PROGNOS statistics

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Citations per year

Number of citations per year for the bioinformatics software tool PROGNOS
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Tool usage distribution map

This map represents all the scientific publications referring to PROGNOS per scientific context
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Associated diseases

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Popular tool citations

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Protocols

PROGNOS specifications

Information


Unique identifier OMICS_10631
Name PROGNOS
Alternative name Predicted Report Of Genome-wide Nuclease Off-target Sites
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Perl
License MIT License
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Bacteria
    • Escherichia coli
  • Invertebrates
    • Caenorhabditis elegans
    • Drosophila melanogaster
  • Plants and Fungi
    • Arabidopsis thaliana
    • Saccharomyces cerevisiae
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus
  • Vertebrates
    • Danio rerio

Versioning


No version available

Maintainer


  • person_outline Gang Bao

Information


Unique identifier OMICS_10631
Name PROGNOS
Alternative name Predicted Report Of Genome-wide Nuclease Off-target Sites
Interface Web user interface
Restrictions to use None
Programming languages Perl
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Bacteria
    • Escherichia coli
  • Invertebrates
    • Caenorhabditis elegans
    • Drosophila melanogaster
  • Plants and Fungi
    • Arabidopsis thaliana
    • Saccharomyces cerevisiae
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus
  • Vertebrates
    • Danio rerio

Maintainer


  • person_outline Gang Bao

Publication for Predicted Report Of Genome-wide Nuclease Off-target Sites

PROGNOS citations

 (29)
library_books

Cattle with a precise, zygote mediated deletion safely eliminate the major milk allergen beta lactoglobulin

2018
Sci Rep
PMCID: 5955954
PMID: 29769555
DOI: 10.1038/s41598-018-25654-8

[…] LGB knockout cattle with the bovine reference genome to identify sequence variations that were then correlated with the juxtaposition of degenerate binding sites for each of our TALEN monomers using PROGNOS. This identified a total of 316 potential off-target sites considering hetero- and homodimeric TALEN pairs. The distributions of these sites across the different degeneracy levels are summariz […]

library_books

Deletion of a Pathogenic Mutation Containing Exon of COL7A1 Allows Clonal Gene Editing Correction of RDEB Patient Epidermal Stem Cells

2018
Mol Ther Nucleic Acids
PMCID: 5852297
DOI: 10.1016/j.omtn.2018.01.009

[…] and c.6503_6511del9 (9-bp deletion) alleles in these cells ().Figure 3To assess the specificity of TALENs activity, we identified genomic sites with the potential for off-target cleavage by using the PROGNOS software that ranks sites according to number of mismatches relative to the intended target sequence and repeat variable diresidue (RVD)-nucleotide binding frequencies. The presence of indel m […]

library_books

Therapeutic gene editing in CD34+ hematopoietic progenitors from Fanconi anemia patients

2017
PMCID: 5666315
PMID: 28899930
DOI: 10.15252/emmm.201707540

[…] Among the different AAVS1 off‐targets that were identified by Mussolino et al () using the bioinformatic tool PROGNOS, we studied five that have also been experimentally validated: ATRNL1, BEGAIN, CHRAC1, H19, and LINC00548.Genomic DNA from CD34+ cells targeted with the PGK‐EGFP IDLV, together with AAVS1‐ZFNs […]

library_books

A meta‐analysis: microRNAs’ prognostic function in patients with nonsmall cell lung cancer

2017
PMCID: 5603832
PMID: 28809453
DOI: 10.1002/cam4.1158

[…] iteratures carried out on human subject and publication before March 31, 2017. The key words for the literature retrieval strategy included “microRNA,” “miRNA,” “nonsmall cell lung cancer,” “NSCLC,” “prognos,*” “survi,*” “Kaplan–Meier,” and “HR”. The search was further restricted to English‐language articles and human subjects. All references from eligible publications in the literature were scree […]

library_books

The Dkk3 gene encodes a vital intracellular regulator of cell proliferation

2017
PLoS One
PMCID: 5524345
PMID: 28738084
DOI: 10.1371/journal.pone.0181724

[…] sequencing of PCR products generated with primers LL (nt7259-nt7284) and RR (nt9058-nt9027) located 166 nt and 444 nt respectively, outside the HR region.Predicted off-target sites were identified by PROGNOS []. Potential off-target sites were PCR amplified from liver gDNA (founder #19) and cloned into the pCR4 vector (Life Technologies). Eight to twelve independent clones of each potential off-ta […]

library_books

Increased serum concentrations of IL 1 beta, IL 21 and Th17 cells in overweight patients with rheumatoid arthritis

2017
PMCID: 5452609
PMID: 28569167
DOI: 10.1186/s13075-017-1308-y

[…] contribute to the pathogenesis of RA in the overweight patients. As the relationship between obesity and progression of bone damage is controversial [–], the relationship between BMI and radiological prognos is needs to be elucidated in several different cohorts.Obesity has recently been thought to be a chronic inflammation process. Adipose tissue is an endocrine/paracrine organ and secretes pro-i […]


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PROGNOS institution(s)
Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA, USA
PROGNOS funding source(s)
National Institutes of Health (NIH Nanomedicine Development Center Award; grant number PN2EY018244); National Science Foundation Graduate Research Fellowship (DGE-1148903)

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