scholarly journals Correction: SARS-CoV-2 transmission routes from genetic data: A Danish case study

PLoS ONE ◽  
2021 ◽  
Vol 16 (12) ◽  
pp. e0261892
Author(s):  
Keyword(s):  
Genetic Data

scholarly journals Identification and Correction of Sample Mix-Ups in Expression Genetic Data: A Case Study

2015 ◽  
Vol 5 (10) ◽  
pp. 2177-2186 ◽  
Author(s):  
Karl W. Broman ◽  
Mark P. Keller ◽  
Aimee Teo Broman ◽  
Christina Kendziorski ◽  
Brian S. Yandell ◽  
...  
Keyword(s):  
Genetic Data

Is there a better chela to use for geometric morphometric differentiation in brachyuran crabs? A case study using Pachygrapsus marmoratus and Carcinus maenas

2008 ◽  
Vol 88 (5) ◽  
pp. 941-953 ◽  
Author(s):  
Inês C. Silva ◽  
José Paula
Keyword(s):  
Carcinus Maenas ◽  
Genetic Data ◽  
Geometric Morphometric ◽  
Morphometric Methods ◽  
Pachygrapsus Marmoratus ◽  
Brachyuran Crabs ◽  
The Right ◽  
Geographical Locations ◽  
Shape Differentiation

Landmark-based geometric morphometric methods were used to test which chela is most suitable to use in population differentiation of brachyuran crabs. Two species were analysed: Pachygrapsus marmoratus, a homochelous species, and Carcinus maenas, a heterochelous species. Variance analysis of shape variables and of each chela was calculated to determine which claw presents less variation within populations. The results showed that the right chela of P. marmoratus is more appropriate to use when the goal is to differentiate populations. In C. maenas, the males major chela and females right chela are more suitable to use, probably due to its heterochely. To test these results, specimens from different geographical locations were compared. Pachygrapsus marmoratus populations presented significant differences in manus shape, and C. maenas populations had differences in polex size and shape. Differences in carapace shape were also encountered between populations of both species. This phenotypic variation was not corroborated with genetic data, which were obtained using the mitochondrial DNA gene cytochrome oxidase I as a marker. These opposite results suggest that environmental factors, such as diet and parasitism, can be determining shape differentiation.

scholarly journals AutoAnalyze in Systems Biology

2019 ◽  
Vol 13 ◽  
pp. 117793221881845
Author(s):  
Christian Saad ◽  
Bernhard Bauer ◽  
Ulrich R Mansmann ◽  
Jian Li
Keyword(s):  
Large Scale ◽  
Genetic Data ◽  
Global Network ◽  
Molecular Networks ◽  
Scale Model ◽  
Efficient Computation ◽  
Efficient Treatment ◽  
Large Scale Model ◽  
Reaction Equations

AutoAnalyze is a highly customizable framework for the visualization and analysis of large-scale model graphs. Originally developed for use in the automotive domain, it also supports efficient computation within molecular networks represented by reaction equations. A static analysis approach is used for efficient treatment-condition-specific simulation. The chosen method relies on the computation of a global network data-flow resulting from the evaluation of individual genetic data. The approach facilitates complex analyses of biological components from a molecular network under specific therapeutic perturbations, as demonstrated in a case study. In addition to simulating the complex networks in a stable and reproducible way, kinetic constants can also be fine-tuned using a genetic algorithm and built-in statistical tools.

Shaping the Evolution of Regime Complex

2019 ◽  
Vol 25 (4) ◽  
pp. 645-669
Author(s):  
Hanzhi Yu ◽  
Lan Xue
Keyword(s):  
Evolutionary Dynamics ◽  
Genetic Data ◽  
Institutional Logics ◽  
Analysis Framework ◽  
Evolutionary Pattern ◽  
The Core ◽  
Regime Complex ◽  
Set Up ◽  
Specific Contribution

Abstract Regime complex has been widely recognized in many governance issues, but the evolutionary dynamics in regime complex are largely overlooked. This article explores the evolutionary dynamics by conducting a case study on the regime complex for human genetic data, which has evolved as an alternation between stable and unstable periods, known as punctuated equilibrium. Given that existing theories fail to explain the evolutionary pattern, a multiactor analysis framework is set up with the core argument that the evolution of regime complex is shaped by interactions between governance issues outside the regime complex, and a combination of actor power and institutional logics within them. Besides its specific contribution to the literature on regime complex, this article has general implications for research in global governance.

scholarly journals SARS-CoV-2 transmission routes from genetic data: A Danish case study

PLoS ONE ◽  
2020 ◽  
Vol 15 (10) ◽  
pp. e0241405
Author(s):  
Andreas Bluhm ◽  
Matthias Christandl ◽  
Fulvio Gesmundo ◽  
Frederik Ravn Klausen ◽  
Laura Mančinska ◽  
...  
Keyword(s):  
Genetic Data

scholarly journals SARS-CoV-2 transmission chains from genetic data: a Danish case study

2020 ◽  
Author(s):  
Andreas Bluhm ◽  
Matthias Christandl ◽  
Fulvio Gesmundo ◽  
Frederik Ravn Klausen ◽  
Laura Mančinska ◽  
...  
Keyword(s):  
Genetic Data ◽  
The Other ◽  
Contact Tracing ◽  
Virus Spread ◽  
Genome Sequences ◽  
Alternative Means ◽  
The Common ◽  
Second Wave ◽  
Opening Up

AbstractBackgroundThe COVID-19 pandemic caused by the SARS-CoV-2 virus started in China in December 2019 and has since spread globally. Information about the spread of the virus in a country can inform the gradual reopening of a country and help to avoid a second wave of infections. Denmark is currently opening up after a lockdown in mid-March.MethodsWe perform a phylogenetic analysis of 742 publicly available Danish SARS-CoV-2 genome sequences and put them into context using sequences from other countries.ResultOur findings are consistent with several introductions of the virus to Denmark from independent sources. We identify several chains of mutations that occurred in Denmark and in at least one case find evidence that the virus spread from Denmark to other countries. A number of the mutations found in Denmark are non-synonymous, and in general there is a considerable variety of strains. The proportions of the most common haplotypes is stable after lockdown.ConclusionOur work shows how genetic data can be used to identify routes of introduction of a virus into a region and provide alternative means for verifying existing assumptions. For example, our analysis supports the hypothesis that the virus was brought to Denmark by skiers returning from Ischgl. On the other hand, we identify transmission chains suggesting that Denmark was part of a network of countries among which the virus was being transmitted; thus challenging the common narrative that Denmark only got infected from abroad. Our analysis does not indicate that the major haplotypes appearing in Denmark have a different degree of virality. Our methods can be applied to other countries, regions or even highly localised outbreaks. When used in real-time, we believe they can serve to identify transmission events and supplement traditional methods such as contact tracing.

Sub-sampling Genetic Data to Estimate Black Bear Population Size: A Case Study

Ursus ◽  
2007 ◽  
Vol 18 (2) ◽  
pp. 179-188 ◽  
Author(s):  
Catherine A. Tredick ◽  
Michael R. Vaughan ◽  
Dean F. Stauffer ◽  
Stephanie L. Simek ◽  
Thomas Eason
Keyword(s):  
Population Size ◽  
Black Bear ◽  
Genetic Data

The Genesis and Internal Dynamics of El Salvador's People's Revolutionary Army, 1970–1976

2014 ◽  
Vol 38 (01) ◽  
pp. 102-129
Author(s):  
ALBERTO MARTÍN ÁLVAREZ ◽  
EUDALD CORTINA ORERO
Keyword(s):  
Latin America ◽  
El Salvador ◽  
Early Years ◽  
Left Wing ◽  
Internal Dynamics ◽  
Internal Coherence ◽  
The 1960S

AbstractUsing interviews with former militants and previously unpublished documents, this article traces the genesis and internal dynamics of the Ejército Revolucionario del Pueblo (People's Revolutionary Army, ERP) in El Salvador during the early years of its existence (1970–6). This period was marked by the inability of the ERP to maintain internal coherence or any consensus on revolutionary strategy, which led to a series of splits and internal fights over control of the organisation. The evidence marshalled in this case study sheds new light on the origins of the armed Salvadorean Left and thus contributes to a wider understanding of the processes of formation and internal dynamics of armed left-wing groups that emerged from the 1960s onwards in Latin America.

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