lncRNA-screen statistics

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lncRNA-screen specifications

Information


Unique identifier OMICS_14314
Name lncRNA-screen
Software type Pipeline/Workflow
Interface Command line interface
Restrictions to use None
Input data A list of Sequence Read Archive (SRA) accession numbers or The Cancer Genome Atlas (TCGA) UUIDs matched with user-defined sample names.
Output data An interactive lncRNA report.
Output format HTML, XLS
Operating system Unix/Linux
Programming languages R
Computer skills Advanced
Stability Stable
Maintained Yes

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Documentation


Maintainer


  • person_outline Aristotelis Tsirigos <>

Additional information


https://github.com/NYU-BFX/lncRNA-screen/blob/master/README.md

Publication for lncRNA-screen

lncRNA-screen in publications

 (2)
PMCID: 5783419
PMID: 29364956
DOI: 10.1371/journal.pone.0191682

[…] were maintained as described. cells were grown for five passages, lysed and checked for successful label incorporation by ms., esirnas were synthesized as described previously []. for the lncrna screen cells were transfected with esirnas using lipofectamine 2000 (thermofisher scientific) as previously described []. gfp fluorescence and cell numbers were measured after 96 hours […]

PMCID: 5400568
PMID: 28177879
DOI: 10.18632/oncotarget.15045

[…] were performed by kangchen bio-tech, shanghai, china., two criteria were applied in the selection of genes to include in the construction of the mir-133b-mediated cerna network (figure ): (i) lncrna screen: lncrnas that were dysregulated based on a fold change of  ≥2.0 and p value<0.05 that significantly correlated with mir-133b predicted target genes; and (ii) lncrnas that possessed […]


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lncRNA-screen institution(s)
Department of Pathology, New York University School of Medicine, New York, NY, USA; NYU Cancer Institute and Helen L. and Martin S. Kimmel Center for Stem Cell Biology, New York University School of Medicine, New York, NY, USA; Department of Population Health, New York University School of Medicine, NY, USA; Goldman Sachs Group Inc, New York, NY, USA; Applied Bioinformatics Center, Office of Collaborative Science, New York University School of Medicine, NY, USA
lncRNA-screen funding source(s)
The study was supported by a Research Scholar Grant, RSG-15-189-01 - RMC from the American Cancer Society and the research program R01CA194923 and R01CA169784 from National Institute of Health (National Cancer Institute).

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