DNorm protocols

View DNorm computational protocol

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DNorm specifications

Information


Unique identifier OMICS_09127
Name DNorm
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

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Maintainer


  • person_outline Zhiyong Lu <>

Publication for DNorm

DNorm in pipelines

 (5)
2017
PMCID: 5414807
PMID: 28529714
DOI: 10.12688/f1000research.10788.1

[…] results is evaluated, the idea being that a result that is supported by many workers is most likely to be correct. like in burger et al. , li et al. also incorporated text mining tools tmchem and dnorm in addition to the wisdom of the crowd to identify associations between chemical substances and diseases from text., the review articles and together with provide more information […]

2017
PMCID: 5635478
PMID: 29090077
DOI: 10.1155/2017/7575280

[…] freeling-med, metamap (https://metamap.nlm.nih.gov), medlee (http://www.medlingmap.org/taxonomy/term/80), tmchem (https://www.ncbi.nlm.nih.gov/cbbresearch/lu/demo/tmtools/tmchem.html), dnorm (https://www.ncbi.nlm.nih.gov/cbbresearch/lu/demo/tmtools/dnorm.html), gate (https://gate.ac.uk), or stanford corenlp tool (http://stanfordnlp.github.io/corenlp). from , by employing medical […]

2017
PMCID: 5737205
PMID: 29220457
DOI: 10.1093/database/bax062

[…] is then transformed through the query expansion & modification module., first, as illustrated in , this module processes the query in parallel with four sub-components, category identification, dnorm (), gennorm () and linnaeus (). the category identification tools identifies what type of data are targeted by the query, and the other tools tag mentions of biological entities including […]

2017
PMCID: 5737205
PMID: 29220457
DOI: 10.1093/database/bax062

[…] the results obtained in the previous subsection gave us the intuition that led us to propose our strategy for a multi-field query builder. recall that the query is processed by three sub-components, dnorm, gennorm and linnaeus, which, respectively, identify diseases, genes and organisms mentioned in the query. once done, a new query is built as follows: the title, description and article title […]

2016
PMCID: 5130168
PMID: 27902695
DOI: 10.1371/journal.pcbi.1005017

[…] relationships between genes, variants, drugs, and cell lines from the full text of 108 articles []. finally, this proposed framework directly uses several state-of-the-art tools (like tmvar, dnorm and gnormplus). future advances in the respective domains of these tools would enable increased performance of the proposed approach. this study has been helpful to excavate several examples […]


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DNorm in publications

 (91)
PMCID: 5784174
PMID: 29367667
DOI: 10.1038/s41598-017-19122-y

[…] (15)., if fanti ≤ fali,  antlionsi = anti (using eq. (12)), end if, end for, t = t + 1,  until (t < itermax), return elite x, algorithm 3: anfis(dtain).normalize the training set (dtain) to be dnorm.construct the anfis network with gaussian mf.docompute the membership values for each node in the first layercomputes the firing strength of the rule for each node in the second layercompute […]

PMCID: 5774707
PMID: 29351282
DOI: 10.1371/journal.pone.0190016

[…] onsets. the process was repeated for several aps in an individual intracellular recording, and the best ap-sejp pairs in that recording were shortlisted based on the normalized distance measure dnorm = d/l where l was the length of the ap foot. the mean value of the sejp and nap vectors of the shortlisted pairs were treated as the prototype sejp and nap shapes for that recording. similarly, […]

PMCID: 5820094
PMID: 29492354
DOI: 10.7759/cureus.1965

[…] background signals. the function “t.test” (in the “stats” package) was used to perform the welch’s t-tests. gaussian kernels (mean, µ = 0, standard deviation, σ) were calculated with the function “dnorm” (in the “stats” package). the function “lm” (in the “stats” package) was used to perform linear regression., example results with background subtraction, we first tested whether […]

PMCID: 5705164
PMID: 29182675
DOI: 10.1371/journal.pone.0188660

[…] , next the model is specified as a text file within r, in our case saved with the name “model_string1.0”:, # model specification in jags syntax , model_string1.0 <- "model{ ,     b0 ~ dnorm(0, 0.1) ,     b1 ~ dnorm(0, 0.1) ,     b2 ~ dnorm(0, 0.1) ,     b3 ~ dnorm(0, 0.1) ,     b4 ~ dnorm(0, 0.1) ,     b5 ~ dnorm(0, 0.1) ,     b6 ~ dnorm(0, 0.1) ,     tau ~ dgamma(0.1, […]

PMCID: 5765481
PMID: 29027729
DOI: 10.1002/rcm.8013

[…] that s had a prior distribution that was normal, with a mean of 1.035 and with a standard deviation of 0.01 (precision = 10000), giving 99% confidence limits of 1.005 and 1.065. therefore: s∼dnorm1.035,10000. , all the measured δ values were assumed to be normally distributed about the experimental value, with a prior standard deviation of 2 ‰ for 2h and 0.5 ‰ for 18o., […]


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DNorm institution(s)
National Center for Biotechnology Information, Rockville Pike, Bethesda, MD, USA; Department of Biomedical Informatics, Arizona State University, East Shea Blvd, Scottsdale, AZ, USA

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