Synthetic datasets for SimiC

Name: Synthetic datasets for SimiC
License: https://creativecommons.org/publicdomain/zero/1.0/
Keywords: Numpy array, GRNs, Pandas DataFrame

Jianhao, Peng; Idoia, Ochoa

doi:10.13012/B2IDB-4996748_V1

Illinois Data Bank - Dataset

Synthetic datasets for SimiC

Cite this dataset:

Jianhao, Peng; Idoia, Ochoa (2021): Synthetic datasets for SimiC . University of Illinois at Urbana-Champaign. https://doi.org/10.13012/B2IDB-4996748_V1

Use this persistent URL to link to this dataset:


Dataset Description	This is the 5 states 5000 cells synthetic expression file we used for validation of SimiC, a single cell gene regulatory network inference method with similarity constraints. Ground truth GRNs are stored in Numpy array format, and expression profiles of all states combined are stored in Pandas DataFrame in format of Pickle files.
Subject	Life Sciences
Keywords	Numpy array; GRNs; Pandas DataFrame;
License	CC0
Corresponding Creator	Ochoa Idoia
Downloaded	217 times
Related Materials (3) Code https://github.com/jianhao2016/simicLASSO_git Article Jianhao Peng, Ullas V. Chembazhi, Sushant Bangru, Ian M. Traniello, Auinash Kalsotra, Idoia Ochoa, Mikel Hernaez. SimiC: A Single Cell Gene Regulatory Network Inference method with Similarity Constraints. bioRxiv 2020.04.03.023002; doi: https://doi.org/10.1101/2020.04.03.023002 Article Peng, J., Serrano, G., Traniello, I.M. et al. SimiC enables the inference of complex gene regulatory dynamics across cell phenotypes. Commun Biol 5, 351 (2022). https://doi.org/10.1038/s42003-022-03319-7

Versions

Version	DOI	Comment	Publication Date
1	10.13012/B2IDB-4996748_V1		2021-10-15

Files


Select all Open in Globus File Manager what's this?
simic_synthetic_datasets.tar.gz 5.52 MB File

Change Log

Contact the Research Data Service for help interpreting this log.

RelatedMaterial	create: {"material_type"=>"Article", "availability"=>nil, "link"=>"https://doi.org/10.1038/s42003-022-03319-7", "uri"=>"10.1038/s42003-022-03319-7", "uri_type"=>"DOI", "citation"=>"Peng, J., Serrano, G., Traniello, I.M. et al. SimiC enables the inference of complex gene regulatory dynamics across cell phenotypes. Commun Biol 5, 351 (2022). https://doi.org/10.1038/s42003-022-03319-7", "dataset_id"=>1744, "selected_type"=>"Article", "datacite_list"=>"IsSupplementTo"}	2022-04-15T20:12:52Z