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paRNAss specifications


Unique identifier OMICS_26166
Name paRNAss
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Maintained Yes


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  • person_outline Robert Giegerich <>

Publication for paRNAss

paRNAss in publications

PMCID: 5462959
PMID: 28642689
DOI: 10.3389/fnsys.2017.00042

[…] et al., ). such filopodial spines are highly labile, rapidly appearing and disappearing during intense neural activity until they are stabilized by contacting an appropriate presynaptic partner (parnass et al., ; grutzendler et al., ; trachtenberg et al., ). at approximately 24 h, a time point at which lordosis can be elicited by prior progesterone treatment, the population […]

PMCID: 4927118
PMID: 27355325
DOI: 10.1371/journal.pcbi.1004913

[…] for all carbon sources, results point to two distinct types of behaviors arising, respectively, below and above λac., the entner-doudoroff (ed) pathway, an alternative to the embden-meyerhoff-parnass (emp) pathway, is used in e. coli for glucose catabolism at high growth rates [, ]. cafba solutions reproduce this feature, relying on the ed pathway from medium (λ ≃ 0.3/h) to high growth […]

PMCID: 4559319
PMID: 26335276
DOI: 10.1186/s12859-015-0706-x

[…] the dataset of rnatabupath (table 1 of []). the target structures of the seventeen sets (from alpha operon to thim leader) are taken from the dataset of rnatabupath [] which contains the dataset of parnass []; the metastable structures of rb1, rb2, rb3, rb4 [], and rb5 [] are taken from the literature. the means and medians are those for the seventeen sets of target structures (the result […]

PMCID: 4529314
PMID: 26252881
DOI: 10.1371/journal.pcbi.1004329

[…] phosphorylation pathway participate in production of atp from nadh ()., not all organisms contain all reactions associated with central carbon metabolism. for example, although the embden–meyerhoff–parnass (emp) glycolytic pathway () is nearly ubiquitous among eukaryotes, prokaryotes can use diverse natural glycolytic alternatives [–]. archaebacteria like sulfolobus solfataricus [] […]

PMCID: 4472234
PMID: 26086807
DOI: 10.1371/journal.pone.0129837

[…] certain gluconeogenesis pathways., the metabolic networks for efm computing and subsequent analyses are detailed in . specifically, the total network includes the following pathways: embden-meyerhof-parnass pathway, the pentose phosphate pathway, the tricarboxylic acid cycle, the anaplerotic pathway, the entner-doudoroff (ed) pathway, the central nitrogen metabolism pathway, exchange reactions […]

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paRNAss institution(s)
University Bielefeld, Bielefeld, Germany; National Research Center for Environment and Health (GSF), Department MIPS, Martinsried, Germany; Deutsches Krebsforschungszentrum(DKFZ), Abt. Theoretische Bioinformatik, Heidelberg, Germany

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