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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 citations


Integrating Neural Circuits Controlling Female Sexual Behavior

Front Syst Neurosci
PMCID: 5462959
PMID: 28642689
DOI: 10.3389/fnsys.2017.00042

[…] nsen 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 has more mushroom- […]


Constrained Allocation Flux Balance Analysis

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

[…] together, 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 rat […]


Exhaustive Analysis of a Genotype Space Comprising 1015 Central Carbon Metabolisms Reveals an Organization Conducive to Metabolic Innovation

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

[…] ive 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 [] and Thermopla […]


Elementary Flux Mode Analysis Revealed Cyclization Pathway as a Powerful Way for NADPH Regeneration of Central Carbon Metabolism

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

[…] 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 an […]


Impact of a deletion of the full length and short isoform of p75NTR on cholinergic innervation and the population of postmitotic doublecortin positive cells in the dentate gyrus

Front Neuroanat
PMCID: 4444824
PMID: 26074780
DOI: 10.3389/fnana.2015.00063

[…] se spine densities are different in these locations and no subdivision into different types of spines [filopodia, stubby, thin, and mushroom, which reflect temporal snapshots of a dynamic phenomenon (Parnass et al., )] was made as outlined previously in detail (von Bohlen und Halbach et al., ). Analyses were conducted on Golgi-impregnated sections that were uniformly dark throughout the section. O […]


Non‐enzymatic glycolysis and pentose phosphate pathway‐like reactions in a plausible Archean ocean

Mol Syst Biol
PMCID: 4023395
PMID: 24771084
DOI: 10.1002/msb.20145228

[…] The biosynthetic machinery of the modern cell is dependent on a series of sugar phosphate metabolites. Known as glycolysis (Embden‐Meyerhof‐Parnass pathway) and the pentose phosphate pathway, sugar phosphates metabolites are interconverted through common and conserved reaction sequences. Glycolysis and the pentose phosphate pathway overla […]

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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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