgoNet: identification of human disease ego-network modules.
Yang R, Bai Y, Qin Z, Yu T