Bionimbus specifications


Unique identifier OMICS_02160
Name Bionimbus
Alternative name Bionimbus Protected Data Cloud (PDC)
Software type Framework/Library
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Parallelization MapReduce
Computer skills Advanced
Version 3.0
Stability Stable
High performance computing Yes
Registration required Yes
Maintained Yes


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  • person_outline Robert L Grossman <>
  • person_outline Team Bionimbus <>

Publication for Bionimbus

Bionimbus in publications

PMCID: 5940825
PMID: 29739930
DOI: 10.1038/s41467-018-03621-1

[…] for the project was provided by the wellcome trust under award 076113 and 085475., this work was completed in part with resources provided by the university of chicago research computing center, bionimbus, and the center for research informatics. the center for research informatics is funded by the biological sciences division at the university of chicago with additional funding provided […]

PMCID: 5367891
PMID: 28263985
DOI: 10.1371/journal.pgen.1006589

[…] differentially expressed rna processing factors., fpkms and other expression data will be available at gene expression omnibus. raw sequencing data will be hosted at the protected data cloud at bionimbus ( to obtain access to the raw sequencing data, you must have have your era, shibboleth, or oauth identifier added to the authorization list […]

PMCID: 5247451
PMID: 28164085
DOI: 10.3389/fmed.2017.00003

[…] institute, and the ontario institute for cancer research; (2) the cancer genome collaboratory (cgc), whose partners are the open cloud consortium, the ontario institute for cancer research, and the bionimbus protected data cloud; (3) mssng that partners autism speaks and google; (4) 100,000 gp which joins genomics england (ge) with abbvie, alexion pharmaceuticals, astrazeneca, berg health, […]

PMCID: 4866538
PMID: 26576852
DOI: 10.1093/molbev/msv248

[…] was first sequenced in a single lane of illumina hiseq2000 producing 50-bp single end reads. a 100-bp paired-end sequencing was performed in multiple lanes., data analysis was performed on the bionimbus cloud (, an open science data cloud project focused on biological data, especially next generation sequencing data. fastx toolkit […]

PMCID: 4576704
PMID: 26044351
DOI: 10.1093/molbev/msv136

[…] of genomic and systems biology at the university of chicago. the 100-bp single and paired-end reads for each library were generated using an illumina hiseq2000. data analysis was performed on the bionimbus cloud of the open science data cloud (, last accessed june 15, 2015). fastx toolkit was implemented to check the quality of each read. reads […]

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Bionimbus institution(s)
Institute for Genomics and Systems Biology, University of Chicago, Chicago, IL, USA; Computation Institute, University of Chicago, Chicago, IL, USA; Department of Human Genetics, University of Chicago, Chicago, IL, USA; Section of Genetic Medicine, Department of Medicine, University of Chicago, Chicago IL, USA
Bionimbus funding source(s)
Supported by part by the US National Institutes of Health (NIH/SAIC contract 13XS021/HHSN261200800001E and NIMH/NIH P50MH094267).

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