Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: bioconductor: AlphaBeta

https://packages.ecosyste.ms/registries/bioconductor.org/packages/AlphaBeta

Computational inference of epimutation rates and spectra from high-throughput DNA methylation data in plants
1 version
Latest release: about 1 year ago
5,918 downloads total

Papers Mentioning AlphaBeta 7

10.1186/s13059-020-02162-5

A genome assembly and the somatic genetic and epigenetic mutation rate in a wild long-lived perennial Populus trichocarpa
Cited by: 58
Author(s): Brigitte T. Hofmeister, Johanna Denkena, Maria Colomé-Tatché, Yadollah Shahryary, Rashmi R. Hazarika, Jane Grimwood, Sujan Mamidi, Jerry Jenkins, Paul Grabowski, Avinash Sreedasyam, Shengqiang Shu, Kerrie Barry, Kathleen Lail, Catherine Adam, Anna Lipzen, Rotem Sorek, Dave Kudrna, Jayson Talag, Rod A. Wing, David W. Hall, Daniel Jacobsen, Gerald A. Tuskan, Jeremy Schmutz, Frank Johannes, Robert J. Schmitz
Software Mentions: 3
Published: about 4 years ago

10.1186/s13059-020-02161-6

AlphaBeta: computational inference of epimutation rates and spectra from high-throughput DNA methylation data in plants
Cited by: 22
Author(s): Yadollah Shahryary, Aikaterini Symeonidi, Rashmi R. Hazarika, Johanna Denkena, Talha Mubeen, Brigitte T. Hofmeister, Thomas van Gurp, Maria Colomé-Tatché, Koen Verhoeven, Gerald A. Tuskan, Robert J. Schmitz, Frank Johannes
Software Mentions: 2
Published: about 4 years ago

10.1038/srep25559

Rational design of mutations that change the aggregation rate of a protein while maintaining its native structure and stability
Cited by: 48
Author(s): Carlo Camilloni, Benedetta Maria Sala, Pietro Sormanni, Riccardo Porcari, Alessandra Corazza, Matteo de Rosa, Stefano Zanini, Alberto Barbiroli, Gennaro Esposito, Martino Bolognesi, Vittorio Bellotti, Michele Vendruscolo, Stéfano Ricagno
Software Mentions: 2
Published: over 8 years ago

10.3390/genes11070790

Single-Step Genomic Evaluations from Theory to Practice: Using SNP Chips and Sequence Data in BLUPF90
Cited by: 68
Author(s): Daniela Lourenço, Andrés Legarra, S. Tsuruta, Yutaka Masuda, Ignácio Aguilar, I. Misztal
Software Mentions: 1
Published: over 4 years ago

10.1186/s13062-016-0173-y

Thermodynamic and kinetic stability of the Josephin Domain closed arrangement: evidences from replica exchange molecular dynamics
Cited by: 13
Author(s): Gianvito Grasso, Jack A. Tuszyński, Umberto Morbiducci, Ginevra Licandro, Andrea Danani, Marco Agostino Deriu
Software Mentions: 1
Published: almost 8 years ago

10.1038/s41437-021-00441-w

Region-level epimutation rates in Arabidopsis thaliana
Cited by: 19
Author(s): Johanna Denkena, Frank Johannes, Maria Colomé-Tatché
Software Mentions: 1
Published: over 3 years ago

10.1038/srep15449

The inverted free energy landscape of an intrinsically disordered peptide by simulations and experiments
Cited by: 109
Author(s): Daniele Granata, Fahimeh Baftizadeh, Johnny Habchi, Céline Galvagnion, Alfonso De Simone, Carlo Camilloni, Alessandro Laio, Michele Vendruscolo
Software Mentions: 1
Published: about 9 years ago